diff --git a/apps/iatlas/app/.Rbuildignore b/apps/iatlas/app/.Rbuildignore new file mode 100644 index 0000000000..891876c30c --- /dev/null +++ b/apps/iatlas/app/.Rbuildignore @@ -0,0 +1,20 @@ +^renv$ +^renv\.lock$ +^.*\.Rproj$ +^\.Rproj\.user$ +^LICENSE\.md$ +.gitlab-ci.yml +^\.Rprofile$ + +Dockerfile.build +css +global.R +index.html +init.R +install_and_init.R +markdown +rsconnect +server.R +ui.R +www +^\.github$ diff --git a/apps/iatlas/app/.Rprofile b/apps/iatlas/app/.Rprofile new file mode 100644 index 0000000000..7a4ae36fce --- /dev/null +++ b/apps/iatlas/app/.Rprofile @@ -0,0 +1,43 @@ +if (file.exists("renv/activate.R")) { + source("renv/activate.R") + + cat(" +-------------------------------------------------------------------------------- +Welcome to the CRI iAtlas Shiny App +-------------------------------------------------------------------------------- +\n") + + if (length(find.package("devtools", quiet=T)) == 0 || length(find.package("renv", quiet=T)) == 0) { + # prompt instead since RStudio won't show progress for slow .RProfile scripts... + cat("TODO: Install package requirements. This may take up to an hour the first time.\n") + cat("RUN: source('./install_and_init.R')\n") + } else { + # auto-run since it should be quick, but makes sure any new requirements are installed. + source('./install_and_init.R') + } +} else if (Sys.getenv("R_CONFIG_ACTIVE") == "shinyapps") { + cat(" +-------------------------------------------------------------------------------- +CRI iAtlas Shiny App: Production +-------------------------------------------------------------------------------- +\n") + source('./init.R') +} + +# For Ubuntu 18.04 (also known as Bionic) +options(repos = c( + REPO_NAME = "https://packagemanager.rstudio.com/all/__linux__/bionic/latest", + getOption("repos") +)) + +# For Ubuntu 20.04 (also known as Focal) +options(repos = c( + REPO_NAME = "https://packagemanager.rstudio.com/all/__linux__/focal/latest", + getOption("repos") +)) + +if (interactive()) { + suppressMessages(require(devtools)) + suppressMessages(require(testthat)) + suppressMessages(require(usethis)) +} diff --git a/apps/iatlas/app/.gitignore b/apps/iatlas/app/.gitignore new file mode 100644 index 0000000000..ba2c1e42bf --- /dev/null +++ b/apps/iatlas/app/.gitignore @@ -0,0 +1,11 @@ +.Rproj.user +.Rhistory +.RData +.Ruserdata +.DS_Store +rsconnect/ +tests/testthat/helper-a_use_dev_globals.R +.mailmap +inst/extdata/* +tracks +app_config.yml diff --git a/apps/iatlas/app/DESCRIPTION b/apps/iatlas/app/DESCRIPTION new file mode 100644 index 0000000000..2d2eb6fc9c --- /dev/null +++ b/apps/iatlas/app/DESCRIPTION @@ -0,0 +1,73 @@ +Package: iatlas.app +Title: What the Package Does (One Line, Title Case) +Version: 0.0.0.9000 +Authors@R: + person(given = "First", + family = "Last", + role = c("aut", "cre"), + email = "first.last@example.com", + comment = c(ORCID = "YOUR-ORCID-ID")) +Description: What the package does (one paragraph). +License: MIT + file LICENSE +Encoding: UTF-8 +LazyData: true +Suggests: + crayon, + devtools, + memoise (>= 2.0), + renv, + rsconnect, + testthat (>= 3.0.0), + usethis +Config/testthat/edition: 3 +RoxygenNote: 7.2.0 +biocViews: +Imports: + arrow, + broom, + caret, + concordanceIndex, + cyjShiny, + dplyr, + DT, + ggplot2, + ggmosaic, + glmnet, + grDevices, + grid, + grImport2, + iatlasGraphQLClient, + iatlas.modules, + iatlas.modules2, + igvShiny, + ImmuneSubtypeClassifier, + lazyeval, + magrittr, + plotly, + pROC, + purrr, + RColorBrewer, + readr, + rlang, + sortable, + shiny, + shinycssloaders, + shinydashboard, + shinyjs, + stringr, + survival, + survminer, + tibble, + tidyr, + tidyselect, + utils, + viridis, + wrapr +Remotes: + CRI-iAtlas/iatlasGraphQLClient@main, + CRI-iAtlas/iatlas.modules@master, + CRI-iAtlas/iatlas.modules2@master, + CRI-iAtlas/ImmuneSubtypeClassifier@master, + th86/concordanceIndex@master, + cytoscape/cyjShiny@master, + paul-shannon/igvShiny@master diff --git a/apps/iatlas/app/Dockerfile b/apps/iatlas/app/Dockerfile new file mode 100644 index 0000000000..5e706b6966 --- /dev/null +++ b/apps/iatlas/app/Dockerfile @@ -0,0 +1,25 @@ +FROM r-base:4.2.3 + +# Install supporting packages +RUN apt-get -y update && apt-get -y --no-install-recommends install \ + build-essential \ + gettext-base \ + libcurl4-openssl-dev \ + libnode-dev \ + libpq-dev \ + libssl-dev \ + libv8-dev \ + libxml2-dev \ + postgresql-client-16 \ + # Cleanup + && apt-get -y autoclean \ + && apt-get -y autoremove \ + && rm -rf /var/lib/apt/lists/* + +WORKDIR /opt/app +COPY renv.lock . +COPY renv/activate.R renv/activate.R + +# Resolve dependencies +RUN R -e "options(pkgType = 'binary'); install.packages('V8', type = 'source')" +# RUN R -e "options(pkgType='binary'); source('renv/activate.R'); renv::restore()" \ No newline at end of file diff --git a/apps/iatlas/app/LICENSE b/apps/iatlas/app/LICENSE new file mode 100644 index 0000000000..1681d96b18 --- /dev/null +++ b/apps/iatlas/app/LICENSE @@ -0,0 +1,2 @@ +YEAR: 2022 +COPYRIGHT HOLDER: CRI iAtlas Developers diff --git a/apps/iatlas/app/LICENSE.md b/apps/iatlas/app/LICENSE.md new file mode 100644 index 0000000000..4b05410ec2 --- /dev/null +++ b/apps/iatlas/app/LICENSE.md @@ -0,0 +1,21 @@ +# MIT License + +Copyright (c) 2022 CRI iAtlas Developers + +Permission is hereby granted, free of charge, to any person obtaining a copy +of this software and associated documentation files (the "Software"), to deal +in the Software without restriction, including without limitation the rights +to use, copy, modify, merge, publish, distribute, sublicense, and/or sell +copies of the Software, and to permit persons to whom the Software is +furnished to do so, subject to the following conditions: + +The above copyright notice and this permission notice shall be included in all +copies or substantial portions of the Software. + +THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR +IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, +FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE +AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER +LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, +OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE +SOFTWARE. diff --git a/apps/iatlas/app/NAMESPACE b/apps/iatlas/app/NAMESPACE new file mode 100644 index 0000000000..d5700f4ae4 --- /dev/null +++ b/apps/iatlas/app/NAMESPACE @@ -0,0 +1,8 @@ +# Generated by roxygen2: do not edit by hand + +importFrom(dplyr,filter) +importFrom(dplyr,pull) +importFrom(dplyr,select) +importFrom(dplyr,slice) +importFrom(magrittr,"%>%") +importFrom(rlang,.data) diff --git a/apps/iatlas/app/R/.DS_Store b/apps/iatlas/app/R/.DS_Store new file mode 100644 index 0000000000..b49b23ac71 Binary files /dev/null and b/apps/iatlas/app/R/.DS_Store differ diff --git a/apps/iatlas/app/R/barplot.R b/apps/iatlas/app/R/barplot.R new file mode 100644 index 0000000000..8118b607f2 --- /dev/null +++ b/apps/iatlas/app/R/barplot.R @@ -0,0 +1,122 @@ +create_barplot <- function( + df, + x_col = "x", + y_col = "y", + error_col = "error", + key_col = NA, + color_col = NA, + label_col = NA, + xlab = "", + ylab = "", + title = "", + source_name = NULL, + bar_colors = NULL, + showlegend = T) { + + if(is.na(key_col)) key_col <- x_col + if(is.na(color_col)) color_col <- x_col + if(is.na(label_col)) label_col <- x_col + + if (is.null(bar_colors)) { + bar_colors <- viridis::viridis_pal(option = "D")(dplyr::n_distinct(df[[color_col]])) + } + wrapr::let( + alias = c( + X = x_col, + Y = y_col, + KEY = key_col, + COLOR = color_col, + ERROR = error_col, + LABEL = label_col), + plotly::plot_ly( + df, + x = ~X, + y = ~Y, + color = ~COLOR, + text = ~LABEL, + textposition = 'none', + key = ~KEY, + type = 'bar', + source = source_name, + colors = bar_colors, + error_y = list( + array = ~ERROR, + color = 'black', + thickness = 1), + hoverinfo = 'text', + showlegend = showlegend + )) %>% + plotly::layout( + legend = list(orientation = 'h', x = 0, y = 1), + title = title, + xaxis = list(title = xlab), + yaxis = list(title = ylab) + ) %>% + format_plotly() + +} + +create_barplot_horizontal <- function(df, + x_col = "x", + y_col = "y", + error_col = "error", + key_col = NA, + color_col = NA, + label_col = NA, + order_by = NULL, + xlab = "", + ylab = "", + title = "", + showLegend = TRUE, + legendTitle = " ", + source_name = NULL, + bar_colors = NULL){ + if(is.na(key_col)) key_col <- x_col + if(is.na(color_col)) color_col <- x_col + if(is.na(label_col)) label_col <- x_col + + if (is.null(bar_colors)) { + bar_colors <- viridis::viridis_pal(option = "D")(dplyr::n_distinct(df[[color_col]])) + } + wrapr::let( + alias = c( + X = x_col, + Y = y_col, + KEY = key_col, + COLOR = color_col, + ERROR = error_col, + LABEL = label_col), + plotly::plot_ly( + df, + x = ~X, + y = ~Y, + color = ~COLOR, + text = ~LABEL, + textposition = 'none', + key = ~KEY, + type = 'bar', + source = source_name, + colors = bar_colors, + orientation = 'h', + error_x = list( + visible = T, + type = "data", + array = ~ERROR, + color = 'black', + thickness = 1), + hoverinfo = 'text' + )) %>% + plotly::layout( + title = title, + xaxis = list(title = xlab), + yaxis = list(title = ylab, + categoryorder = "array", + categoryarray = ~order_by), + showlegend = showLegend, + legend = list(orientation = 'h', x = 0, y = 1, + title = list(text = legendTitle) + ) + ) %>% + format_plotly() + +} diff --git a/apps/iatlas/app/R/boxplot.R b/apps/iatlas/app/R/boxplot.R new file mode 100644 index 0000000000..9f03232e45 --- /dev/null +++ b/apps/iatlas/app/R/boxplot.R @@ -0,0 +1,117 @@ +create_boxplot <- function( + df, + x_col = "x", + y_col = "y", + key_col = NA, + color_col = NA, + label_col = NA, + split_col = NA, + xlab = "", + ylab = "", + title = "", + source_name = NULL, + custom_data = "", + fill_colors = NA, + showlegend = T){ + + if(is.na(key_col)) key_col <- x_col + if(is.na(color_col)) color_col <- x_col + if(is.na(label_col)) label_col <- x_col + if(is.na(split_col)) split_col <- x_col + + wrapr::let( + alias = c( + X = x_col, + Y = y_col, + KEY = key_col, + COLOR = color_col, + LABEL = label_col, + SPLIT = split_col), + plotly::plot_ly( + df, + x = ~X, + y = ~Y, + split = ~SPLIT, + color = ~COLOR, + key = ~KEY, + text = ~LABEL, + type = "box", + boxpoints = "all", + jitter = 0.7, + pointpos = 0, + colors = fill_colors, + source = source_name, + customdata = custom_data, + showlegend = showlegend + )) %>% + plotly::layout( + title = title, + xaxis = list(title = xlab), + yaxis = list(title = ylab) + ) %>% + format_plotly() %>% + I + + +} + + +create_boxplot_from_summary_stats <- function( + df, + y_col = "y", + q1_col, + median_col, + q3_col, + min_col, + max_col, + mean_col = NA, + key_col = NA, + color_col = NA, + label_col = NA, + order_by = NULL, + title = "", + xlab = "", + ylab = "", + source_name = NULL, + fill_colors = NA){ + + if(is.na(key_col)) key_col <- y_col + if(is.na(color_col)) color_col <- y_col + + wrapr::let( + alias = c( + Y = y_col, + Q1 = q1_col, + Q2 = median_col, + Q3 = q3_col, + MIN = min_col, + MAX = max_col, + MEAN = mean_col, + KEY = key_col, + COLOR = color_col), + plotly::plot_ly( + df, + y = ~Y, + #color = ~COLOR, + type = "box", + q1= ~Q1, + median= ~Q2, + q3= ~Q3, + lowerfence= ~MIN, + upperfence= ~MAX, + mean= ~MEAN, + #fillcolor = fill_colors, + #colors = fill_colors, + source = source_name + )) %>% + plotly::layout( + title = title, + xaxis = list(title = xlab), + yaxis = list(title = ylab, + ategoryorder = "array", + categoryarray = ~order_by) + ) %>% + format_plotly() %>% + I +} + diff --git a/apps/iatlas/app/R/call_iatlas_module.R b/apps/iatlas/app/R/call_iatlas_module.R new file mode 100644 index 0000000000..a68323d9c4 --- /dev/null +++ b/apps/iatlas/app/R/call_iatlas_module.R @@ -0,0 +1,20 @@ +call_iatlas_module <- function( + name, + server_function, + input, + session, + ..., + tab_id = "explorertabs" +){ + link_string <- paste0("link_to_", name) + + shiny::observeEvent(input[[link_string]], { + shinydashboard::updateTabItems( + session, + inputId = tab_id, + selected = name + ) + }) + x <-server_function(name, ...) + return(x) +} diff --git a/apps/iatlas/app/R/call_module_server.R b/apps/iatlas/app/R/call_module_server.R new file mode 100644 index 0000000000..7a65da812e --- /dev/null +++ b/apps/iatlas/app/R/call_module_server.R @@ -0,0 +1,32 @@ +call_module_server <- function( + id, + cohort_obj, + server_function, + ui_function, + test_function = shiny::reactive(function(cohort_obj) T), + warning_message = "Currently selected cohort does not have the needed features to display this section", + ... +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + display_module <- shiny::reactive({ + shiny::req(cohort_obj(), test_function()) + test_function()(cohort_obj()) + }) + + output$ui <- shiny::renderUI({ + shiny::req(!is.null(display_module())) + if(display_module()){ + server_function("module", cohort_obj, ...) + ui_function(ns("module")) + } else { + iatlas.modules::textBox(width = 12, warning_message) + } + }) + } + ) +} diff --git a/apps/iatlas/app/R/cellimage_functions.R b/apps/iatlas/app/R/cellimage_functions.R new file mode 100644 index 0000000000..4c0250c927 --- /dev/null +++ b/apps/iatlas/app/R/cellimage_functions.R @@ -0,0 +1,196 @@ +get_cellimage_genes <- function(){ + genes <- + iatlasGraphQLClient::query_genes(gene_types = "cellimage_network") %>% + dplyr::pull("entrez") +} + +get_cellimage_features <- function(){ + c( + "Dendritic_cells_Aggregate2", + "Macrophage_Aggregate2", + "T_cells_CD8_Aggregate2", + "Tumor_fraction" + ) +} + +get_cellimage_gene_nodes <- function(dataset, tag, genes){ + nodes <- + iatlasGraphQLClient::query_nodes( + datasets = dataset, + network = "Cellimage Network", + entrez = genes, + tag1 = tag, + n_tags = 1 + ) %>% + dplyr::select( + "tags" = "tag_1_name", + "node_name", + "node_feature_name" = "gene_entrez", + "node_feature_display" = "gene_hgnc", + "x" = "node_x", + "y" = "node_y", + "score" = "node_score" + ) %>% + tidyr::unnest("tags") %>% + dplyr::select( + "node_name", + "node_feature_name", + "node_feature_display", + "tag" = "tags", + "x", + "y", + "score" + ) %>% + dplyr::mutate( + "node_feature_name" = as.character(.data$node_feature_name), + "Type" = "Gene" + ) +} + +get_cellimage_feature_nodes <- function(dataset, tag, features){ + + nodes <- + iatlasGraphQLClient::query_nodes( + datasets = dataset, + network = "Cellimage Network", + features = features, + tag1 = tag, + n_tags = 1 + ) %>% + dplyr::select( + "tags" = "tag_1_name", + "node_name", + "node_feature_name" = "feature_name", + "node_feature_display" = "feature_display", + "x" = "node_x", + "y" = "node_y", + "score" = "node_score" + ) %>% + tidyr::unnest("tags") %>% + dplyr::select( + "node_name", + "node_feature_name", + "node_feature_display", + "tag" = "tags", + "x", + "y", + "score" + ) %>% + dplyr::mutate("Type" = "Cell") +} + +add_nonexistent_gene_nodes <- function(present_nodes, all_nodes){ + missing_nodes <- all_nodes[which(!all_nodes %in% present_nodes$node_feature_name)] #which node is missing + missing_df <- get_cellimage_gene_nodes("TCGA", "C1", missing_nodes) #query for a group that is known to have all nodes + missing_df$score <- NA_integer_ + + rbind(present_nodes, missing_df) +} + +add_nonexistent_feature_nodes <- function(present_nodes, all_nodes){ + missing_nodes <- all_nodes[which(!all_nodes %in% present_nodes$node_feature_name)] #which node is missing + missing_df <- get_cellimage_feature_nodes("TCGA", "C1", missing_nodes) #query for a group that is known to have all nodes + missing_df$score <- NA_integer_ + + rbind(present_nodes, missing_df) +} + +get_cellimage_edges <- function(){ + + #Using TCGA/C1 as default for getting all cellimage edges + nodes <- dplyr::bind_rows( + get_cellimage_gene_nodes("TCGA", "C1", get_cellimage_genes()), + get_cellimage_feature_nodes("TCGA", "C1", get_cellimage_features())) + + node_names <- nodes %>% + dplyr::pull("node_name") %>% + unique() + + edges <- + iatlasGraphQLClient::query_edges( + node1 = node_names, + node2 = node_names + ) + + if(nrow(edges) == 0) return(edges) + + edges %>% + dplyr::select("node1", "node2") %>% + dplyr::inner_join(nodes, by = c("node1" = "node_name")) %>% + dplyr::select( + "node_display1" = "node_feature_display", + "node1", + "node2" + ) %>% + dplyr::inner_join(nodes, by = c("node2" = "node_name")) %>% + dplyr::select( + "node_display1", + "node_display2" = "node_feature_display", + "node1", + "node2", + "tag" + ) +} + +create_cellimage_json <- function(nodes, edges){ + edges <- edges %>% + dplyr::select( + "source" = "node_display1", + "target" = "node_display2", + "interaction" = "tag" + ) %>% + as.data.frame() + + #one of the edges needs to show that the interaction is mediated by a peptide + edges[edges$source == "LAG3" & edges$target == "HLA-DPA1", "interaction"] <- "peptide" + + nodes <- dplyr::select( + nodes, + "id" = "node_feature_display", + "FriendlyName" = "node_feature_display", + "x", + "y", + "UpBinRatio" = "score" + ) + + cyjShiny::dataFramesToJSON(edges, nodes) +} + +getVarColor <- function(feature, colormap, node_df, range_df, alpha = 1.){ + alpha.hex <- toupper(as.hexmode(0:255))[round(alpha*255)+1] + + display.val <- node_df %>% + dplyr::filter(.data$node_feature_name == feature) %>% + purrr::pluck("score") + + if ( is.null(display.val)) { + usecolor <- paste("#e6e6e6",alpha.hex,sep = "") + } else { + vmin <- range_df %>% + dplyr::filter(.data$node_feature_name == feature) %>% + purrr::pluck("MinBound") + vmax <- range_df %>% + dplyr::filter(.data$node_feature_name == feature) %>% + purrr::pluck("MaxBound") + vnstep <- 51 + vstep <- (vmax-vmin)/(vnstep-1) ## size of step + + if(vstep == 0 || is.na(vstep)){ + stop("step size in getVarColor is 0 or NA") + } + if (length(display.val) == 0 || is.na(display.val)){ + stop("Display value: ", display.val, " is problematic") + } + breakList <- seq(vmin,vmax,vstep) + cind <- min(which(!(display.val-breakList)>0)) ## right turnover point + + allcolors <- grDevices::colorRampPalette(RColorBrewer::brewer.pal(n = 7,name=colormap))(length(breakList)) + allcolors.with.alpha <- paste(allcolors,alpha.hex,sep = "") + + usecolor <- allcolors.with.alpha[cind] + } + usecolor + + +} + diff --git a/apps/iatlas/app/R/cellimage_main_server.R b/apps/iatlas/app/R/cellimage_main_server.R new file mode 100644 index 0000000000..1e701276f9 --- /dev/null +++ b/apps/iatlas/app/R/cellimage_main_server.R @@ -0,0 +1,69 @@ +cellimage_main_server <- function( + id, + cohort_obj +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + cohort_groups <- shiny::reactive({ + iatlasGraphQLClient::query_tags( + cohorts = cohort_obj()$dataset_names, + parent_tags = cohort_obj()$group_name + ) %>% + dplyr::pull("tag_name") + }) + + output$select_group1_ui <- shiny::renderUI({ + shiny::req(cohort_groups()) + shiny::selectInput( + ns("group_selected1"), + "Select Group", + choices = cohort_groups() + ) + }) + + output$select_group2_ui <- shiny::renderUI({ + shiny::req(cohort_groups()) + + shiny::selectInput( + ns("group_selected2"), + "Select Group", + choices = cohort_groups() + ) + }) + + cellimage_network_server( + "cellimage_network1", + shiny::reactive(cohort_obj()$dataset_names), + shiny::reactive(input$group_selected1) + ) + cellimage_network_server( + "cellimage_network2", + shiny::reactive(cohort_obj()$dataset_names), + shiny::reactive(input$group_selected2) + ) + cellimage_plot_server( + "cellimage_plot1", + shiny::reactive(cohort_obj()$dataset_names), + shiny::reactive(input$group_selected1) + ) + cellimage_plot_server( + "cellimage_plot2", + shiny::reactive(cohort_obj()$dataset_names), + shiny::reactive(input$group_selected2) + ) + + observeEvent(input$method_link,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/methods/CellImage_method.markdown"), + easyClose = TRUE, + footer = NULL + )) + }) + } + ) +} diff --git a/apps/iatlas/app/R/cellimage_main_ui.R b/apps/iatlas/app/R/cellimage_main_ui.R new file mode 100644 index 0000000000..cb3758356d --- /dev/null +++ b/apps/iatlas/app/R/cellimage_main_ui.R @@ -0,0 +1,66 @@ +cellimage_main_ui <- function(id){ + + ns <- shiny::NS(id) + shiny::tagList( + iatlas.modules::messageBox( + width = 12, + shiny::includeMarkdown(get_markdown_path("cellimage")), + shiny::actionLink(ns("method_link"), "Click to view method.") + ), + shiny::fluidRow( + iatlas.modules::optionsBox( + shiny::column( + width = 6, + shiny::radioButtons( + ns("viz_selection1"), + "Select type of visualization:", + choices = c("Illustration", "Network"), + selected = "Illustration" + ) + ), + shiny::column( + width = 6, + shiny::uiOutput(ns("select_group1_ui")) + ) + ), + iatlas.modules::optionsBox( + shiny::column( + width = 6, + shiny::radioButtons( + ns("viz_selection2"), + "Select type of visualization:", + choices = c("Illustration", "Network"), + selected = "Network" + ) + ), + shiny::column( + width = 6, + shiny::uiOutput(ns("select_group2_ui")) + ) + ) + ), + shiny::fluidRow( + shiny::conditionalPanel( + condition = "input.viz_selection1 == 'Illustration'", + cellimage_plot_ui(ns("cellimage_plot1")), + ns = ns + ), + shiny::conditionalPanel( + condition = "input.viz_selection1 == 'Network'", + cellimage_network_ui(ns("cellimage_network1")), + ns = ns + ), + shiny::conditionalPanel( + condition = "input.viz_selection2 == 'Illustration'", + cellimage_plot_ui(ns("cellimage_plot2")), + ns = ns + ), + shiny::conditionalPanel( + condition = "input.viz_selection2 == 'Network'", + cellimage_network_ui(ns("cellimage_network2")), + ns = ns + ), + ), + shiny::img(src = "images/cell-image-legend.png", width = "100%") + ) +} diff --git a/apps/iatlas/app/R/cellimage_network_server.R b/apps/iatlas/app/R/cellimage_network_server.R new file mode 100644 index 0000000000..a9e1f9bfe8 --- /dev/null +++ b/apps/iatlas/app/R/cellimage_network_server.R @@ -0,0 +1,52 @@ +cellimage_network_server <- function(id, dataset, tag) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + cellimage_genes <- shiny::reactive(get_cellimage_genes()) + + cellimage_features <- shiny::reactive(get_cellimage_features()) + + gene_nodes <- shiny::reactive({ + shiny::req(dataset(), tag(), cellimage_genes()) + nodes <- get_cellimage_gene_nodes(dataset(), tag(), cellimage_genes()) + + if(nrow(nodes) == length(cellimage_genes())) nodes + else add_nonexistent_gene_nodes(nodes, cellimage_genes()) + }) + + feature_nodes <- shiny::reactive({ + shiny::req(dataset(), tag(), cellimage_features()) + nodes <- get_cellimage_feature_nodes(dataset(), tag(), cellimage_features()) + + if(nrow(nodes) == length(cellimage_features())) nodes + else add_nonexistent_feature_nodes(nodes, cellimage_features()) + }) + + nodes <- shiny::reactive({ + shiny::req(gene_nodes(), feature_nodes()) + dplyr::bind_rows(gene_nodes(), feature_nodes()) + }) + + edges <- shiny::reactive({ + shiny::req(nodes()) + get_cellimage_edges() + }) + + graph_json <- shiny::reactive({ + shiny::req(nodes(), edges()) + create_cellimage_json(nodes(), edges()) + }) + + output$network <- cyjShiny::renderCyjShiny({ + cyjShiny::cyjShiny( + graph_json(), + layoutName = "preset", + styleFile = get_javascript_path("style_network_cellimage") + ) + }) + } + ) +} diff --git a/apps/iatlas/app/R/cellimage_network_ui.R b/apps/iatlas/app/R/cellimage_network_ui.R new file mode 100644 index 0000000000..339aeb9068 --- /dev/null +++ b/apps/iatlas/app/R/cellimage_network_ui.R @@ -0,0 +1,11 @@ +cellimage_network_ui <- function(id){ + + ns <- shiny::NS(id) + shiny::tagList( + iatlas.modules::plotBox( + width = 6, + cyjShiny::cyjShinyOutput(ns("network"), height = 600) %>% + shinycssloaders::withSpinner(.) + ) + ) +} diff --git a/apps/iatlas/app/R/cellimage_plot_server.R b/apps/iatlas/app/R/cellimage_plot_server.R new file mode 100644 index 0000000000..58b1b0751c --- /dev/null +++ b/apps/iatlas/app/R/cellimage_plot_server.R @@ -0,0 +1,75 @@ +cellimage_plot_server <- function(id, dataset, tag) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + cellimage_genes <- shiny::reactive(get_cellimage_genes()) + + cellimage_features <- shiny::reactive(get_cellimage_features()) + + gene_nodes <- shiny::reactive({ + shiny::req(dataset(), tag(), cellimage_genes()) + get_cellimage_gene_nodes(dataset(), tag(), cellimage_genes()) + }) + + feature_nodes <- shiny::reactive({ + shiny::req(dataset(), tag(), cellimage_features()) + get_cellimage_feature_nodes(dataset(), tag(), cellimage_features()) + }) + + nodes <- shiny::reactive({ + shiny::req(gene_nodes(), feature_nodes()) + dplyr::bind_rows(gene_nodes(), feature_nodes()) + }) + + plot_obj <- shiny::reactive({ + range_tbl <- tibble::tibble( + "node_feature_name" = nodes() %>% + dplyr::pull("node_feature_name") %>% + unique(), + "MinBound" = 0, + "MaxBound" = 1 + ) + + annotations <- "cellimage_annotations" %>% + get_tsv_path() %>% + readr::read_tsv(., col_types = "cccd") + + labels <- "cellimage_labels" %>% + get_tsv_path() %>% + readr::read_tsv(., col_types = "c") %>% + dplyr::pull("label") + + pic <- "tcell-cairo" %>% + get_svg_path() %>% + grImport2::readPicture() + + image_grob <- grImport2::pictureGrob(pic) + gTree_name <- grid::childNames(image_grob) + pathlabels <- image_grob$children[[gTree_name]]$childrenOrder + n_image_objects <- length(labels) + fill_color <- character(n_image_objects) + names(fill_color) <- pathlabels[1:n_image_objects] + + for (ind in seq(1, n_image_objects) ){ + ioa <- labels[ind] + datavar <- annotations %>% dplyr::filter(.data$display == ioa) %>% purrr::pluck("name") + colormap <- annotations %>% dplyr::filter(.data$display == ioa) %>% purrr::pluck("color") + alpha <- annotations %>% dplyr::filter(.data$display == ioa) %>% purrr::pluck("alpha") + color <- getVarColor(datavar, colormap, nodes(), range_tbl, alpha) + fill_color[ind] <- color + } + + for (s in pathlabels[1:n_image_objects] ){ + image_grob$children[[gTree_name]]$children[[s]]$gp$fill <- fill_color[s] + } + + return(image_grob) + }) + + output$plot <- shiny::renderPlot(grid::grid.draw(plot_obj())) + } + ) +} diff --git a/apps/iatlas/app/R/cellimage_plot_ui.R b/apps/iatlas/app/R/cellimage_plot_ui.R new file mode 100644 index 0000000000..54d2d008a5 --- /dev/null +++ b/apps/iatlas/app/R/cellimage_plot_ui.R @@ -0,0 +1,11 @@ +cellimage_plot_ui <- function(id){ + + ns <- shiny::NS(id) + shiny::tagList( + iatlas.modules::plotBox( + width = 6, + shiny::plotOutput(ns("plot"), height = 600) %>% + shinycssloaders::withSpinner(.) + ) + ) +} diff --git a/apps/iatlas/app/R/cellimage_server.R b/apps/iatlas/app/R/cellimage_server.R new file mode 100644 index 0000000000..aae71a3706 --- /dev/null +++ b/apps/iatlas/app/R/cellimage_server.R @@ -0,0 +1,44 @@ +cellimage_server <- function(id, cohort_obj){ + shiny::moduleServer( + id, + function(input, output, session) { + + show_submodule <- shiny::reactive({ + function(cohort_obj){ + any( + all( + length(cohort_obj$dataset_names) == 1, + cohort_obj$dataset_names == "TCGA", + cohort_obj$group_name %in% c( + "Immune_Subtype", "TCGA_Subtype", "TCGA_Study" + ) + ), + all( + length(cohort_obj$dataset_names) == 1, + cohort_obj$dataset_names == "PCAWG", + cohort_obj$group_name %in% c( + "Immune_Subtype", "PCAWG_Study" + ) + ) + ) + } + }) + + call_module_server( + "cellimage_main", + cohort_obj, + server_function = cellimage_main_server, + ui_function = cellimage_main_ui, + test_function = show_submodule, + warning_message = stringr::str_c( + "The Extracellular Network is only currently computed for ", + "dataset TCGA with groups Immune Subtype, TCGA Subtype, and TCGA Study, ", + "and dataset PCAWG with groups Immune Subtype, and PCAWG Study, " + ) + ) + } + ) +} + + + diff --git a/apps/iatlas/app/R/cellimage_ui.R b/apps/iatlas/app/R/cellimage_ui.R new file mode 100644 index 0000000000..751da6c5ac --- /dev/null +++ b/apps/iatlas/app/R/cellimage_ui.R @@ -0,0 +1,18 @@ +cellimage_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "CRI iAtlas Explorer — Cell-Interaction Diagram" + ), + iatlas.modules::textBox( + width = 12, + "This module allows you to depict the estimated abundance of tumor cells and representative innate and adaptive cells in the microenvironment, along with the abundance of receptor and ligands mediating interactions between those cells." + ), + iatlas.modules::sectionBox( + title = "Cell-Interaction Diagram", + module_ui(ns("cellimage_main")) + ) + ) +} diff --git a/apps/iatlas/app/R/clinical_outcomes_functions.R b/apps/iatlas/app/R/clinical_outcomes_functions.R new file mode 100644 index 0000000000..8208319fd9 --- /dev/null +++ b/apps/iatlas/app/R/clinical_outcomes_functions.R @@ -0,0 +1,93 @@ +build_co_survival_list <- function(tbl){ + tbl %>% + dplyr::filter(.data$class == "Survival Time") %>% + dplyr::arrange(.data$order) %>% + dplyr::select("display", "name") %>% + tibble::deframe(.) +} + +get_co_status_feature <- function(time_feature){ + if (time_feature == "PFI_time_1") return("PFI_1") + else if (time_feature == "OS_time") return("OS") + else stop("Unknown time feature") +} + +build_co_survival_value_tbl <- function(cohort_obj, time, status) { + + time_tbl <- + cohort_obj$get_feature_values(time) %>% + dplyr::select("sample_name", "time" = "feature_value") + + status_tbl <- + cohort_obj$get_feature_values(status) %>% + dplyr::select("sample_name", "status" = "feature_value") + + tbl <- cohort_obj$sample_tbl %>% + dplyr::rename("group" = "group_name") %>% + dplyr::inner_join(time_tbl, by = "sample_name") %>% + dplyr::inner_join(status_tbl, by = "sample_name") %>% + dplyr::select("sample" = "sample_name", "group", "time", "status") + + return(tbl) +} + +build_co_feature_tbl <- function(cohort_obj, feature_class){ + tbl <- + cohort_obj$get_feature_values(feature_classes = feature_class) %>% + dplyr::select( + "sample" = "sample_name", + "feature_display", + "feature_value", + "feature_order" + ) +} + +build_co_heatmap_tbl <- function(survival_tbl, feature_tbl){ + survival_tbl %>% + dplyr::inner_join(feature_tbl, by = "sample") %>% + dplyr::select( + "sample", + "group", + "time", + "status", + "feature_display", + "feature_value", + "feature_order" + ) +} + +build_co_heatmap_matrix <- function(tbl){ + tbl %>% + dplyr::select( + "feature" = "feature_display", + "value" = "feature_value", + "time", + "status", + "group", + "order" = "feature_order" + ) %>% + tidyr::nest( + value = .data$value, + data = c(.data$time, .data$status) + ) %>% + dplyr::mutate( + value = purrr::map(.data$value, as.matrix), + data = purrr::map(.data$data, as.matrix) + ) %>% + dplyr::mutate(result = purrr::map2_dbl( + .data$value, + .data$data, + concordanceIndex::concordanceIndex + )) %>% + dplyr::arrange(.data$order) %>% + dplyr::select("feature", "group", "result") %>% + tidyr::pivot_wider( + .data$feature, + names_from = .data$group, + values_from = .data$result + ) %>% + as.data.frame() %>% + dplyr::select(sort(names(.))) %>% + tibble::column_to_rownames("feature") %>% + as.matrix() +} diff --git a/apps/iatlas/app/R/clinical_outcomes_heatmap_server.R b/apps/iatlas/app/R/clinical_outcomes_heatmap_server.R new file mode 100644 index 0000000000..6160c270a1 --- /dev/null +++ b/apps/iatlas/app/R/clinical_outcomes_heatmap_server.R @@ -0,0 +1,92 @@ +clinical_outcomes_heatmap_server <- function( + id, + cohort_obj +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + output$class_selection_ui <- shiny::renderUI({ + shiny::selectInput( + inputId = ns("class_choice"), + label = "Select or Search for Variable Class", + choices = cohort_obj()$get_feature_class_list(), + selected = "T Helper Cell Score" + ) + }) + + output$time_feature_selection_ui <- shiny::renderUI({ + shiny::selectInput( + inputId = ns("time_feature_choice"), + label = "Select or Search for Survival Endpoint", + choices = build_co_survival_list(cohort_obj()$feature_tbl) + ) + }) + + status_feature_choice <- shiny::reactive({ + shiny::req(input$time_feature_choice) + get_co_status_feature(input$time_feature_choice) + }) + + survival_value_tbl <- shiny::reactive({ + shiny::req(input$time_feature_choice, status_feature_choice()) + build_co_survival_value_tbl( + cohort_obj(), + input$time_feature_choice, + status_feature_choice() + ) + }) + + feature_tbl <- shiny::reactive({ + shiny::req(input$class_choice) + build_co_feature_tbl(cohort_obj(), input$class_choice) + }) + + heatmap_tbl <- shiny::reactive({ + shiny::req(survival_value_tbl(), feature_tbl()) + build_co_heatmap_tbl(survival_value_tbl(), feature_tbl()) + }) + + output$heatmap <- plotly::renderPlotly({ + shiny::req(heatmap_tbl()) + + heatmap_matrix <- build_co_heatmap_matrix(heatmap_tbl()) + + shiny::validate(shiny::need( + nrow(heatmap_matrix > 0) & ncol(heatmap_matrix > 0), + "No results to display, pick a different group." + )) + + create_heatmap(heatmap_matrix, "clinical_outcomes_heatmap") + }) + + heatmap_eventdata <- shiny::reactive({ + shiny::req(heatmap_tbl()) + eventdata <- plotly::event_data("plotly_click", "clinical_outcomes_heatmap") + if(is.null(eventdata) & !is.null(input$mock_event_data)){ + eventdata <- input$mock_event_data + } + shiny::validate(shiny::need(eventdata, "Click on above heatmap.")) + return(eventdata) + }) + + group_data <- shiny::reactive({ + cohort_obj()$group_tbl %>% + dplyr::mutate("group_description" = stringr::str_c( + .data$short_name, ": ", .data$characteristics), + "group_display" = .data$short_name + ) %>% + dplyr::select("group_name" = "short_name", "group_display", "group_description") + }) + + iatlas.modules::plotly_server( + "heatmap", + plot_data = heatmap_tbl, + eventdata = heatmap_eventdata, + group_data = group_data + ) + } + ) +} diff --git a/apps/iatlas/app/R/clinical_outcomes_heatmap_ui.R b/apps/iatlas/app/R/clinical_outcomes_heatmap_ui.R new file mode 100644 index 0000000000..211aa78374 --- /dev/null +++ b/apps/iatlas/app/R/clinical_outcomes_heatmap_ui.R @@ -0,0 +1,34 @@ +clinical_outcomes_heatmap_ui <- function(id) { + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox( + width = 12, + shiny::includeMarkdown("inst/markdown/clinical_outcomes_heatmap.markdown") + ), + shiny::fluidRow( + iatlas.modules::optionsBox( + width = 12, + shiny::column( + width = 6, + shiny::uiOutput(ns("time_feature_selection_ui")) + ), + shiny::column( + width = 6, + shiny::uiOutput(ns("class_selection_ui")) + ) + ), + iatlas.modules::plotBox( + width = 12, + shiny::fluidRow( + "heatmap" %>% + ns() %>% + plotly::plotlyOutput(., height = 600) %>% + shinycssloaders::withSpinner(.), + iatlas.modules::plotly_ui(ns("heatmap")) + ) + ) + ) + ) +} diff --git a/apps/iatlas/app/R/clinical_outcomes_server.R b/apps/iatlas/app/R/clinical_outcomes_server.R new file mode 100644 index 0000000000..2bf7540147 --- /dev/null +++ b/apps/iatlas/app/R/clinical_outcomes_server.R @@ -0,0 +1,32 @@ +clinical_outcomes_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + + show_co_submodules <- function(cohort_obj){ + cohort_obj$has_classes(c("Survival Time", "Survival Status")) + } + + call_module_server( + "clinical_outcomes_survival", + cohort_obj, + server_function = clinical_outcomes_survival_server, + ui_function = clinical_outcomes_survival_ui, + test_function = shiny::reactive(show_co_submodules) + ) + + call_module_server( + "clinical_outcomes_heatmap", + cohort_obj, + server_function = clinical_outcomes_heatmap_server, + ui_function = clinical_outcomes_heatmap_ui, + test_function = shiny::reactive(show_co_submodules) + ) + } + ) +} + + diff --git a/apps/iatlas/app/R/clinical_outcomes_survival_server.R b/apps/iatlas/app/R/clinical_outcomes_survival_server.R new file mode 100644 index 0000000000..e993828609 --- /dev/null +++ b/apps/iatlas/app/R/clinical_outcomes_survival_server.R @@ -0,0 +1,76 @@ +clinical_outcomes_survival_server <- function(id, cohort_obj) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + output$time_feature_selection_ui <- shiny::renderUI({ + shiny::selectInput( + inputId = ns("time_feature_choice"), + label = "Select or Search for Survival Endpoint", + choices = build_co_survival_list( + cohort_obj()$feature_tbl + ) + ) + }) + + status_feature_choice <- shiny::reactive({ + shiny::req(input$time_feature_choice) + get_co_status_feature(input$time_feature_choice) + }) + + survival_value_tbl <- shiny::reactive({ + shiny::req(input$time_feature_choice, status_feature_choice()) + build_co_survival_value_tbl( + cohort_obj(), + input$time_feature_choice, + status_feature_choice() + ) + }) + + output$survival_plot <- shiny::renderPlot({ + + shiny::req(survival_value_tbl(), input$risktable) + + shiny::validate(shiny::need( + nrow(survival_value_tbl()) > 0, + paste0( + "Samples with selected variable don't have selected ", + "survival features." + ) + )) + + num_groups <- length(unique(survival_value_tbl()$group)) + + shiny::validate(shiny::need( + num_groups <= 10, + paste0( + "Too many sample groups (", num_groups, ") ", + "for KM plot; choose a continuous variable or select ", + "different sample groups." + ) + )) + + fit <- survival::survfit( + survival::Surv(time, status) ~ group, + data = survival_value_tbl() + ) + + create_kmplot( + fit = fit, + df = survival_value_tbl(), + confint = input$confint, + risktable = input$risktable, + title = cohort_obj()$group_display, + group_colors = unname(cohort_obj()$plot_colors) + ) + }) + + output$download_tbl <- shiny::downloadHandler( + filename = function() stringr::str_c("data-", Sys.Date(), ".csv"), + content = function(con) readr::write_csv(survival_value_tbl(), con) + ) + } + ) +} diff --git a/apps/iatlas/app/R/clinical_outcomes_survival_ui.R b/apps/iatlas/app/R/clinical_outcomes_survival_ui.R new file mode 100644 index 0000000000..3941deeec9 --- /dev/null +++ b/apps/iatlas/app/R/clinical_outcomes_survival_ui.R @@ -0,0 +1,46 @@ +clinical_outcomes_survival_ui <- function(id) { + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox( + width = 12, + shiny::includeMarkdown(get_markdown_path( + "clinical_outcomes_survival" + )) + ), + shiny::fluidRow( + iatlas.modules::optionsBox( + width = 12, + shiny::column( + width = 8, + shiny::uiOutput(ns("time_feature_selection_ui")) + ), + shiny::column( + width = 2, + shiny::checkboxInput( + ns("confint"), + "Confidence Intervals", + value = F + ) + ), + shiny::column( + width = 2, + shiny::checkboxInput( + ns("risktable"), + "Risk Table", + value = T + ) + ) + ), + iatlas.modules::plotBox( + width = 12, + "survival_plot" %>% + ns() %>% + shiny::plotOutput(., height = 600) %>% + shinycssloaders::withSpinner(.) + ), + shiny::downloadButton(ns("download_tbl"), "Download plot table") + ) + ) +} diff --git a/apps/iatlas/app/R/clinical_outcomes_ui.R b/apps/iatlas/app/R/clinical_outcomes_ui.R new file mode 100644 index 0000000000..90a695c63c --- /dev/null +++ b/apps/iatlas/app/R/clinical_outcomes_ui.R @@ -0,0 +1,22 @@ +clinical_outcomes_ui <- function(id) { + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox("CRI iAtlas Explorer — Clinical Outcomes"), + iatlas.modules::textBox( + width = 12, + shiny::includeMarkdown(get_markdown_path("clinical_outcomes")), + shiny::p("Check out our ", + a(href="https://github.com/CRI-iAtlas/iatlas-notebooks/blob/main/clinical_outcomes.ipynb", "Jupyter notebook"), + "reproducing the code run in this module.") + ), + iatlas.modules::sectionBox( + title = "Sample Group Survival", + module_ui(ns("clinical_outcomes_survival")) + ), + iatlas.modules::sectionBox( + title = "Concordance Index", + module_ui(ns("clinical_outcomes_heatmap")) + ) + ) +} diff --git a/apps/iatlas/app/R/copy_number_functions.R b/apps/iatlas/app/R/copy_number_functions.R new file mode 100644 index 0000000000..a54cf0b7bf --- /dev/null +++ b/apps/iatlas/app/R/copy_number_functions.R @@ -0,0 +1,65 @@ + +build_cnv_group_list <- function(tbl){ + tbl %>% + tibble::deframe(.) %>% + c("All" = "All", .) +} + +build_cnv_gene_list <- function(gene_set_tbl, gene_tbl){ + list( + "All Genes" = "All", + "Gene Sets" = tibble::deframe(gene_set_tbl), + "Genes" = tibble::deframe(gene_tbl) + ) +} + +get_cnv_entrez_query_from_filters <- function(filters, gene_set_tbl, gene_tbl){ + if ("All" %in% filters) return(gene_tbl$entrez) + gene_sets <- filters %>% + purrr::keep(., . %in% gene_set_tbl$name) + if(length(gene_sets) == 0) return(as.integer(filters)) + genes <- filters %>% + purrr::discard(., . %in% gene_sets) + iatlasGraphQLClient::query_genes_by_gene_types(gene_sets) %>% + dplyr::pull("entrez") %>% + unique() %>% + union(genes) %>% + as.integer() +} + +create_cnv_results_string <- function(result_tbl){ + n_genes <- result_tbl %>% + dplyr::pull(.data$hgnc) %>% + unique() %>% + sort() %>% + length() + paste0( + "Total number of rows: ", nrow(result_tbl), + ", Number of genes: ", n_genes + ) +} + +build_cnv_dt_tbl <- function(tbl){ + tbl %>% + dplyr::mutate(mean_diff = .data$mean_normal - .data$mean_cnv) %>% + dplyr::select( + Metric = .data$feature_display, + Group = .data$tag_short_display, + Gene = .data$hgnc, + Direction = .data$direction, + `Mean Normal` = .data$mean_normal, + `Mean CNV` = .data$mean_cnv, + `Mean Diff` = .data$mean_diff, + `T stat` = .data$t_stat, + `Neg log10 pvalue` = .data$log10_p_value + ) %>% + dplyr::mutate_if(is.numeric, round, 3) +} + + + + + + + + diff --git a/apps/iatlas/app/R/copy_number_response_server.R b/apps/iatlas/app/R/copy_number_response_server.R new file mode 100644 index 0000000000..59327be28b --- /dev/null +++ b/apps/iatlas/app/R/copy_number_response_server.R @@ -0,0 +1,159 @@ +copy_number_response_server <- function(id, cohort_obj) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + feature_class_list <- shiny::reactive({ + iatlas.modules::create_nested_named_list( + cohort_obj()$feature_tbl, + names_col1 = "class", + names_col2 = "display", + values_col = "name" + ) + }) + + output$response_option_ui <- shiny::renderUI({ + shiny::selectInput( + inputId = ns("response_variable"), + label = "Select or Search for Response Variable", + choices = feature_class_list(), + selected = "leukocyte_fraction" + ) + }) + + group_tbl <- shiny::reactive({ + iatlasGraphQLClient::query_tags( + cohorts = cohort_obj()$dataset_names, + parent_tags = cohort_obj()$group_name + ) %>% + dplyr::select("display" = "tag_short_display", "name" = "tag_name") + }) + + group_choice_list <- shiny::reactive({ + build_cnv_group_list(group_tbl()) + }) + + output$select_cn_group_ui <- shiny::renderUI({ + shiny::selectInput( + inputId = ns("group_choices"), + label = "Select Group Filter", + choices = group_choice_list(), + selected = "All", + multiple = T + ) + }) + + gene_tbl <- shiny::reactive( + iatlasGraphQLClient::query_copy_number_result_genes(cohort_obj()$dataset_names) + ) + + gene_set_tbl <- shiny::reactive(iatlasGraphQLClient::query_gene_types()) + + gene_choice_list <- shiny::reactive({ + shiny::req(gene_set_tbl(), gene_tbl()) + build_cnv_gene_list(gene_set_tbl(), gene_tbl()) + }) + + output$select_cn_gene_ui <- shiny::renderUI({ + shiny::selectInput( + ns("gene_filter_choices"), + "Select Gene Filter", + choices = gene_choice_list(), + selected = "All", + multiple = T + ) + }) + + gene_entrez_query <- shiny::reactive({ + shiny::req(input$gene_filter_choices) + get_cnv_entrez_query_from_filters( + input$gene_filter_choices, + gene_set_tbl(), + gene_tbl() + ) + }) + + groups <- shiny::reactive({ + shiny::req(input$group_choices) + if ("All" %in% input$group_choices) return(group_tbl()$name) + else return(input$group_choices) + }) + + direction_query <- shiny::reactive({ + shiny::req(input$cn_dir_point_filter) + if (input$cn_dir_point_filter == "All") return(NA) + else return(input$cn_dir_point_filter) + }) + + result_tbl <- shiny::reactive({ + + shiny::req( + groups(), + gene_entrez_query(), + input$response_variable, + !is.null(direction_query()) + ) + + result_tbl <- iatlasGraphQLClient::query_copy_number_results( + datasets = cohort_obj()$dataset_names, + tags = groups(), + entrez = gene_entrez_query(), + features = input$response_variable, + direction = direction_query() + ) + shiny::validate(need( + all(!is.null(result_tbl), nrow(result_tbl) > 0), + paste0( + "Members in current selected groupings do not have ", + "driver CNV results" + ) + )) + return(result_tbl) + }) + + output$text <- shiny::renderText({ + shiny::req(result_tbl()) + create_cnv_results_string(result_tbl()) + }) + + output$cnvPlot <- plotly::renderPlotly({ + shiny::req(result_tbl()) + create_histogram( + dplyr::select(result_tbl(), x = t_stat), + x_lab = 'T statistics, Positive if normal value higher', + y_lab = 'Number of tests', + title = 'Distribution of T statistics', + source_name = "cnv_hist" + ) + }) + + data_table <- shiny::reactive({ + build_cnv_dt_tbl(result_tbl()) + }) + + output$cnvtable <- DT::renderDataTable({ + shiny::req(data_table()) + DT::datatable( + data_table(), + extensions = 'Buttons', options = list( + scrollY = '300px', + paging = TRUE, + scrollX = TRUE, + dom = 'Bfrtip', + buttons = + list('copy', 'print', + list( + extend = 'collection', + buttons = c('csv', 'excel', 'pdf'), + text = 'Download') + ) + ) + ) + }) + + } + ) +} + diff --git a/apps/iatlas/app/R/copy_number_response_ui.R b/apps/iatlas/app/R/copy_number_response_ui.R new file mode 100644 index 0000000000..3d826ece06 --- /dev/null +++ b/apps/iatlas/app/R/copy_number_response_ui.R @@ -0,0 +1,79 @@ +copy_number_response_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox( + width = 12, + shiny::p("This module allows you to identify associations between specific somatic gene copy number alterations (SCNAs) and immune readouts. Gene SCNAs are specified as either amplified or deleted.\n\n"), + + shiny::p("The module begins with a large table of SCNA statistical associations (>3 Million) based on the t-test. Initially, statistics from all genes and all sample groups are shown. + Use the filter controls to limit results to your interests.\n\n"), + + shiny::p("There are three components to the module: filter controls, a summary plot, and a table of results.\n"), + + shiny::p("The filter controls allow you to specify which subset of values are shown in the table and plot. It's possible to select multiple groups and genes."), + + shiny::p("The histogram shows the distribution of t-statistic values, given the filter settings."), + + shiny::tags$ul( + shiny::tags$li("The x-axis shows the t-statistic value, positive if the group of normal (un-altered) samples has higher immune readout scores, and negative if the opposite is true."), + shiny::tags$li("The y-axis represents the number of genes with that statistic.") + ), + shiny::p("\n\nImmune landscape manuscript context: The results are comparable to those shown in Figure S4A.","\n"), + shiny::p(""), + shiny::p("Notes: A statistical test is performed only when the number of samples exceeds a minimum required group count (currently 3). + In rare instances all (or all but one) samples within a group contain the alteration and a test cannot be performed. + Only statistics with p-values less than 0.001 are retained. As this module relies heavily on pre-computation, it is + not currently compatible with loading of user-defined custom sample groups."), + shiny::p(""), + shiny::p("") + ), + shiny::fluidRow( + iatlas.modules::optionsBox( + width = 12, + shiny::column( + width = 6, + shiny::uiOutput(ns("response_option_ui")) + ), + shiny::column ( + width = 6, + shiny::uiOutput(ns("select_cn_group_ui")) + ), + shiny::column ( + width = 6, + shiny::uiOutput(ns("select_cn_gene_ui")) + ), + shiny::column ( + width = 6, + shiny::selectInput( + ns("cn_dir_point_filter"), + "Select CNV Direction", + choices = c('All', 'Amp', 'Del'), + selected = "All" + + ) + ), + shiny::column( + width = 6, + shiny::textOutput(ns("text")) + ) + ) + ), + shiny::fluidRow( + iatlas.modules::plotBox( + width = 12, + plotly::plotlyOutput(ns("cnvPlot")) %>% + shinycssloaders::withSpinner(.) + ) + ), + + iatlas.modules::tableBox( + width = 12, + shiny::div(style = "overflow-x: scroll", + DT::dataTableOutput(ns("cnvtable")) %>% + shinycssloaders::withSpinner(.) + ) + ) + ) +} diff --git a/apps/iatlas/app/R/copy_number_server.R b/apps/iatlas/app/R/copy_number_server.R new file mode 100644 index 0000000000..27809bbffc --- /dev/null +++ b/apps/iatlas/app/R/copy_number_server.R @@ -0,0 +1,33 @@ +copy_number_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + + show_submodule <- shiny::reactive({ + function(cohort_obj){ + all( + length(cohort_obj$dataset_names) == 1, + cohort_obj$dataset_names == "TCGA", + cohort_obj$group_name %in% c( + "Immune_Subtype", "TCGA_Subtype", "TCGA_Study" + ) + ) + } + }) + + call_module_server( + "copy_number_response", + cohort_obj, + server_function = copy_number_response_server, + ui_function = copy_number_response_ui, + test_function = show_submodule + ) + } + ) +} + + + diff --git a/apps/iatlas/app/R/copy_number_ui.R b/apps/iatlas/app/R/copy_number_ui.R new file mode 100644 index 0000000000..36e7487908 --- /dev/null +++ b/apps/iatlas/app/R/copy_number_ui.R @@ -0,0 +1,20 @@ +copy_number_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "CRI iAtlas Explorer — Association with Copy Number Variations" + ), + iatlas.modules::textBox( + width = 12, + shiny::p("Explore statistical associations between immune readouts and copy number variations."), + shiny::p( "Please note: As this module relies heavily on pre-computation, it is not currently compatible with user-defined custom sample groups in Cohort Selection." + ) + ), + iatlas.modules::sectionBox( + title = "Immune Response Association With Copy Number Variation", + module_ui(ns("copy_number_response")) + ) + ) +} diff --git a/apps/iatlas/app/R/data_info_functions.R b/apps/iatlas/app/R/data_info_functions.R new file mode 100644 index 0000000000..7278b0064a --- /dev/null +++ b/apps/iatlas/app/R/data_info_functions.R @@ -0,0 +1,45 @@ +#' Format Feature Tibble +#' +#' @param feature_tbl A tibble with columns feature, unit and class +#' @importFrom dplyr select +#' @importFrom rlang .data +format_feature_tbl <- function(feature_tbl){ + dplyr::select( + feature_tbl, + `Feature Name` = .data$display, + `Variable Class` = .data$class, + Unit = .data$unit + ) +} + +#' Filter Feature Tibble +#' +#' @param feature_tbl A tibble with columns class +#' @param selected_row An integer that is a row number in the tibble +#' @importFrom magrittr %>% +#' @importFrom dplyr slice pull filter +#' @importFrom rlang .data +filter_feature_tbl <- function(feature_tbl, selected_row){ + selected_row_class <- feature_tbl %>% + dplyr::slice(selected_row) %>% + dplyr::pull(.data$class) + + dplyr::filter(feature_tbl, .data$class == selected_row_class) +} + +#' Format Filtered Feature Tibble +#' +#' @param filtered_feature_tbl A tibble with columns order, display, unit, and +#' method_tag +#' @importFrom dplyr select +#' @importFrom rlang .data +format_filtered_feature_tbl <- function(filtered_feature_tbl){ + dplyr::select( + filtered_feature_tbl, + `Variable Class Order` = .data$order, + `Feature Name` = .data$display, + Unit = .data$unit, + `Methods Tag` = .data$method_tag + ) +} + diff --git a/apps/iatlas/app/R/data_info_server.R b/apps/iatlas/app/R/data_info_server.R new file mode 100644 index 0000000000..a868e581dc --- /dev/null +++ b/apps/iatlas/app/R/data_info_server.R @@ -0,0 +1,116 @@ +data_info_server <- function(id){ + shiny::moduleServer( + id, + function(input, output, session) { + ns <- session$ns + + class_list <- shiny::reactive({ + iatlasGraphQLClient::query_features() %>% + dplyr::pull("class") %>% + c("All classes", .) + }) + + output$classes <- shiny::renderUI({ + shiny::selectInput( + ns("class_choice"), + label = "Select or Search for Class", + choices = class_list(), + selected = "All classes" + ) + }) + + feature_tbl <- shiny::reactive({ + shiny::req(input$class_choice) + if(input$class_choice == "All classes") { + iatlasGraphQLClient::query_features() + } else { + iatlasGraphQLClient::query_features( + feature_class = input$class_choice + ) + } + + }) + + output$feature_table <- DT::renderDT({ + shiny::req(feature_tbl()) + DT::datatable( + format_feature_tbl(feature_tbl()), + selection = list(mode = 'single'), + options = list(scrollX = TRUE, autoWidth = F ), + rownames = FALSE + ) + }, server = FALSE) + + + filtered_feature_tbl <- shiny::reactive({ + shiny::req(feature_tbl(), input$feature_table_rows_selected) + filter_feature_tbl(feature_tbl(), input$feature_table_rows_selected) + }) + + output$variable_class_table <- shiny::renderTable({ + shiny::req(filtered_feature_tbl()) + format_filtered_feature_tbl(filtered_feature_tbl()) + }) + + selected_method_tags <- shiny::reactive({ + shiny::req(filtered_feature_tbl()) + iatlas.modules::get_unique_values_from_col( + filtered_feature_tbl(), + method_tag + ) + }) + + output$method_buttons <- shiny::renderUI({ + shiny::req(selected_method_tags()) + selected_method_tags() %>% + purrr::map( + ~fluidRow(actionButton(ns(paste0("show_", .x)), .x)) + ) %>% + shiny::tagList() + }) + + show_method <- function(tag){ + shiny::observeEvent(input[[paste0("show_", tag)]], { + shiny::showModal(shiny::modalDialog( + title = "Methods", + shiny::includeMarkdown(paste0( + "inst/markdown/methods/", + tag, + ".markdown" + )), + size = "l", + easyClose = TRUE + )) + }) + } + + shiny::observeEvent(input$feature_table_rows_selected, { + shiny::req(selected_method_tags()) + purrr::walk(selected_method_tags(), show_method) + }) + + shiny::observeEvent(input$feature_table_rows_selected, { + output$variable_details_section <- shiny::renderUI({ + iatlas.modules::sectionBox( + title = "Variable Class Details", + iatlas.modules::messageBox( + width = 12, + shiny::p("Here is additional information about the variables in the Variable Class you selected. To the right you can access description of the methods used to obtain the variables.") + ), + shiny::fluidRow( + iatlas.modules::tableBox( + width = 9, + shiny::tableOutput(ns('variable_class_table')) + ), + shiny::column( + width = 3, + shiny::h5(shiny::strong("Click to view methods")), + shiny::uiOutput(ns("method_buttons")) + ) + ) + ) + }) + }) + } + ) +} diff --git a/apps/iatlas/app/R/data_info_ui.R b/apps/iatlas/app/R/data_info_ui.R new file mode 100644 index 0000000000..48d04f77b5 --- /dev/null +++ b/apps/iatlas/app/R/data_info_ui.R @@ -0,0 +1,34 @@ +data_info_ui <- function(id) { + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox("CRI iAtlas Explorer — Data Description"), + iatlas.modules::textBox( + width = 12, + shiny::includeMarkdown("inst/markdown/data_info.markdown") + ), + iatlas.modules::sectionBox( + title = "PanImmune Readouts", + iatlas.modules::messageBox( + width = 12, + shiny::includeMarkdown("inst/markdown/data_info_readouts.markdown") + ), + shiny::fluidRow( + iatlas.modules::optionsBox( + width = 6, + shiny::uiOutput(ns("classes")))), + shiny::fluidRow( + iatlas.modules::tableBox( + width = 12, + shiny::div( + 'feature_table' %>% + ns() %>% + DT::dataTableOutput(.) %>% + shinycssloaders::withSpinner(.) + ) + ) + ) + ), + shiny::uiOutput(ns("variable_details_section")) + ) +} diff --git a/apps/iatlas/app/R/data_table_server.R b/apps/iatlas/app/R/data_table_server.R new file mode 100644 index 0000000000..9d3607bb8e --- /dev/null +++ b/apps/iatlas/app/R/data_table_server.R @@ -0,0 +1,35 @@ +data_table_server <- function( + id, + tbl, + options = list(pageLength = 10), + color = F, + color_column = NULL, + colors = NULL, + ... +) { + shiny::moduleServer( + id, + function(input, output, session) { + output$data_table <- DT::renderDT({ + dt <- DT::datatable( + tbl(), + options = options, + rownames = FALSE, + ... + ) + if (color) { + dt <- DT::formatStyle( + dt, + color_column, + backgroundColor = DT::styleEqual(colors, colors)) + } + return(dt) + }) + + output$download_table <- shiny::downloadHandler( + filename = function() stringr::str_c("data-", Sys.Date(), ".csv"), + content = function(con) readr::write_csv(tbl(), con) + ) + } + ) +} diff --git a/apps/iatlas/app/R/data_table_ui.R b/apps/iatlas/app/R/data_table_ui.R new file mode 100644 index 0000000000..c333195e06 --- /dev/null +++ b/apps/iatlas/app/R/data_table_ui.R @@ -0,0 +1,25 @@ +data_table_ui <- function( + id, + message_html = "", + button_text = "Download datatable" +){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox(width = 12, message_html), + shiny::fluidRow( + iatlas.modules::tableBox( + width = 12, + shiny::div( + style = "overflow-x: scroll", + "data_table" %>% + ns() %>% + DT::dataTableOutput(.) %>% + shinycssloaders::withSpinner(.) + ) + ), + shiny::downloadButton(ns("download_table"), button_text) + ) + ) +} diff --git a/apps/iatlas/app/R/docspage.R b/apps/iatlas/app/R/docspage.R new file mode 100644 index 0000000000..8da804547a --- /dev/null +++ b/apps/iatlas/app/R/docspage.R @@ -0,0 +1,19 @@ +docspage_ui <- function(){ + shiny::fluidPage( + shiny::br(), + iatlas.modules::titleBox("Documentation"), + iatlas.modules::messageBox( + width = 12, + shiny::includeMarkdown("inst/markdown/docs.markdown") + ), + shiny::fluidRow( + shiny::column( + width = 12, + shiny::column( + width = 12, + shiny::includeMarkdown("README.md") + ) + ) + ) + ) +} diff --git a/apps/iatlas/app/R/driver_associations_server.R b/apps/iatlas/app/R/driver_associations_server.R new file mode 100644 index 0000000000..1e552d3152 --- /dev/null +++ b/apps/iatlas/app/R/driver_associations_server.R @@ -0,0 +1,38 @@ +driver_associations_server <- function(id, cohort_obj){ + shiny::moduleServer( + id, + function(input, output, session) { + + show_submodule <- shiny::reactive({ + function(cohort_obj){ + all( + length(cohort_obj$dataset_names) == 1, + cohort_obj$dataset_names == "TCGA", + cohort_obj$group_name %in% c( + "Immune_Subtype", "TCGA_Subtype", "TCGA_Study" + ) + ) + } + }) + + call_module_server( + "univariate_driver", + cohort_obj, + test_function = show_submodule, + server_function = iatlas.modules2::univariate_driver_server, + ui_function = iatlas.modules2::univariate_driver_ui + ) + + # call_module_server( + # "multivariate_driver", + # cohort_obj, + # test_function = show_submodule, + # server_function = iatlas.modules2::multivariate_driver_server, + # ui_function = iatlas.modules2::multivariate_driver_ui + # ) + } + ) +} + + + diff --git a/apps/iatlas/app/R/driver_associations_ui.R b/apps/iatlas/app/R/driver_associations_ui.R new file mode 100644 index 0000000000..3b0587d680 --- /dev/null +++ b/apps/iatlas/app/R/driver_associations_ui.R @@ -0,0 +1,29 @@ +driver_associations_ui <- function(id) { + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "CRI iAtlas Explorer — Association with Driver Mutations" + ), + iatlas.modules::textBox( + width = 12, + shiny::includeMarkdown(get_markdown_path("driver")) + ), + iatlas.modules::sectionBox( + title = paste0( + "Immune Response Association With Driver Mutations ", + "-- univariate" + ), + module_ui(ns("univariate_driver")) + ) + # iatlas.modules::sectionBox( + # title = paste0( + # "Immune Response Association With Driver Mutations ", + # "-- multivariate" + # ), + # module_ui(ns("multivariate_driver")) + # ) + ) +} + diff --git a/apps/iatlas/app/R/explorepage.R b/apps/iatlas/app/R/explorepage.R new file mode 100644 index 0000000000..1a897cc1e8 --- /dev/null +++ b/apps/iatlas/app/R/explorepage.R @@ -0,0 +1,238 @@ +explorepage_ui <- function(){ + + # module tables ---- + modules_tbl <- MODULES_TBL %>% + dplyr::mutate( + "ui_function" = purrr::map(.data$ui_function_string, get) + ) + + ici_modules_tbl <- dplyr::filter(modules_tbl, .data$type == "ici") + cg_modules_tbl <- dplyr::filter(modules_tbl, .data$type == "cg") + sc_modules_tbl <- dplyr::filter(modules_tbl, .data$type == "scRNA") + tool_modules_tbl <- dplyr::filter(modules_tbl, .data$type == "tool") + + # sidebar ---- + + create_menu_subitems <- function(tbl){ + tbl %>% + dplyr::select("text" = "display", "tabName" = "name") %>% + purrr::pmap(shinydashboard::menuSubItem, icon = shiny::icon("cog")) + } + + ici_module_menu_items <- create_menu_subitems(ici_modules_tbl) + cg_module_menu_items <- create_menu_subitems(cg_modules_tbl) + sc_module_menu_items <- create_menu_subitems(sc_modules_tbl) + tool_module_menu_items <- create_menu_subitems(tool_modules_tbl) + + sidebar <- shinydashboard::dashboardSidebar( + shinydashboard::sidebarMenu( + id = "explorertabs", + shinydashboard::menuItem( + "CRI iAtlas Explorer Home", + tabName = "dashboard", + icon = shiny::icon("tachometer-alt") + ), + shinydashboard::menuItem( + "Datasets Overview", + icon = shiny::icon("th-list"), + tabName = "ici_overview" + ), + shinydashboard::menuItem( + "Single Cell Cohort Selection", + tabName = "sc_cohort_selection", + icon = shiny::icon("cog") + ), + shinydashboard::menuItem( + text = "Single Cell Modules", + icon = shiny::icon("chart-bar"), + startExpanded = TRUE, + sc_module_menu_items + ), + shinydashboard::menuItem( + "ICI Cohort Selection", + tabName = "ici_cohort_selection", + icon = shiny::icon("cog") + ), + shinydashboard::menuItem( + text = "ICI Analysis Modules", + icon = shiny::icon("chart-bar"), + startExpanded = TRUE, + ici_module_menu_items + ), + shinydashboard::menuItem( + "CG Cohort Selection", + tabName = "cg_cohort_selection", + icon = shiny::icon("cog") + ), + shinydashboard::menuItem( + text = "CG Analysis Modules", + icon = shiny::icon("chart-bar"), + startExpanded = TRUE, + cg_module_menu_items + ), + shinydashboard::menuItem( + text = "CRI iAtlas tools", + icon = shiny::icon("wrench"), + startExpanded = TRUE, + tool_module_menu_items + ), + shinydashboard::menuItem( + "Data Description", + icon = shiny::icon("th-list"), + tabName = "data_info" + ) + ) + ) + + # body ---- + + # info boxes at top of page + readout_info_boxes <- dplyr::tibble( + title = c( + "Single-cell RNA-seq datasets:", + "Immune Checkpoint Inhibitors (ICI) datasets:", + "Cancer Genomics (CG) datasets:", + "Samples:" + ), + value = c( + 6, + nrow(iatlasGraphQLClient::query_datasets(types = "ici")), + 2, + nrow(iatlasGraphQLClient::query_samples()) + ), + icon = purrr::map(c("search", "database", "filter", "users"), shiny::icon) + ) %>% + purrr::pmap( + shinydashboard::infoBox, + width = 6, + color = "black", + fill = FALSE + ) + + # image boxes at bottom of page that link to module tabs + + make_image_boxes <- function(tbl){ + tbl %>% + dplyr::select( + "title" = "display", + "linkId" = "link", + "imgSrc" = "image", + "boxText" = "description" + ) %>% + purrr::pmap( + iatlas.modules::imgLinkBox, width = 6, linkText = "Open Module" + ) %>% + dplyr::tibble("item" = .) %>% + dplyr::mutate("row" = as.character(ceiling(dplyr::row_number() / 2))) %>% + dplyr::group_by(.data$row) %>% + dplyr::mutate("n" = as.character(dplyr::row_number())) %>% + dplyr::ungroup() %>% + tidyr::pivot_wider(names_from = "n", values_from = "item") %>% + dplyr::select("item1" = "1", "item2" = "2") %>% + dplyr::mutate("row" = purrr::map2( + .data$item1, + .data$item2, + shiny::fluidRow + )) %>% + dplyr::pull("row") + } + + cg_module_image_boxes <- make_image_boxes(cg_modules_tbl) + ici_module_image_boxes <- make_image_boxes(ici_modules_tbl) + sc_module_image_boxes <- make_image_boxes(sc_modules_tbl) + + # This is the tab item that users land on + landing_tab_item <- list(shinydashboard::tabItem( + tabName = "dashboard", + iatlas.modules::titleBox("CRI iAtlas Explorer - Home"), + iatlas.modules::sectionBox( + title = "What's Inside", + shiny::column( + width = 6, + shiny::includeMarkdown("inst/markdown/explore1.markdown") + ), + shiny::column( + width = 6, + shiny::verticalLayout( + readout_info_boxes[1:2], + readout_info_boxes[3:4] + ) + ) + ), + iatlas.modules::sectionBox( + title = "Get Started", + iatlas.modules::textBox( + width = 6, + shiny::p(shiny::h4(shiny::strong("1. Build your Cohort"))), + shiny::p("Use our cohort selector to explore the available data and narrow down your research targets."), + shiny::splitLayout( + shiny::actionButton("link_to_ici_cohort_selection", label = "Open ICI Cohort Selection"), + shiny::actionButton(inputId = "link_to_cg_cohort_selection", label = "Open CG Cohort Selection") + ) + ), + iatlas.modules::textBox( + width = 6, + shiny::p(shiny::h4(shiny::strong("2. Visualize your data"))), + shiny::p("Use our analysis modules to explore the selected cohorts. You can access the analysis modules from the sections below and from the left menu. Any changes in the selected cohort in step 1 will be automatically propagated to the corresponding modules.") + ) + ), + iatlas.modules::sectionBox( + title = "Single-cell RNA-seq data Analysis Modules", + iatlas.modules::messageBox( + width = 12, + shiny::includeMarkdown("inst/markdown/explore4.markdown") + ), + sc_module_image_boxes + ), + iatlas.modules::sectionBox( + title = "Immune Checkpoint Inhibition Analysis Modules", + iatlas.modules::messageBox( + width = 12, + shiny::includeMarkdown("inst/markdown/explore3.markdown") + ), + ici_module_image_boxes + ), + iatlas.modules::sectionBox( + title = "Cancer Genomics Analysis Modules", + iatlas.modules::messageBox( + width = 12, + shiny::includeMarkdown("inst/markdown/explore2.markdown") + ), + cg_module_image_boxes + ) + )) + + # These tabs are the result of calling the ui function of each module + module_tab_items <- + dplyr::bind_rows( + dplyr::select(modules_tbl, "label", "ui_function"), + dplyr::tibble( + "label" = c( + "sc_cohort_selection", + "cg_cohort_selection", + "ici_cohort_selection", + "data_info", + "ici_overview" + ), + "ui_function" = c( + iatlas.modules2::cohort_selection_ui, + iatlas.modules2::cohort_selection_ui, + iatlas.modules2::cohort_selection_ui, + data_info_ui, + ici_overview_ui + ) + ) + ) %>% + purrr::pmap(~shinydashboard::tabItem(tabName = .x, .y(.x))) + + body <- + do.call(shinydashboard::tabItems, c(landing_tab_item, module_tab_items)) %>% + shinydashboard::dashboardBody() + + # dashboard page ---- + shinydashboard::dashboardPage( + header = shinydashboard::dashboardHeader(disable = TRUE), + sidebar = sidebar, + body = body + ) +} diff --git a/apps/iatlas/app/R/extracellular_network_functions.R b/apps/iatlas/app/R/extracellular_network_functions.R new file mode 100644 index 0000000000..687b6e9c75 --- /dev/null +++ b/apps/iatlas/app/R/extracellular_network_functions.R @@ -0,0 +1,296 @@ +build_ecn_gene_choice_list <- function(){ + genes <- iatlasGraphQLClient::query_genes(gene_types = "extracellular_network") %>% + dplyr::select("hgnc", "entrez") %>% + dplyr::mutate("entrez" = stringr::str_c("gene:", .data$entrez)) %>% + tibble::deframe(.) + + list( + "Genesets" = c( + "Extracellular Network Genes" = "geneset:extracellular_network", + "Immunomodulator Genes" = "geneset:immunomodulator" + ), + "Genes" = genes + ) +} + +build_ecn_celltype_choice_list <- function(){ + features <- + iatlasGraphQLClient::query_features( + feature_classes = "Immune Cell Proportion - Common Lymphoid and Myeloid Cell Derivative Class" + ) %>% + dplyr::select("display", "name") %>% + tibble::deframe(.) %>% + c("All" = "All", .) +} + +get_selected_gene_ids <- function(gene_input_list){ + gene_inputs <- unlist(gene_input_list) + if(is.null(gene_inputs)) return(NULL) + genesets <- gene_inputs %>% + purrr::keep(., stringr::str_detect(., "^geneset:")) %>% + stringr::str_remove_all(., "^geneset:") + if(length(genesets) != 0){ + geneset_genes <- genesets %>% + iatlasGraphQLClient::query_genes(gene_types = .) %>% + dplyr::pull("entrez") + } else { + geneset_genes <- c() + } + genes <- gene_inputs %>% + purrr::keep(., stringr::str_detect(., "^gene:")) %>% + stringr::str_remove_all(., "^gene:") %>% + c(geneset_genes) %>% + unique() %>% + as.integer() %>% + sort() +} + +get_selected_celltypes <- function(celltype_input_list){ + celltype_input = unlist(celltype_input_list) + if("All" %in% celltype_input) { + celltypes <- iatlasGraphQLClient::query_features( + feature_classes = "Immune Cell Proportion - Common Lymphoid and Myeloid Cell Derivative Class" + ) %>% + dplyr::pull("name") + } else { + celltypes <- celltype_input + } + return(celltypes) +} + +get_gene_nodes <- function( + stratify, + dataset, + genes, + tags, + stratified_tags, + min_abundance +){ + n_tags <- find_n_tags(stratify) + + if(n_tags == 1){ + nodes <- + iatlasGraphQLClient::query_nodes( + datasets = dataset, + network = "Extracellular Network", + entrez = genes, + tag1 = tags, + n_tags = n_tags, + min_score = min_abundance / 100 + ) + }else{ + nodes <- + iatlasGraphQLClient::query_nodes( + datasets = dataset, + network = "Extracellular Network", + entrez = genes, + tag1 = stratified_tags, + tag2 = tags, + n_tags = n_tags, + min_score = min_abundance / 100 + ) + } + + nodes <- nodes %>% + dplyr::select( + "label" = "node_label", + "tags" = "tag_1_name", + "node_name" = "node_name", + "node_display" = "gene_hgnc", + "node_friendly" = "gene_friendly_name", + "score" = "node_score" + ) %>% + #filter_nodes_for_n_tags(n_tags) %>% + dplyr::mutate( + "node_friendly" = as.character(.data$node_friendly), + "node_friendly" = dplyr::if_else( + is.na(.data$node_friendly), + .data$node_display, + .data$node_friendly + ) + ) + #if(stratify) nodes <- filter_nodes_with_tag_name(nodes, stratified_tags) + unnest_nodes(nodes, stratify) +} + +get_feature_nodes <- function( + stratify, + dataset, + features, + tags, + stratified_tags, + min_abundance +){ + n_tags <- find_n_tags(stratify) + min_score <- min_abundance / 100 + + if(n_tags == 1){ + nodes <- + iatlasGraphQLClient::query_nodes( + datasets = dataset, + network = "Extracellular Network", + features = features, + tag1 = tags, + n_tags = n_tags, + min_score = min_abundance / 100 + ) + }else{ + nodes <- + iatlasGraphQLClient::query_nodes( + datasets = dataset, + network = "Extracellular Network", + features = features, + tag1 = stratified_tags, + tag2 = tags, + n_tags = n_tags, + min_score = min_abundance / 100 + ) + } + + nodes <- nodes %>% + dplyr::select( + "label" = "node_label", + "tags" = "tag_1_name", + "node_name" = "node_name", + "node_display" = "feature_display", + "node_friendly" = "feature_display", + "score" = "node_score" + ) + #if(stratify) nodes <- filter_nodes_with_tag_name(nodes, stratified_tags) + + nodes <- unnest_nodes(nodes, stratify) + + return(nodes) +} + +find_n_tags <- function(stratify){ + if(stratify) return(2) + else return(1) +} + +filter_nodes_for_n_tags <- function(data, n_tags){ + dplyr::filter( + data, + purrr::map_lgl(purrr::map_int(.data$tags, nrow), ~ .x == n_tags) + ) +} + +filter_nodes_with_tag_name <- function(data, names){ + dplyr::filter( + data, + purrr::map_lgl( + purrr::map(.data$tags, dplyr::pull, "name"), ~ any(names %in% .x) + ) + ) +} + +unnest_nodes <- function(data, stratify){ + if(nrow(data) == 0) { + data <- data %>% + dplyr::mutate("tag" = character()) %>% + dplyr::select( + "label", + "node_name", + "node_display", + "node_friendly", + "tag", + "score" + ) + return(data) + } + + result <- data %>% + tidyr::unnest("tags") %>% + dplyr::select( + "label", + "node_name", + "node_display", + "node_friendly", + "tag" = "tags", + "score" + ) + + if(stratify){ + result <- dplyr::filter( + result, .data$tag %in% c("C1", "C2", "C3", "C4", "C5", "C6") + ) + } + return(result) +} + +get_edges <- function(nodes, min_concordance){ + nodes <- dplyr::select( + nodes, "node_name", "node_display", "node_friendly", "tag" + ) + + node_names <- nodes %>% + dplyr::pull("node_name") %>% + unique() + + edges <- + iatlasGraphQLClient::query_edges( + min_score = min_concordance, + node1 = node_names, + node2 = node_names + ) + + if(nrow(edges) == 0) return(edges) + + edges %>% + dplyr::select("node1", "node2", "score") %>% + dplyr::inner_join(nodes, by = c("node1" = "node_name")) %>% + dplyr::select( + "score", + "node_display1" = "node_display", + "node_friendly1" = "node_friendly", + "node1", + "node2" + ) %>% + dplyr::inner_join(nodes, by = c("node2" = "node_name")) %>% + dplyr::select( + "score", + "node_display1", + "node_friendly1", + "node_display2" = "node_display", + "node_friendly2" = "node_friendly", + "node1", + "node2", + "tag" + ) +} + +filter_nodes <- function(nodes, edges){ + edges_nodes <- + c(edges$node1, edges$node2) %>% + unique() + + nodes %>% + dplyr::filter(.data$node_name %in% edges_nodes) %>% + dplyr::arrange("node_friendly") %>% + dplyr::select( + "id" = "node_friendly", + "Type" = "label", + "Node" = "node_display", + "FriendlyName" = "node_friendly", + "Group" = "tag", + "Abundance" = "score" + ) %>% + dplyr::distinct() %>% + as.data.frame() +} + +create_graph_json <- function(edges, nodes){ + + edges <- edges %>% + dplyr::select( + "source" = "node_friendly1", + "target" = "node_friendly2", + "interaction" = "tag", + "score" + ) %>% + as.data.frame() + + nodes <- dplyr::select(nodes, "id", "Type", "FriendlyName") %>% dplyr::distinct() + + cyjShiny::dataFramesToJSON(edges, nodes) +} diff --git a/apps/iatlas/app/R/extracellular_network_main_server.R b/apps/iatlas/app/R/extracellular_network_main_server.R new file mode 100644 index 0000000000..45166145f3 --- /dev/null +++ b/apps/iatlas/app/R/extracellular_network_main_server.R @@ -0,0 +1,316 @@ +# TODO: Stratification of groupsworks assuming at most 2 groups per node, +# and the second group is always Immune Subtypes. This should be generalized +# at some point. + +extracellular_network_main_server <- function( + id, + cohort_obj +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + show_stratify_option <- shiny::reactive({ + shiny::req(cohort_obj()) + all( + length(cohort_obj()$dataset_names) == 1, + cohort_obj()$dataset_names == "TCGA", + cohort_obj()$group_name == "TCGA_Study" + ) + }) + + output$show_stratify_option <- show_stratify_option + + shiny::outputOptions( + output, "show_stratify_option", suspendWhenHidden = FALSE + ) + + output$stratify_ui <- shiny::renderUI({ + shiny::checkboxInput( + ns("stratify"), + "Stratify by Immune Subtype", + value = F + ) + }) + + stratify <- shiny::reactive({ + if(!show_stratify_option()) return(F) + else return(input$stratify) + }) + + output$stratify <- shiny::reactive(stratify()) + + shiny::outputOptions( + output, "stratify", suspendWhenHidden = FALSE + ) + + group_choices <- shiny::reactive({ + choices <- + iatlasGraphQLClient::query_tags( + cohorts = cohort_obj()$dataset_names, + parent_tags = cohort_obj()$group_name + ) %>% + dplyr::pull("tag_name") + }) + + output$select_groups_ui <- shiny::renderUI({ + shiny::req(group_choices()) + if (cohort_obj()$group_name == "Immune_Subtype") { + shiny::checkboxGroupInput( + ns("group_selected"), + "Select Immune Subtype", + choices = group_choices(), + selected = c("C1", "C2"), + inline = TRUE + ) + } else { + shiny::selectInput( + ns("group_selected"), + "Select or Search for Subtype Subset", + choices = group_choices() + ) + } + }) + + output$select_statify_groups_ui <- shiny::renderUI({ + choices <- + iatlasGraphQLClient::query_tags( + parent_tags = "Immune_Subtype" + ) %>% + dplyr::pull("tag_name") + shiny::checkboxGroupInput( + ns("stratified_group_selected"), + "Select Immune Subtype", + choices = choices, + selected = c("C1", "C2"), + inline = TRUE + ) + }) + + output$select_style <- shiny::renderUI({ + shiny::selectInput( + ns("loadStyleFile"), + "Select Style", + choices = c( + "Edges - Immune Subtype" = + get_javascript_path("extracellular_network_stylesEdges"), + "Black Edges" = + get_javascript_path("extracellular_network_styles") + ) + ) + }) + + gene_choice_list <- shiny::reactive({ + build_ecn_gene_choice_list() + }) + + shiny::updateSelectizeInput( + session, + 'selected_genes', + choices = gene_choice_list(), + selected = "geneset:immunomodulator", + server = TRUE + ) + + output$select_celltypes <- shiny::renderUI({ + shiny::selectizeInput( + ns("selected_celltypes"), + "Select cells of interest (optional)", + choices = build_ecn_celltype_choice_list(), + selected = "All", + multiple = TRUE + ) + }) + + selected_genes <- shiny::reactive({ + shiny::req(input$selected_genes) + get_selected_gene_ids(input$selected_genes) + }) + + selected_celltypes <- shiny::reactive({ + shiny::req(input$selected_celltypes) + get_selected_celltypes(input$selected_celltypes) + }) + + gene_nodes <- shiny::eventReactive(input$calculate_button, { + get_gene_nodes( + stratify = stratify(), + dataset = cohort_obj()$dataset_names, + genes = selected_genes(), + tags = input$group_selected, + stratified_tags = input$stratified_group_selected, + min_abundance = input$abundance + ) + }) + + feature_nodes <- shiny::eventReactive(input$calculate_button, { + get_feature_nodes( + stratify(), + cohort_obj()$dataset_names, + selected_celltypes(), + input$group_selected, + input$stratified_group_selected, + input$abundance + ) + }) + + nodes <- shiny::reactive({ + + shiny::req(gene_nodes(), feature_nodes()) + dplyr::bind_rows(gene_nodes(), feature_nodes()) + }) + + edges <- shiny::reactive({ + shiny::req(nodes(), input$concordance) + edges <- get_edges(nodes(), input$concordance) + shiny::validate(shiny::need( + nrow(edges) > 0, + "No network for this selection. Try changing the thresholds or selecting another subset." + )) + return(edges) + }) + + output$select_node_ui <- shiny::renderUI({ + shiny::selectInput( + ns("node_selection"), + "Select or Search for Node", + choices = nodes() %>% + dplyr::select("node_display", "node_name") %>% + tibble::deframe(.) %>% + c(" " = 0, .), + selected = 0 + ) + }) + + filtered_nodes <- shiny::reactive({ + filter_nodes(nodes(), edges()) + }) + + graph_json <- shiny::reactive({ + create_graph_json(edges(), filtered_nodes()) + }) + + output$cyjShiny <- cyjShiny::renderCyjShiny({ + cyjShiny::cyjShiny( + graph_json(), + layoutName = input$do_layout, + styleFile = get_javascript_path("extracellular_network_stylesEdges") + ) + }) + + shiny::observeEvent(input$loadStyleFile, ignoreInit = TRUE, { + if (input$loadStyleFile != "") { + tryCatch({ + cyjShiny::loadStyleFile(input$loadStyleFile) + }, error = function(e) { + msg <- sprintf( + "ERROR in stylesheet file '%s': %s", + input$loadStyleFile, + e$message + ) + shiny::showNotification(msg, duration = NULL, type = "error") + }) + } + }) + + shiny::observeEvent(input$node_selection, ignoreInit = TRUE, { + session$sendCustomMessage( + type = "selectNodes", + message = list(as.integer(input$node_selection)) + ) + }) + + shiny::observeEvent(input$sfn, ignoreInit = TRUE, { + session$sendCustomMessage(type = "sfn", message = list()) + }) + + shiny::observeEvent(input$fit, ignoreInit = TRUE, { + cyjShiny::fit(session, 80) + }) + + shiny::observeEvent(input$fitSelected, ignoreInit = TRUE, { + cyjShiny::fitSelected(session, 100) + }) + + shiny::observeEvent(input$hideSelection, ignoreInit = TRUE, { + session$sendCustomMessage(type = "hideSelection", message = list()) + }) + + shiny::observeEvent(input$showAll, ignoreInit = TRUE, { + session$sendCustomMessage(type = "showAll", message = list()) + }) + + shiny::observeEvent(input$clearSelection, ignoreInit = TRUE, { + session$sendCustomMessage(type = "clearSelection", message = list()) + }) + + shiny::observeEvent(input$removeGraphButton, ignoreInit = TRUE, { + cyjShiny::removeGraph(session) + }) + + shiny::observeEvent(input$savePNGbutton, ignoreInit = TRUE, { + file.name <- tempfile(fileext = ".png") + shiny::savePNGtoFile(session, file.name) + }) + + edges_output <- shiny::reactive({ + edges() %>% + dplyr::mutate(Concordance = round(score, 3)) %>% + dplyr::select( + "From" = "node_display1", + "From (Friendly Name)" = "node_friendly1", + "To" = "node_display2", + "To (Friendly Name)" = "node_friendly2", + "Group" = "tag", + "Concordance" + ) + }) + + nodes_output <- shiny::reactive({ + filtered_nodes() %>% + dplyr::mutate(Abundance = round(Abundance, 3)) %>% + dplyr::select( + "Node", + "Friendly Name" = "FriendlyName", + "Type", + "Group", + "Abundance" + ) + }) + + output$download_edges <- shiny::downloadHandler( + filename = function() stringr::str_c("edges-", Sys.Date(), ".csv"), + content = function(con) readr::write_csv(edges_output(), con) + ) + + output$download_nodes <- shiny::downloadHandler( + filename = function() stringr::str_c("nodes-", Sys.Date(), ".csv"), + content = function(con) readr::write_csv(nodes_output(), con) + ) + + output$edges_dt <- DT::renderDataTable({ + shiny::req(edges_output()) + + DT::datatable( + edges_output(), + caption = "Edges Table", + width = "100%", + rownames = FALSE + ) + }) + + output$nodes_dt <- DT::renderDataTable({ + shiny::req(nodes_output()) + DT::datatable( + nodes_output(), + caption = "Nodes Table", + width = "100%", + rownames = FALSE + ) + }) + + } + ) +} diff --git a/apps/iatlas/app/R/extracellular_network_main_ui.R b/apps/iatlas/app/R/extracellular_network_main_ui.R new file mode 100644 index 0000000000..6e339b6228 --- /dev/null +++ b/apps/iatlas/app/R/extracellular_network_main_ui.R @@ -0,0 +1,133 @@ +extracellular_network_main_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox( + width = 24, + shiny::includeMarkdown(get_markdown_path( + "extracellular_network_main" + )) + ), + shiny::fluidRow( + shiny::column( + width = 3, + iatlas.modules::optionsBox( + width=24, + #this tags$head makes sure that the checkboxes are formatted appropriately + shiny::tags$head( + shiny::tags$style( + shiny::HTML( + ".checkbox-inline { + margin-left: 0px; + margin-right: 10px; + } + .checkbox-inline+.checkbox-inline { + margin-left: 0px; + margin-right: 10px; + } + " + ) + ) + ), + shiny::conditionalPanel( + condition = "output.show_stratify_option", + shiny::uiOutput(ns("stratify_ui")), + ns = ns + ), + shiny::uiOutput(ns("select_groups_ui")), + shiny::conditionalPanel( + condition = "output.stratify", + shiny::uiOutput(ns("select_statify_groups_ui")), + ns = ns + ), + + shiny::numericInput( + ns("abundance"), + "Set Abundance Threshold (%)", + value = 66, + min = 0, + max = 100 + ), + shiny::numericInput( + ns("concordance"), + "Set Concordance Threshold", + value = 2.94, + step = 0.01 + ), + + shiny::uiOutput(ns("select_celltypes")), + shiny::selectizeInput( + ns("selected_genes"), + "Select genes of interest (optional)", + choices = NULL, + multiple = TRUE), + + shiny::div( + class = "form-group shiny-input-container", + shiny::actionButton( + ns("calculate_button"), + shiny::tags$b("GO"), + width = "100%") + ), + shiny::hr(), + shiny::selectInput( + ns("do_layout"), + "Select Layout", + choices = c( + "", + "cose", + "cola", + "circle", + "concentric", + "breadthfirst", + "grid", + "random", + "dagre", + "cose-bilkent" + ), + selected = "cose"), + + shiny::uiOutput(ns("select_style")), + shiny::uiOutput(ns("selectNode")), + shiny::actionButton(ns("fitSelected"), "Fit Selected", width = "100%", style = 'white-space: pre-line'), + shiny::actionButton(ns("fit"), "Fit Graph", width = "100%", style = 'white-space: pre-line'), + shiny::actionButton(ns("sfn"), "Select First Neighbor", width = "100%", style = 'white-space: pre-line'), + shiny::actionButton(ns("clearSelection"), "Unselect Nodes", width = "100%", style = 'white-space: pre-line'), + shiny::actionButton(ns("hideSelection"), "Hide Selected Nodes", width = "100%", style = 'white-space: pre-line'), + shiny::actionButton(ns("showAll"), "Show All Nodes", width = "100%", style = 'white-space: pre-line'), + shiny::actionButton(ns("removeGraphButton"), "Remove Graph", width = "100%", style = 'white-space: pre-line') + ) + ), + shiny::column( + width = 9, + shiny::verticalLayout( + iatlas.modules::plotBox( + width = 24, + cyjShiny::cyjShinyOutput(ns("cyjShiny"), height = 800) %>% + shinycssloaders::withSpinner(.) + ), + shiny::img(src = "images/network_legend.png", width = "100%") + ) + ) + ), + iatlas.modules::messageBox( + width = 24, + "The tables describe the nodes and edges in the network displayed above. You can download the tables for further processing in network visualization softwares." + ), + shiny::fluidRow( + iatlas.modules::tableBox( + width = 5, + DT::DTOutput(ns("nodes_dt")) %>% + shinycssloaders::withSpinner(.), + shiny::downloadButton(ns('download_nodes'), 'Download') + ), + iatlas.modules::tableBox( + width = 7, + DT::DTOutput(ns("edges_dt")) %>% + shinycssloaders::withSpinner(.), + shiny::downloadButton(ns('download_edges'), 'Download') + ) + ) + ) +} diff --git a/apps/iatlas/app/R/extracellular_network_server.R b/apps/iatlas/app/R/extracellular_network_server.R new file mode 100644 index 0000000000..e61857b4ff --- /dev/null +++ b/apps/iatlas/app/R/extracellular_network_server.R @@ -0,0 +1,44 @@ +extracellular_network_server <- function(id, cohort_obj){ + shiny::moduleServer( + id, + function(input, output, session) { + + show_submodule <- shiny::reactive({ + function(cohort_obj){ + any( + all( + length(cohort_obj$dataset_names) == 1, + cohort_obj$dataset_names == "TCGA", + cohort_obj$group_name %in% c( + "Immune_Subtype", "TCGA_Subtype", "TCGA_Study" + ) + ), + all( + length(cohort_obj$dataset_names) == 1, + cohort_obj$dataset_names == "PCAWG", + cohort_obj$group_name %in% c( + "Immune_Subtype", "PCAWG_Study" + ) + ) + ) + } + }) + + call_module_server( + "extracellular_network_main", + cohort_obj, + server_function = extracellular_network_main_server, + ui_function = extracellular_network_main_ui, + test_function = show_submodule, + warning_message = stringr::str_c( + "The Extracellular Network is only currently computed for ", + "dataset TCGA with groups Immune Subtype, TCGA Subtype, and TCGA Study, ", + "and dataset PCAWG with groups Immune Subtype, and PCAWG Study, " + ) + ) + } + ) +} + + + diff --git a/apps/iatlas/app/R/extracellular_network_ui.R b/apps/iatlas/app/R/extracellular_network_ui.R new file mode 100644 index 0000000000..c237020b35 --- /dev/null +++ b/apps/iatlas/app/R/extracellular_network_ui.R @@ -0,0 +1,20 @@ +extracellular_network_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "CRI iAtlas Explorer — Extracellular Networks" + ), + iatlas.modules::textBox( + width = 12, + shiny::includeMarkdown(get_markdown_path( + "extracellular_network" + )) + ), + iatlas.modules::sectionBox( + title = "Extracellular networks", + module_ui(ns("extracellular_network_main")) + ) + ) +} diff --git a/apps/iatlas/app/R/forestplot.R b/apps/iatlas/app/R/forestplot.R new file mode 100644 index 0000000000..333ac2a3ce --- /dev/null +++ b/apps/iatlas/app/R/forestplot.R @@ -0,0 +1,29 @@ +create_forestplot_plotly <- function( + x, + y, + error, + plot_title = "", + xlab = NULL +){ + + plotly::plot_ly( + type='scatter', + mode="markers", + y= y, + x= x, + marker = list(color='#000000'), + showlegend = F, + error_x=list(visible = T, + type = "data", + symmetric = T, + array=error, + color = '#000000')) %>% + plotly::layout( + autosize = TRUE, + font = list( + family = "Roboto, Open Sans, sans-serif"), + xaxis=list(title=xlab, + zeroline=T, + showticklabels=T))%>% + add_title_subplot_plotly(plot_title) +} diff --git a/apps/iatlas/app/R/format.R b/apps/iatlas/app/R/format.R new file mode 100644 index 0000000000..cdf953b77b --- /dev/null +++ b/apps/iatlas/app/R/format.R @@ -0,0 +1,175 @@ + +# common plot theme +theme_1012 <- ggplot2::theme( + axis.text = ggplot2::element_text(face = "bold", size = 10, color = "black"), + axis.title = ggplot2::element_text(face = "bold", size = 12, color = "black"), + panel.border = ggplot2::element_rect(colour = "black", size = 1), + strip.text = ggplot2::element_text(face = "bold", size = 10, color = "black"), + strip.background = ggplot2::element_rect(colour = "black", size = 1), + title = ggplot2::element_text(face = "bold", size = 14, color = "black"), + legend.text = ggplot2::element_text(face = "bold", size = 8, color = "black") +) + +get_top_margin <- function(p) { + t <- 0 + if ("layoutAttrs" %in% names(p$x)) { + p_layout_data <- p$x$layoutAttrs[[length(p$x$layoutAttrs)]] + if (!is.null(p_layout_data$title)) { + t <- p_layout_data$font$size * 2 %>% + ceiling(.) + } + } + t +} + +get_margins_plotly <- function(p, font_size = 12) { + + xlabbuffer <- 0 + ylabbuffer <- 0 + if ("layoutAttrs" %in% names(p$x)) { + p_layout_data <- p$x$layoutAttrs[[1]] + if (length(p_layout_data$xaxis$title) > 0) { + xlabbuffer <- font_size * 3 %>% + ceiling(.) + } + if (length(p_layout_data$yaxis$title) > 0) { + ylabbuffer <- font_size * 3 %>% + ceiling(.) + } + } + + p_data <- p$x$attrs[[length(p$x$attrs)]] + + xlabangle <- 0 + xlabmax <- 1 + if (class(p_data$x) == "character") { + xlabs <- p_data$x + xlabangle <- purrr::map( + p$x$layoutAttrs, + ~ .[["xaxis"]][["tickangle"]] + ) %>% + purrr::discard(is.null) %>% + unlist() + xlabmax <- xlabs %>% + purrr::map_int(stringr::str_length) %>% + max(na.rm = TRUE) + } + xmultiplier <- abs(sin(xlabangle * pi/180)) + + + if (p_data$type %in% c("heatmap")) { + ylabs <- p_data$y + ylabmax <- ylabs %>% + purrr::map_int(stringr::str_length) %>% + max(na.rm = TRUE) + } else { + ylabmax <- 1 + } + + list( + b = xlabbuffer %>% + magrittr::add( + ., + max(font_size - 1, (font_size - 1) * (xlabmax + 1 * xmultiplier) - xlabmax) + ) %>% + ceiling(.), + l = ylabbuffer %>% + magrittr::add( + ., + max(font_size - 3, (font_size - 3) * ylabmax - ylabmax) + ) %>% + ceiling(.), + t = get_top_margin(p) + ) +} + +get_margins <- function(p, font_size = 12) { + if (!("xaxis" %in% names(p$x$layout))) { + return(get_margins_plotly(p, font_size)) + } + if (stringr::str_length(p$x$layout$xaxis$title$text) > 0) { + xlabbuffer <- (p$x$layout$xaxis$title$font$size - 6) * 3 %>% + ceiling(.) + } else { + xlabbuffer <- 0 + } + + xlabs <- p$x$layout$xaxis$categoryarray + xlabangle <- p$x$layout$xaxis$tickangle + xlabmax <- xlabs %>% + purrr::map_int(stringr::str_length) %>% + max(na.rm = TRUE) + xlabfontsize <- dplyr::if_else( + !is.null(font_size), + min(font_size, p$x$layout$xaxis$tickfont$size), + p$x$layout$xaxis$tickfont$size + ) %>% + ceiling(.) + xmultiplier <- abs(sin(xlabangle * pi/180)) + + if (stringr::str_length(p$x$layout$yaxis$title$text) > 0) { + ylabbuffer <- (p$x$layout$yaxis$title$font$size - 6) * 3 %>% + ceiling(.) + } else { + ylabbuffer <- 0 + } + + ylabs <- p$x$layout$yaxis$categoryarray + + ylabangle <- p$x$layout$yaxis$tickangle + ylabmax <- ylabs %>% + purrr::map_int(stringr::str_length) %>% + max(na.rm = TRUE) + ylabfontsize <- dplyr::if_else( + !is.null(font_size), + min(font_size, p$x$layout$yaxis$tickfont$size), + p$x$layout$yaxis$tickfont$size + ) %>% + ceiling(.) + ymultiplier <- abs(cos(ylabangle * pi/180)) + list( + b = xlabbuffer %>% + magrittr::add( + ., + max(xlabfontsize, (xlabfontsize - 2) * (xlabmax + 1 * xmultiplier)) + ) %>% + ceiling(.), + l = ylabbuffer %>% + magrittr::add( + ., + max(ylabfontsize, ylabfontsize * (ylabmax * ymultiplier)) + ) %>% + ceiling(.), + t = get_top_margin(p) + ) +} + +format_plotly <- function(p) { + font_size <- 13 + p %>% + plotly::layout( + font = list( + family = "Roboto, Open Sans, sans-serif", + size = font_size), + margin = get_margins(p, font_size) + ) %>% + plotly::config(displayModeBar = T, + toImageButtonOptions = list( + format = "svg")) +} + +add_title_subplot_plotly <- function(p, plot_title){ + p %>% + plotly::add_annotations( + text = plot_title, + x = 0.5, + y = 1, + yref = "paper", + xref = "paper", + xanchor = "center", + yanchor = "top", + yshift = 30, + showarrow = FALSE, + font = list(family = "Roboto, Open Sans, sans-serif", + size = 15)) +} diff --git a/apps/iatlas/app/R/germline_functions.R b/apps/iatlas/app/R/germline_functions.R new file mode 100644 index 0000000000..caf083c4ab --- /dev/null +++ b/apps/iatlas/app/R/germline_functions.R @@ -0,0 +1,115 @@ +#Heritability functions + +#' Prepare heritability tibble for plotting +#' +#' @param heritablity_data A tibble +#' @param parameter Parameter to be used for selection of results (eg, ancestry cluster, immune feature) +#' @param group Specific group, in the selected parameter, to be displayed (eg. European - ancestry cluster, NK cells - immune feature) +#' @param ancestry_labels A list +#' @param pval_thres Maximun p-value to be included +#' +#' @importFrom magrittr %>% + +create_heritability_df <- function( + heritablity_data, + parameter = "cluster", + group = "European", + pval_thres = 0.05, + ancestry_labels +){ + + ancestry_df <- names(ancestry_labels) + names(ancestry_df) <- ancestry_labels + + df <- heritablity_data %>% + dplyr::filter(.[[parameter]] == group) %>% + dplyr::filter(p_value <= pval_thres) %>% + dplyr::filter(variance >= 0) %>% + dplyr::mutate(plot_annot = dplyr::case_when( + fdr <= 0.001 ~"***", + fdr <= 0.01 ~"**", + fdr <= 0.05 ~ "*", + fdr <= 0.1 ~"+", + fdr > 0.1 ~ "" + )) %>% + iatlas.modules::create_plotly_text( + paste(.data$feature_display, "- ", ancestry_df[cluster], "Ancestry"), + paste("\n Immune Trait Category:",.data$feature_germline_category, "\n Immune Trait Module:", .data$feature_germline_module), + cols = c("variance", "se", "p_value","fdr"), + title = "Immune Trait" + ) + + #creating the y label + if(parameter == "cluster") df <- df %>% dplyr::mutate(ylabel = feature_display) + else if (parameter == "feature_germline_category" | parameter == "feature_germline_module") + df <- df %>% dplyr::mutate(ylabel = paste(ancestry_df[cluster], feature_display, sep = " - ")) + else df <- df %>% dplyr::mutate(ylabel = paste(ancestry_df[cluster], .[[parameter]], sep = " - ")) +} + +format_heritability_plot <- function(p, hdf, fdr = FALSE){ + p <- p %>% + plotly::layout( + xaxis = list( + tickformat = "%" + ) + ) %>% + plotly::colorbar(title = "-log10(p-value)") + if(fdr == TRUE){ + p <- p %>% + plotly::add_annotations(x = hdf$variance+hdf$se+0.01, + y = hdf$ylabel, + text = (hdf$plot_annot), + xref = "x", + yref = "y", + showarrow = F, + font=list(color='black')) %>% + plotly::add_annotations( text="LRT FDR \n + <= 0.1 \n * <= 0.05 \n ** <= 0.01 \n *** <= 0.001", xref="paper", yref="paper", + x=1.03, xanchor="left", + y=0, yanchor="bottom", + legendtitle=TRUE, showarrow=FALSE ) + } + p +} + + +format_gwas_df <- function(df){ + df %>% + dplyr::select(SNP = snp_rsid, + 'SNP id' = snp_name, + CHR = snp_chr, + POS = snp_bp, + 'P.VALUE'= p_value, + Trait = feature_display, + 'Immune Trait Module' = feature_germline_module, + 'Immune Trait Category' = feature_germline_category) +} + +create_snp_popup_tbl <- function(track_event){ + attribute.name.positions <- grep("name", names(track_event[1:16])) + attribute.value.positions <- grep("value", names(track_event[1:16])) + attribute.names <- as.character(track_event)[attribute.name.positions] + attribute.values <- as.character(track_event)[attribute.value.positions] + tbl <- data.frame(name=attribute.names, + value=attribute.values, + stringsAsFactors=FALSE) + dialogContent <- renderTable(tbl) + HTML(dialogContent()) +} + +get_snp_links <- function(rsid, snpid){ + dbsnp <- paste0("https://www.ncbi.nlm.nih.gov/snp/", rsid) + gtex <- paste0("https://gtexportal.org/home/snp/", rsid) + gwascat <- paste0("https://www.ebi.ac.uk/gwas/search?query=", rsid) + pheweb <- paste0("http://pheweb-tcga.qcri.org/variant/", gsub(':([[:upper:]])', "-\\1", snpid)) + dice <- paste0("https://dice-database.org/eqtls/", rsid) + + shiny::p(shiny::strong(rsid), shiny::tags$br(), + snpid, shiny::tags$br(), + "View more SNP information at", + shiny::tags$a(href = dbsnp, "dbSNP, "), + shiny::tags$a(href = gtex, "GTEx, "), + shiny::tags$a(href = gwascat, "GWAS Catalog, "), + shiny::tags$a(href = pheweb, "PheWeb, "), + shiny::tags$a(href = dice, "DICE") + ) +} diff --git a/apps/iatlas/app/R/germline_gwas_server.R b/apps/iatlas/app/R/germline_gwas_server.R new file mode 100644 index 0000000000..7979d4dd11 --- /dev/null +++ b/apps/iatlas/app/R/germline_gwas_server.R @@ -0,0 +1,251 @@ +germline_gwas_server <- function(id, cohort_obj){ + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + if(!dir.exists("tracks")) + dir.create("tracks") + addResourcePath("tracks", "tracks") + + gwas_data <- reactive({ + iatlasGraphQLClient::query_germline_gwas_results(datasets = "TCGA") + }) + + immune_feat <- reactive({ + iatlas.modules::create_nested_named_list( + gwas_data() %>% dplyr::select(feature_display, feature_name, feature_germline_module) %>% dplyr::distinct(), + names_col1 = "feature_germline_module", + names_col2 = "feature_display", + values_col = "feature_name" + ) + }) + + shiny::updateSelectizeInput(session, 'immunefeature', + choices = immune_feat(), + selected = c("Wolf_MHC2_21978456", "Bindea_Th17_cells"), #default to exclude that, as suggested by manuscript authors + server = FALSE) + + snp_options <- reactive({ + shiny::req(gwas_data()) + gwas_data() %>% dplyr::filter(!is.na(snp_rsid)) %>% dplyr::pull(snp_rsid) + }) + + shiny::updateSelectizeInput(session, 'snp_int', + choices = c("", snp_options()), + selected = "", + server = TRUE) + + subset_gwas <- shiny::reactive({ + if(is.null(input$immunefeature)){ + gwas_data() %>% format_gwas_df() + }else{ + if(input$feature_action == "Exclude") gwas_data() %>% dplyr::filter(!(feature_name %in% input$immunefeature)) %>% format_gwas_df() + else gwas_data() %>% dplyr::filter(feature_name %in% input$immunefeature) %>% format_gwas_df() + } + }) + + trackname <- shiny::reactive({ + if(is.null(input$immunefeature)) "GWAS" + else paste("GWAS -", + input$feature_action, + paste(gwas_data() %>% dplyr::filter(feature_name %in% input$immunefeature) %>% purrr::pluck("feature_display") %>% unique(), + collapse = ", ")) + }) + + yaxis <- shiny::reactive({ + c(min(-log10(subset_gwas()$P.VALUE)-1), + max(-log10(subset_gwas()$P.VALUE)+1) + ) + }) + + output$igv_plot <- igvShiny::renderIgvShiny({ + genomeOptions <- igvShiny::parseAndValidateGenomeSpec(genomeName="hg19", initialLocus="all") + igvShiny::igvShiny(genomeOptions, + displayMode="SQUISHED") + }) + + shiny::observeEvent(input$igvReady, { + containerID <- input$igvReady + igvShiny::loadGwasTrack(session, id=session$ns("igv_plot"), + trackName=trackname(), + tbl=subset_gwas(), + ymin = yaxis()[1], + ymax = yaxis()[2], + deleteTracksOfSameName=FALSE) + }) + + shiny::observeEvent(input$addGwasTrackButton, { + igvShiny::loadGwasTrack(session, id=session$ns("igv_plot"), + trackName=trackname(), + tbl=subset_gwas(), + ymin = yaxis()[1], + ymax = yaxis()[2], + deleteTracksOfSameName=FALSE) + }) + + #adding interactivity to select a SNP from the plot or from the dropdown menu + clicked_snp <- shiny::reactiveValues(ev=NULL) + + shiny::observeEvent(input$trackClick,{ + x <- input$trackClick + #we need to discover which track was clicked + if(x[1] == "SNP"){ + clicked_snp$ev <- x[2] + shiny::showModal(shiny::modalDialog(create_snp_popup_tbl(x), easyClose=TRUE)) + } + }) + + snp_of_int <- shiny::reactiveValues(ev="") + + shiny::observeEvent(clicked_snp$ev,{ + snp_of_int$ev <- clicked_snp$ev + }) + + shiny::observeEvent(input$snp_int,{ #search for selected SNP + igvShiny::showGenomicRegion(session, id=session$ns("igv_plot"), input$snp_int) #update region on IGV plot + snp_of_int$ev <- input$snp_int + }) + + selected_snp <- shiny::reactive({ + shiny::validate( + shiny::need(!is.null(snp_of_int$ev), + "Click manhattan plot to select a SNP.")) + + gwas_data() %>% + dplyr::filter(snp_rsid == snp_of_int$ev) %>% + dplyr::mutate(nlog = round(-log10(p_value), 2)) %>% + dplyr::select(snp_rsid, snp_name, snp_chr, snp_bp, feature_display, nlog) + }) + + output$links <- renderUI({ + shiny::validate( + shiny::need(selected_snp()$snp_rsid %in% gwas_data()$snp_rsid, "Select SNP") + ) + get_snp_links(selected_snp()$snp_rsid[1], + selected_snp()$snp_name[1]) + }) + + output$snp_tbl <- DT::renderDT({ + shiny::req(gwas_data()) + shiny::validate( + shiny::need(selected_snp()$snp_rsid %in% gwas_data()$snp_rsid, "") + ) + + DT::datatable( + selected_snp() %>% + dplyr::select( + Trait = feature_display, + `-log10(p)` = nlog), + rownames = FALSE, + caption = paste("GWAS hits"), + options = list(dom = 't') + ) + }) + + #COLOCALIZATION + # coloc_label <- reactive({ + # switch( + # input$selection, + # "See all chromosomes" = "for all chromosomes", + # "Select a region" = paste("for chromosome", selected_chr()) + # ) + # }) + ##TCGA + col_tcga <- reactive({ + iatlasGraphQLClient::query_colocalizations(coloc_datasets = "TCGA") %>% + dplyr::filter(coloc_dataset_name == "TCGA") %>% + dplyr::select("Plot" = plot_type, "SNP" = snp_rsid, Trait = feature_display, QTL = qtl_type, Gene = gene_hgnc, `Causal SNPs` = ecaviar_pp, Splice = splice_loc, CHR = snp_chr, plot_link) + }) + + output$colocalization_tcga <- DT::renderDT({ + + DT::datatable( + col_tcga() %>% dplyr::select(!plot_link), + escape = FALSE, + rownames = FALSE, + caption = "TCGA colocalization plots available", #paste("TCGA colocalization plots available ", coloc_label()), + selection = 'single', + options = list( + pageLength = 5, + lengthMenu = c(5, 10, 15, 20) + ) + ) + }) + + output$tcga_colocalization_plot <- shiny::renderUI({ + shiny::req(selected_snp(), input$colocalization_tcga_rows_selected) + + shiny::validate( + shiny::need( + !is.null(input$colocalization_tcga_rows_selected), "Click on table to see plot")) + + link_plot <- as.character(col_tcga()[input$colocalization_tcga_rows_selected, "plot_link"]) + + tags$div( + tags$hr(), + tags$img(src = link_plot, + width = "100%") + ) + }) + + ##GTEX + col_gtex <- reactive({ + iatlasGraphQLClient::query_colocalizations(coloc_datasets = "GTEX") %>% + dplyr::filter(coloc_dataset_name == "GTEX") %>% + dplyr::select("SNP" = snp_rsid, Trait = feature_display, QTL = qtl_type, Gene = gene_hgnc, Tissue = tissue, Splice = splice_loc, CHR = snp_chr, plot_link) + }) + + output$colocalization_gtex <- DT::renderDT({ + + DT::datatable( + col_gtex()%>% dplyr::select(!c(plot_link, Splice)), + escape = FALSE, + rownames = FALSE, + caption = "GTEX colocalization plots available ", #paste("GTEX colocalization plots available ", coloc_label()), + selection = 'single', + options = list( + pageLength = 5, + lengthMenu = c(5, 10, 15, 20) + ) + ) + }) + + output$gtex_colocalization_plot <- shiny::renderUI({ + shiny::req(input$colocalization_gtex_rows_selected) + + shiny::validate( + shiny::need( + !is.null(input$colocalization_gtex_rows_selected), "Click on table to see plot")) + + link_plot <- as.character(col_gtex()[input$colocalization_gtex_rows_selected, "plot_link"]) + + tags$div( + tags$hr(), + tags$p(paste("GTEX Splice ID: ", as.character(col_gtex()[input$colocalization_gtex_rows_selected, "Splice"]))), + tags$img(src = link_plot, + width = "100%") + ) + }) + + observeEvent(input$method_link_gwas,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/methods/germline-gwas.md"), + easyClose = TRUE, + footer = NULL + )) + }) + + observeEvent(input$method_link_colocalization,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/methods/germline-colocalization.md"), + easyClose = TRUE, + footer = NULL + )) + }) + } + ) +} diff --git a/apps/iatlas/app/R/germline_gwas_ui.R b/apps/iatlas/app/R/germline_gwas_ui.R new file mode 100644 index 0000000000..0ef100e462 --- /dev/null +++ b/apps/iatlas/app/R/germline_gwas_ui.R @@ -0,0 +1,84 @@ +germline_gwas_ui <- function(id){ + + ns <- shiny::NS(id) + shiny::tagList( + iatlas.modules::messageBox( + width = 12, + shiny::includeMarkdown("inst/markdown/germline_gwas.markdown"), + shiny::p("GWAS results can also be visualized in ", + a(href = "https://pheweb-tcga.qcri.org/about", "Pheweb.")), + shiny::actionLink(ns("method_link_gwas"), "Click to view method description.") + ), + shiny::column( + width = 9, + iatlas.modules::optionsBox( + width = 12, + shiny::column( + width = 3, + shiny::radioButtons(ns("feature_action"), "Select or Exclude?", choices = c("Select", "Exclude"), selected = "Exclude") + ), + shiny::column( + width = 6, + shiny::selectizeInput(ns('immunefeature'), "Choose Immune Feature(s)", + choices = NULL, + multiple = TRUE) + ), + shiny::column( + width = 3, + shiny::br(), + shiny::actionButton(ns("addGwasTrackButton"), "Add GWAS Track"), + align = "center" + ) + ), + iatlas.modules::plotBox( + width = 12, + igvShiny::igvShinyOutput(ns('igv_plot'), height = NULL) %>% + shinycssloaders::withSpinner(.) + ) + ), + shiny::column( + width = 3, + shiny::verticalLayout( + iatlas.modules::optionsBox( + width = 12, + shiny::selectInput(ns("snp_int"), "Click on the plot or search for a SNP id:", + choices = NULL) + #shiny::uiOutput(ns("search_snp")) + ), + iatlas.modules::messageBox( + width = 12, + shiny::uiOutput(ns("links")) + ), + iatlas.modules::tableBox( + width = 12, + DT::DTOutput(ns("snp_tbl")) + ) + ) + ), + iatlas.modules::messageBox( + width = 12, + shiny::p("We conducted a GWAS paired with colocalization analyses, with eQTL and sQTL analyses performed in TCGA and GTEx. + Results with a Colocalization Posterior Probability (CLPP) > 0.01 are summarized in the tables below."), + shiny::p("Click on a table row to visualize the plot."), + shiny::actionLink(ns("method_link_colocalization"), "Click to view method description.") + ), + shiny::fluidRow( + iatlas.modules::tableBox( + width = 6, + div( + DT::DTOutput(ns("colocalization_tcga")) %>% + shinycssloaders::withSpinner(.), + style = "font-size: 75%"), + shiny::uiOutput(ns("tcga_colocalization_plot")) + ), + iatlas.modules::tableBox( + width = 6, + div( + DT::DTOutput(ns("colocalization_gtex")) %>% + shinycssloaders::withSpinner(.), + style = "font-size: 75%"), + shiny::uiOutput(ns("gtex_colocalization_plot")) + ) + ) +) +} diff --git a/apps/iatlas/app/R/germline_heritability_server.R b/apps/iatlas/app/R/germline_heritability_server.R new file mode 100644 index 0000000000..eb7dbcdd59 --- /dev/null +++ b/apps/iatlas/app/R/germline_heritability_server.R @@ -0,0 +1,137 @@ +germline_heritability_server <- function(id, cohort_obj){ + shiny::moduleServer( + id, + function(input, output, session) { + + heritability <- reactive({ + iatlasGraphQLClient::query_heritability_results(datasets = "TCGA") + }) + + ancestry_options <- reactive({ + c("Ad Mixed American" = "American", "African" = "African", "Asian" = "Asian", "European"= "European", "European by Immune Subtype" = "European_immune") + }) + + ns <- session$ns + + output$selection_options <- renderUI({ + shiny::req(input$parameter, heritability()) + + if(input$parameter == "cluster") opt <- ancestry_options() + + if(input$parameter == "feature_display"){ + opt <- heritability() %>% + dplyr::filter(!is.na(feature_name)) %>% + dplyr::select(feature_display,feature_germline_module) %>% + dplyr::group_by(feature_germline_module) %>% + tidyr::nest(data = c(feature_display))%>% + dplyr::mutate(data = purrr::map(data, tibble::deframe)) %>% + tibble::deframe() + } + if(input$parameter == "feature_germline_category") opt <- na.omit(unique(heritability()$feature_germline_category)) + if(input$parameter == "feature_germline_module") opt <- unique(heritability()$feature_germline_module) + + shiny::selectizeInput(ns("group"), "Show associated results for", choices = opt, selected = opt[4]) + + }) + + plot_title <- reactive({ + if(input$parameter == "cluster"){ + if(input$group != "European_immune") "V(Genotype)/Vp" + else "V(Genotype x Immune Subtype)/Vp" + } else{ + paste("V(Genotype)/Vp", input$group, sep = " - ") + } + }) + + hdf <- reactive({ + shiny::req(input$group) + create_heritability_df( + heritablity_data = heritability(), + parameter = input$parameter, + group = input$group, + pval_thres =input$pvalue, + ancestry_labels = ancestry_options() + ) + }) + + output$heritability <- plotly::renderPlotly({ + shiny::req(hdf()) + shiny::validate( + shiny::need(nrow(hdf())>0, "No Immune Trait with a p-value lower than selected.") + ) + + #order bars + if(is.numeric(hdf()[[input$order_bars]])) plot_levels <-levels(reorder(hdf()[["ylabel"]], hdf()[[input$order_bars]], sort)) + else plot_levels <- (hdf() %>% + dplyr::arrange(.[[input$order_bars]], variance))$ylabel %>% + as.factor() + + hdf() %>% + dplyr::mutate('Neg_log10_p_value' = -log10(p_value)) %>% #changing column name to legend title display + create_barplot_horizontal( + df = ., + x_col = "variance", + y_col = "ylabel", + error_col = "se", + key_col = NA, + color_col = "Neg_log10_p_value", + label_col = "text", + xlab = "Heritability", + ylab = "", + order_by = plot_levels, + title = plot_title(), + showLegend = TRUE, + legendTitle = "LRT \n p-value", + source_name = "heritability_plot", + bar_colors = NULL + ) %>% + format_heritability_plot(., hdf(), fdr = TRUE) + }) + + # output$heritability_cov <- plotly::renderPlotly({ + # + # eventdata <- plotly::event_data( "plotly_click", source = "heritability_plot") + # sub_clusters <- c("Covar:Immune Subtype", "C1", "C2", "C3") + # + # shiny::validate( + # shiny::need(!is.null(eventdata), + # "Click bar plot")) + # selected_plot_trait <- eventdata$y[[1]] + # + # hdf_plot <- germline_data$heritability %>% + # dplyr::filter(cluster %in% sub_clusters & display == selected_plot_trait) + # + # plot_colors <- c("#bebebe", "#FF0000", "#FFFF00", "#00FF00") + # names(plot_colors) <- sub_clusters + # + # hdf_plot$cluster <- factor(hdf_plot$cluster, levels = c("C3", "C2", "C1", "Covar:Immune Subtype" )) + # + # create_barplot_horizontal( + # df = hdf_plot, + # x_col = "Variance", + # y_col = "cluster", + # error_col = "SE", + # key_col = NA, + # color_col = "cluster", + # label_col = NA, + # xlab = "Heritability", + # ylab = "", + # title = paste("Random data for", selected_plot_trait), + # showLegend = FALSE, + # source_name = NULL, + # bar_colors = plot_colors + # ) %>% + # format_heritability_plot(., hdf_plot, fdr = FALSE) + # }) + + observeEvent(input$method_link,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/methods/germline_heritability.md"), + easyClose = TRUE, + footer = NULL + )) + }) + } + ) +} diff --git a/apps/iatlas/app/R/germline_heritability_ui.R b/apps/iatlas/app/R/germline_heritability_ui.R new file mode 100644 index 0000000000..5542de308c --- /dev/null +++ b/apps/iatlas/app/R/germline_heritability_ui.R @@ -0,0 +1,67 @@ +germline_heritability_ui <- function(id){ + + ns <- shiny::NS(id) + shiny::tagList( + iatlas.modules::messageBox( + width = 12, + shiny::includeMarkdown("inst/markdown/germline_heritability.markdown"), + shiny::actionLink(ns("method_link"), "Click to view method description.") + ), + iatlas.modules::optionsBox( + width = 3, + shiny::column( + width = 12, + shiny::selectizeInput(ns("parameter"), "Subset by", + choices = c("Ancestry" = "cluster", + "Immune Feature" = "feature_display", + "Immune Category" = "feature_germline_category", + "Immune Module" = "feature_germline_module" + ), + selected = "Ancestry"), + shiny::uiOutput(ns("selection_options")), + shiny::sliderInput(ns("pvalue"), + "Select p-value threshold", + min = 0, max = 0.5, value = 0.05, step = 0.01), + shiny::selectizeInput(ns("order_bars"), + "Order bars by ", + choices = list("V(Genotype)/Vp" = "variance", + "LRT p-value" = "p_value", + "LRT FDR" = "fdr", + "Immune Trait Category" = "feature_germline_category", + "Immune Trait Module" = "feature_germline_module", + "Ancestry" = "cluster" + ), + selected = "variance") + ) + ), + iatlas.modules::plotBox( + width = 9, + plotly::plotlyOutput(ns("heritability"), height = "700px") %>% + shinycssloaders::withSpinner(.) + ), + shiny::conditionalPanel(paste0("input['", ns("group"), "'] == 'European_immune'"), #& input['", ns("byImmune"), "'] == 1"), + shiny::column( + width = 6, + iatlas.modules::messageBox( + width = 12, + shiny::p("Click on a bar on the plot above and see immune subtype-specific heritability analysis conducted for + immune traits with significant (p < 0.05) G x Immune Subtype interaction. Heritability was calculated in three of the + six immune subtype groups with sufficient cohort size: C1 Wound Healing (n=1752), C2 IFN-γ + dominant (n=1813), and C3 Inflammatory (n=1737), as well as with immune subtype as an + additional covariate.") + ) + ), + shiny::column( + width = 6, + iatlas.modules::plotBox( + width = 12, + plotly::plotlyOutput(ns("heritability_cov"), height = "300px") %>% + shinycssloaders::withSpinner(.) + ) + ) + ) + + #) + +) +} diff --git a/apps/iatlas/app/R/germline_rarevariants_server.R b/apps/iatlas/app/R/germline_rarevariants_server.R new file mode 100644 index 0000000000..e46fb3f947 --- /dev/null +++ b/apps/iatlas/app/R/germline_rarevariants_server.R @@ -0,0 +1,76 @@ +germline_rarevariants_server <- function(id, cohort_obj){ + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + rv_data <- reactive({ + iatlasGraphQLClient::query_rare_variant_pathway_associations(datasets = "TCGA") + }) + + + trait_choices <- reactive({ + iatlas.modules::create_nested_named_list( + rv_data(), + names_col1 = "feature_germline_category", + names_col2 = "feature_display", + values_col = "feature_name" + ) + }) + + shiny::updateSelectizeInput(session, 'feature', + choices = trait_choices(), + selected = "Bindea_CD8_T_cells", + server = TRUE) + + selected_data <- reactive({ + rv_data() %>% + dplyr::filter(feature_name == input$feature) %>% + dplyr::mutate(pathway = stringr::str_replace_all(pathway, "_", " ")) + }) + + output$dist_plot <- plotly::renderPlotly({ + shiny::req(input$feature) + + df <- selected_data() %>% tidyr::drop_na() + plot_levels <- (df %>% dplyr::arrange(desc(.[[input$order_box]])))$pathway + + create_boxplot_from_summary_stats( + df, + "pathway", + "q1", + "q2", + "q3", + "min", + "max", + "mean", + order_by = plot_levels#, + #color_col = "p_value"#, + # fill_colors = bar_colors + ) + }) + + output$stats_tbl <- DT::renderDataTable({ + shiny::req(input$feature) + DT::datatable( + selected_data() %>% dplyr::select(Pathway = pathway, + "Patients with mutation" = n_mutants, + "Total patients" = n_total, + "p-value" = p_value) , + rownames = FALSE, + options = list(order = list(3, 'asc')) + ) %>% DT::formatRound(columns= "p-value", digits=3) + }) + + observeEvent(input$method_link,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/methods/germline-rarevariants.md"), + easyClose = TRUE, + footer = NULL + )) + }) + } + ) +} diff --git a/apps/iatlas/app/R/germline_rarevariants_ui.R b/apps/iatlas/app/R/germline_rarevariants_ui.R new file mode 100644 index 0000000000..793a0f8b33 --- /dev/null +++ b/apps/iatlas/app/R/germline_rarevariants_ui.R @@ -0,0 +1,52 @@ +germline_rarevariants_ui <- function(id){ + + ns <- shiny::NS(id) + shiny::tagList( + iatlas.modules::messageBox( + width = 12, + shiny::p("The boxplots show the values of selected immune traits across samples with germline mutations in genes belonging to defined functional categories, or pathways."), + shiny::p("We performed association analyses between germline pathogenic and likely pathogenic cancer predisposition variants in high penetrance susceptibility genes, and immune traits and immune + subtypes. Since mutations in most of the genes were rare we collapsed genes into categories summarizing different biologic processes or functions, when possible."), + shiny::actionLink(ns("method_link"), "Click to view method description.") + ), + iatlas.modules::optionsBox( + width = 12, + shiny::column( + width = 8, + shiny::selectizeInput(ns("feature"), + "Search and select Immune Trait", + choices = NULL, + multiple = FALSE) + ), + shiny::column( + width = 4, + shiny::selectizeInput(ns("order_box"), + "Order plots by ", + choices = list( + "p-value" = "p_value", + "Median" = "q2", + "Mean" = "mean", + "Min" = "min", + "Max" = "max", + "Number of patients with mutation" = "n_mutants" + ), + selected = "p_value") + ) + ), + iatlas.modules::plotBox( + width = 12, + plotly::plotlyOutput(ns("dist_plot"), height = "700px") %>% + shinycssloaders::withSpinner(.) + ), + iatlas.modules::messageBox( + width = 3, + shiny::p("Tests comparing the phenotype values with respect to the burden of rare variants within each pathway was performed (i.e., mean of phenotype values of rare mutation carriers vs mean of phenotype values of rare mutation non-carriers). + In the Pathway column, 'Multiple' refers to samples with mutation in more than one pathway; and 'No defect' refers to samples with no mutation in the studied pathways.") + ), + iatlas.modules::plotBox( + width = 9, + DT::dataTableOutput(ns("stats_tbl")) + ) + + ) +} diff --git a/apps/iatlas/app/R/germline_server.R b/apps/iatlas/app/R/germline_server.R new file mode 100644 index 0000000000..cb6569441e --- /dev/null +++ b/apps/iatlas/app/R/germline_server.R @@ -0,0 +1,32 @@ +germline_server <- function(id, cohort_obj){ + shiny::moduleServer( + id, + function(input, output, session) { + + call_module_server( + "germline_heritability", + cohort_obj, + server_function = germline_heritability_server, + ui_function = germline_heritability_ui + ) + + call_module_server( + "germline_gwas", + cohort_obj, + server_function = germline_gwas_server, + ui_function = germline_gwas_ui + ) + + call_module_server( + "germline_rarevariants", + cohort_obj, + server_function = germline_rarevariants_server, + ui_function = germline_rarevariants_ui + ) + + } + ) +} + + + diff --git a/apps/iatlas/app/R/germline_ui.R b/apps/iatlas/app/R/germline_ui.R new file mode 100644 index 0000000000..7416b1c7fe --- /dev/null +++ b/apps/iatlas/app/R/germline_ui.R @@ -0,0 +1,31 @@ +germline_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "CRI iAtlas Explorer — Germline Analysis" + ), + iatlas.modules::textBox( + width = 12, + shiny::p("This module provides interactive visualizations related to the manuscript ", + a(href = "https://doi.org/10.1016/j.immuni.2021.01.011", "Sayaman et al., Germline genetic contribution to the immune landscape of cancer, Immunity (2021)")), + shiny::p("Explore the germline genetic contribution to the immune landscape of cancer with results of heritability analysis, GWAS, and rare variant analysis across 30 non-hematological cancer types characterized by the TCGA. All analyses are adjusted for cancer type, age at diagnosis, sex, and the first seven components from principal component analysis (PCA) done on SNP data, which capture overall genetic ancestry."), + shiny::p("These analyses are not influenced by changes in grouping and filters in the CG Cohort Selection.") + ), + iatlas.modules::sectionBox( + title = "Heritability", + module_ui(ns("germline_heritability")) + ), + iatlas.modules::sectionBox( + title = "GWAS", + module_ui(ns("germline_gwas")) + ), + iatlas.modules::sectionBox( + title = "Rare Variants", + module_ui(ns("germline_rarevariants")) + ) + ) + + +} diff --git a/apps/iatlas/app/R/global.R b/apps/iatlas/app/R/global.R new file mode 100644 index 0000000000..61ec0b1a29 --- /dev/null +++ b/apps/iatlas/app/R/global.R @@ -0,0 +1,25 @@ +.GlobalEnv$MODULES_TBL <- "inst/tsv/module_config.tsv" %>% + readr::read_tsv(.) %>% + dplyr::mutate( + "label" = dplyr::if_else(.data$label == "none", .data$name, .data$label), + "link" = stringr::str_c("link_to_", .data$name), + "image" = stringr::str_c("images/", .data$name, ".png"), + "server_function_string" = stringr::str_c(.data$name, "_server"), + "ui_function_string" = stringr::str_c(.data$name, "_ui") + ) + +if(file.exists("app_config.yml")){ + config_list <- yaml::read_yaml("app_config.yml") +} else { + config_list <- yaml::read_yaml("default_app_config.yml") +} + +.GlobalEnv$APP <- config_list$app + +if(.GlobalEnv$APP == "live"){ + .GlobalEnv$API_URL <- "https://api.cri-iatlas.org/api" +} else if (.GlobalEnv$APP == "staging") { + .GlobalEnv$API_URL <- "https://api-staging.cri-iatlas.org/api" +} else { + stop("App must be either 'live' or 'staging'") +} diff --git a/apps/iatlas/app/R/globals.R b/apps/iatlas/app/R/globals.R new file mode 100644 index 0000000000..323f89a3d6 --- /dev/null +++ b/apps/iatlas/app/R/globals.R @@ -0,0 +1 @@ +utils::globalVariables(c(".")) diff --git a/apps/iatlas/app/R/heatmap.R b/apps/iatlas/app/R/heatmap.R new file mode 100644 index 0000000000..6045c3bfc3 --- /dev/null +++ b/apps/iatlas/app/R/heatmap.R @@ -0,0 +1,26 @@ +create_heatmap <- function(corr_mat, source_name, scale_colors = F, legend_title = NULL){ + zmin <- NULL + zmax <- NULL + if(scale_colors){ + extreme <- max(abs(min(corr_mat)), + abs(max(corr_mat))) + zmax <- extreme + zmin <- -extreme + } + + p <- + plotly::plot_ly( + z = corr_mat, + x = colnames(corr_mat), + y = rownames(corr_mat), + type = "heatmap", + source = source_name, + colors = rev(RColorBrewer::brewer.pal(8, "RdBu")), + colorbar = list(title = legend_title), + zmin = zmin, + zmax = zmax + ) %>% + plotly::layout(xaxis = list(tickangle = 90)) %>% + format_plotly() %>% + I +} diff --git a/apps/iatlas/app/R/histogram.R b/apps/iatlas/app/R/histogram.R new file mode 100644 index 0000000000..316a0e61b1 --- /dev/null +++ b/apps/iatlas/app/R/histogram.R @@ -0,0 +1,40 @@ +create_histogram <- function( + df, + x_col = "x", + key_col = NA, + label_col = NULL, + x_lab = "", + y_lab = "Count", + title = "", + source_name = NULL) { + + if(is.na(key_col)) key_col <- x_col + + if(is.null(label_col)){ + #do nothing + } else if(is.na(label_col)){ + label_col <- x_col + } + + wrapr::let( + alias = c( + X = x_col, + KEY = key_col, + LABEL = label_col + ), + df %>% + plotly::plot_ly( + x = ~X, + key = ~KEY, + text = label_col + ) %>% + plotly::add_histogram(alpha = 0.8) %>% + plotly::layout( + title = title, + xaxis = list(title = x_lab), + yaxis = list(title = y_lab) + ) %>% + format_plotly() %>% + I + ) +} diff --git a/apps/iatlas/app/R/ici_clinical_outcomes_functions.R b/apps/iatlas/app/R/ici_clinical_outcomes_functions.R new file mode 100644 index 0000000000..76c8f03e97 --- /dev/null +++ b/apps/iatlas/app/R/ici_clinical_outcomes_functions.R @@ -0,0 +1,41 @@ +build_survival_df <- function(df, group_column, time_column, filter_df = TRUE) { + if (time_column == "OS_time") { + time_status <- "OS" + if(filter_df == TRUE){ + df <- df %>% + dplyr::distinct() %>% + dplyr::filter(feature_name %in% c("OS", "OS_time")) %>% + dplyr::select(sample_name, group_column, dataset_name, feature_name, feature_value) %>% + tidyr::pivot_wider(names_from = feature_name, values_from = feature_value) + } + } else { + time_status <- "PFI_1" + if(filter_df == TRUE){ + df <- df %>% + dplyr::distinct() %>% + dplyr::filter(feature_name %in% c("PFI_1", "PFI_time_1")) %>% + dplyr::select(sample_name, group_column, dataset_name, feature_name, feature_value) %>% + tidyr::pivot_wider(names_from = feature_name, values_from = feature_value) + } + } + + if(nrow(df) == 0) return(NULL) + + data.frame( + status = purrr::pluck(df, time_status), + time = purrr::pluck(df, time_column), + measure = purrr::pluck(df, group_column) + ) %>% + na.omit() +} + +get_group_colors <- function(cohort_obj){ + if("Immune feature bin range" %in% cohort_obj$group_tbl$characteristics){ + group_colors <- viridis::viridis(dplyr::n_distinct(cohort_obj$sample_tbl$group_name)) + names(group_colors) <- sapply(unique(cohort_obj$sample_tbl$group_name), function(a) paste('measure=',a,sep='')) + }else{ + group_colors <- unique(cohort_obj$group_tbl$color) + names(group_colors) <- sapply(unique(cohort_obj$group_tbl$short_name), function(a) paste('measure=',a,sep='')) + } + group_colors +} diff --git a/apps/iatlas/app/R/ici_clinical_outcomes_plot_server.R b/apps/iatlas/app/R/ici_clinical_outcomes_plot_server.R new file mode 100644 index 0000000000..466728d1d6 --- /dev/null +++ b/apps/iatlas/app/R/ici_clinical_outcomes_plot_server.R @@ -0,0 +1,126 @@ +ici_clinical_outcomes_plot_server <- function( + id, + cohort_obj +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + output$excluded_dataset <- shiny::renderText({ + if(all(cohort_obj()$dataset_displays %in% unique(cohort_obj()$group_tbl$dataset_display))){ + "" + }else{ + excluded_datasets <- setdiff(cohort_obj()$dataset_displays, unique(cohort_obj()$group_tbl$dataset_display)) + paste( + paste(excluded_datasets, collapse = ", "), + " not included because all samples were filtered in ICI Cohort Selection." + ) + } + }) + + feature_df <- shiny::reactive({ + pre_treat_samples <- iatlasGraphQLClient::query_tag_samples(cohorts = cohort_obj()[["dataset_names"]], tags = "pre_sample_treatment") %>% + dplyr::bind_rows(iatlasGraphQLClient::query_cohort_samples(cohorts = "Prins_GBM_2019")) %>% + dplyr::select(sample_name) + + cohort_obj()$sample_tbl %>% + dplyr::inner_join(pre_treat_samples, by = "sample_name") %>% + dplyr::inner_join(iatlasGraphQLClient::query_feature_values(features = c("OS", "OS_time", "PFI_1", "PFI_time_1")), by = c("sample_name" = "sample")) + }) + + all_survival <- shiny::reactive({ + shiny::req(!is.null(feature_df()), cancelOutput = T) + + df <- purrr::map(.x = unique(cohort_obj()$group_tbl$dataset_name), df = feature_df(), .f= function(dataset, df){ + dataset_df <- df %>% + dplyr::filter(dataset_name == dataset) + + if(!all(is.na(dataset_df$group_name)) & dplyr::n_distinct(dataset_df$group_name)>1){ + build_survival_df( + df = dataset_df, + group_column = "group_name", + time_column = input$timevar + ) + } + }) + names(df) <- unique(cohort_obj()$group_tbl$dataset_display) + Filter(Negate(is.null), df) + }) + + all_fit <- shiny::reactive({ + shiny::req(all_survival()) + shiny::validate(need(length(all_survival())>0, "Variable has only one level in the selected dataset(s). Select other datasets or check ICI Datasets Overview for more information.")) + purrr::map(all_survival(), function(df) survival::survfit(survival::Surv(time, status) ~ measure, data = df)) + }) + + all_kmplot <- shiny::reactive({ + shiny::req(all_fit(), all_survival()) + + + create_kmplot( + fit = all_fit(), + df = all_survival(), + confint = input$confint, + risktable = input$risktable, + title = names(all_survival()), + group_colors = get_group_colors(cohort_obj()), + facet = TRUE) + }) + + # survminer::ggsurvplot_list object does not work if using a for loop, or + # purrr::map, or lapply + output$plots <- shiny::renderUI({ + shiny::tagList( + shiny::renderPlot(all_kmplot()[1]), + shiny::renderPlot(all_kmplot()[2]), + shiny::renderPlot(all_kmplot()[3]), + shiny::renderPlot(all_kmplot()[4]), + shiny::renderPlot(all_kmplot()[5]), + shiny::renderPlot(all_kmplot()[6]), + shiny::renderPlot(all_kmplot()[7]), + shiny::renderPlot(all_kmplot()[8]), + shiny::renderPlot(all_kmplot()[9]), + shiny::renderPlot(all_kmplot()[10]), + shiny::renderPlot(all_kmplot()[11]), + shiny::renderPlot(all_kmplot()[12]) + ) + + }) + + missing_plot <- shiny::reactive({ + shiny::req(all_fit(), feature_df()) + + if(length(all_survival())>0 & dplyr::n_distinct(cohort_obj()$group_tbl$dataset_name) != length(all_survival())){ #some dataset has only one category for the selected grouping variable + + missing_datasets <- setdiff(cohort_obj()$group_tbl$dataset_display, names(all_survival())) + + #check if there is survival annotation or more than one group level for the missing dataset + missing_annot <- purrr::map_df(.x = missing_datasets, function(x){ + + surv_data <- feature_df() %>% + dplyr::filter(dataset_name == x) + + if(nrow(surv_data) == 0) c(dataset = x, + error = "Selected survival endpoint not available for ", + variable = input$timevar) + else if(dplyr::n_distinct(surv_data$group_name) == 1) c(dataset = x, + error = "Selected variable has only one level for ", + variable = cohort_obj()[["group_display"]]) + }) + } + }) + + output$notification <- shiny::renderText({ + shiny::req(missing_plot()) + if(length(cohort_obj()[["dataset_names"]]) == length(all_survival()) | length(all_survival()) == 0){#no notification to display + "" + }else{ + paste0(missing_plot()$error, missing_plot()$dataset, collapse = "
") + } + }) + + } + ) +} diff --git a/apps/iatlas/app/R/ici_clinical_outcomes_plot_ui.R b/apps/iatlas/app/R/ici_clinical_outcomes_plot_ui.R new file mode 100644 index 0000000000..ecf366a439 --- /dev/null +++ b/apps/iatlas/app/R/ici_clinical_outcomes_plot_ui.R @@ -0,0 +1,49 @@ +ici_clinical_outcomes_plot_ui <- function(id){ + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox( + width = 24, + shiny::includeMarkdown("inst/markdown/ici_clinical_outcomes.markdown") + ), + iatlas.modules::optionsBox( + width=12, + shiny::column( + width = 8, + shiny::selectInput( + ns("timevar"), + "Survival Endpoint", + c("Overall Survival" = "OS_time", + "Progression Free Interval" = "PFI_time_1"), + selected = "OS_time" + ) + ), + shiny::column( + width = 2, + shiny::checkboxInput( + ns("confint"), + "Confidence Intervals", + value = F + ) + ), + shiny::column( + width = 2, + shiny::checkboxInput( + ns("risktable"), + "Risk Table", + value = T + ) + ) + ),#optionsBox + shiny::column( + width = 12, + shiny::htmlOutput(ns("notification")), + shiny::htmlOutput(ns("excluded_dataset")), + iatlas.modules::plotBox( + width = 12, + shiny::uiOutput(ns("plots")) %>% + shinycssloaders::withSpinner() + ) + ) + ) +} diff --git a/apps/iatlas/app/R/ici_clinical_outcomes_server.R b/apps/iatlas/app/R/ici_clinical_outcomes_server.R new file mode 100644 index 0000000000..a0bf2c28cf --- /dev/null +++ b/apps/iatlas/app/R/ici_clinical_outcomes_server.R @@ -0,0 +1,14 @@ +ici_clinical_outcomes_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + ici_clinical_outcomes_plot_server( + "ici_clinical_outcomes_plot", + cohort_obj + ) + } + ) +} diff --git a/apps/iatlas/app/R/ici_clinical_outcomes_ui.R b/apps/iatlas/app/R/ici_clinical_outcomes_ui.R new file mode 100644 index 0000000000..ee7915a25d --- /dev/null +++ b/apps/iatlas/app/R/ici_clinical_outcomes_ui.R @@ -0,0 +1,18 @@ +ici_clinical_outcomes_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "CRI iAtlas Explorer — Clinical Outcomes to Immune Checkpoint Inhibitors" + ), + iatlas.modules::textBox( + width = 12, + p("Plot survival curves based on immune characteristics and identify variables associated with outcome.") + ), + iatlas.modules::sectionBox( + title = "Clinical Outcomes", + ici_clinical_outcomes_plot_ui(ns("ici_clinical_outcomes_plot")) + ) + ) +} diff --git a/apps/iatlas/app/R/ici_distribution_functions.R b/apps/iatlas/app/R/ici_distribution_functions.R new file mode 100644 index 0000000000..fd21627536 --- /dev/null +++ b/apps/iatlas/app/R/ici_distribution_functions.R @@ -0,0 +1,227 @@ +build_distribution_io_df <- function( + df, + feature, + scale_func_choice = "None" +){ + + scale_function <- switch( + scale_func_choice, + "None" = identity, + "Log2" = log2, + "Log2 + 1" = function(x) log2(x + 1), + "Log10" = log10, + "Log10 + 1" = function(x) log10(x + 1) + ) + + df %>% + tidyr::drop_na(feature) %>% + dplyr::mutate(y = scale_function(.[[feature]])) %>% + tidyr::drop_na(feature) %>% + dplyr::filter(!is.infinite(y)) +} + +combine_colors <- function(color1, color2){ + + purrr::map2_chr(.x = color1, .y = color2, function(c1, c2){ + grDevices::colorRampPalette(c(c1, c2))(3)[2] + }) + +} + +combine_groups <- function(df, group2, cohort_obj){ + + group1 <- cohort_obj$group_name + cat <- cohort_obj$group_tbl + + if("Immune feature bin range" %in% cat$characteristics){ + cat1 <- data.frame( + parent_tag_name = group1, + short_name = unique(cohort_obj$sample_tbl$group_name), + long_name = unique(cohort_obj$sample_tbl$group_name), + characteristics = "Immune feature bin range", + color = viridis::viridis(dplyr::n_distinct(cohort_obj$sample_tbl$group_name)) + ) + + }else{ + cat1 <- cat %>% + dplyr::mutate(parent_tag_name = group1) %>% + select(-c(dataset_name, dataset_display, size, order))%>% + dplyr::distinct() + } + + cat2 <- iatlasGraphQLClient::query_tags_with_parent_tags(parent_tags = group2) %>% + dplyr::select(parent_tag_name, short_name = tag_short_display, long_name = tag_long_display, characteristics = tag_characteristics, color = tag_color) + + categories <- rbind(cat1, cat2) + + samples <- tidyr::crossing(var1 = cat1$short_name, var2 = cat2$short_name) %>% + dplyr::inner_join(cat1, by = c("var1" = "short_name")) %>% + dplyr::inner_join(cat2, by = c("var2" = "short_name")) %>% + dplyr::mutate(group = paste(var1, var2, sep = " & \n"), + color = combine_colors(.$color.x,.$color.y)) + + df %>% + dplyr::inner_join(categories, by = c("group_name" = "short_name")) %>% + dplyr::select(sample_name, dataset_name, "group1" = group_name, "group2" = tag_short_display) %>% + dplyr::mutate(group = paste(group1, group2, sep = " & \n")) %>% + dplyr::inner_join(samples, by ="group") +} + +get_plot_title <- function(dataset_name, dataset_display){ + if(startsWith(dataset_name, "nanostring_")) return(paste(sub("\\ -.*", "", unname(dataset_display[gsub("^.{11}", "", dataset_name)])), "\n(Nanostring)")) + else return(sub("\\ -.*", "", unname(dataset_display[dataset_name]))) +} + +create_plot_onegroup <- function(dataset_data, cohort_obj, dataset_display, plot_type, dataset, feature, group1, reorder_function = "None", ylabel){ + + order_plot <- iatlasGraphQLClient::query_tags_with_parent_tags(parent_tags = cohort_obj$group_name) %>% + dplyr::select(tag_short_display, tag_order, tag_color) %>% + dplyr::arrange(tag_order) %>% + dplyr::select(group = tag_short_display, color = tag_color) + + xform <- list(automargin = TRUE, + categoryorder = reorder_function) + + group_colors <- order_plot$color + names(group_colors) <- order_plot$group + + plot_title <- get_plot_title(dataset, dataset_display) + + plot_type(dataset_data, + x_col = as.character(group1), + y_col = feature, + xlab = dataset_data[[group1]], + ylab = ylabel, + custom_data = as.character(dataset), + fill_colors = group_colors, + source = "p1", + showlegend = F) %>% + add_title_subplot_plotly(plot_title) %>% + plotly::layout( + xaxis = xform, + margin = list(b = 10), + plot_bgcolor = "rgb(250, 250, 250)" + ) +} + +create_plot_twogroup <- function(dataset_data, cohort_obj, dataset_display, plot_type, dataset, feature, group, group1, group2, reorder_function = "None", ylabel){ + + samples <- dataset_data %>% #getting the order to display groups + dplyr::select(var1, var2, group) %>% + dplyr::distinct() %>% + dplyr::inner_join(iatlasGraphQLClient::query_tags_with_parent_tags(parent_tags = group1) %>% + dplyr::select(var1 = tag_short_display, order1 = tag_order), + by = "var1") %>% + dplyr::inner_join(iatlasGraphQLClient::query_tags_with_parent_tags(parent_tags = group2) %>% + dplyr::select(var2 = tag_short_display, order2 = tag_order), + by = "var2") %>% + dplyr::arrange(order1, order2) + + order_plot <- samples %>% + dplyr::select(group) + + + xform <- list(automargin = TRUE, + tickangle = 80, + categoryorder = reorder_function + ) + + group_colors <- dataset_data %>% + dplyr::select(group, color) %>% + dplyr::distinct() %>% + tibble::deframe() + + plot_title <- get_plot_title(dataset, dataset_display) + + dataset_data %>% + plot_type(., + x_col = group, + y_col = feature, + xlab = (dataset_data[[group]]), + ylab = ylabel, + custom_data = as.character(dataset), + fill_colors = group_colors, + source = "p1", + showlegend = F) %>% + add_title_subplot_plotly(plot_title) %>% + plotly::layout( + autosize = TRUE, + shapes = lazyeval::lazy_eval(get_lines_pos(samples, -0.38)), + xaxis = xform, + plot_bgcolor = "rgb(250, 250, 250)" + ) +} + +log2foldchanges <- function(x,y){ + mean(log2(y+1))-mean(log2(x+1)) +} + +get_stat_test <- function(df, group_to_split, sel_feature, dataset, dataset_title, paired = FALSE, test = t.test, label = group_to_split){ + data_set <- df %>% + filter(dataset_name == dataset) + + dataset_display <- get_plot_title(dataset, dataset_title) + + if(paired == TRUE){ + patients <- data_set %>% + dplyr::inner_join(iatlasGraphQLClient::query_sample_patients(samples = data_set$sample_name), by = "sample_name") + + paired_samples <- patients %>% + dplyr::group_by(patient_name) %>% + dplyr::summarise(samples = dplyr::n_distinct(sample_name)) %>% + dplyr::filter(samples > 1) + + data_set <- patients %>% + dplyr::filter(patient_name %in% paired_samples$patient_name) + } + + if(dplyr::n_distinct(data_set[[group_to_split]])>1){ + split_data <- split(data_set, data_set[[group_to_split]]) + comb_groups <- utils::combn(1:length(split_data), 2) + + purrr::map2_dfr(.x = comb_groups[1,], .y = comb_groups[2,], function(x,y){ + + if(paired == TRUE & nrow(split_data[[x]]) != nrow(split_data[[y]])){ + test_data <- data.frame(Dataset = dataset_display, + Group1 = paste0("Not available for paired test. ", names(split_data)[x], " (", nrow(split_data[[x]]),")"), + Group2 = paste0(names(split_data)[y], " (", nrow(split_data[[y]]), ")"), + #Test = paste0("Not available for paired test. ", names(split_data)[x], " (", nrow(split_data[[x]]),") vs. ", names(split_data)[y], " (", nrow(split_data[[y]]), ")"), + statistic = NA, + p.value = NA, + stringsAsFactors = FALSE) + }else if(nrow(split_data[[x]]) <=1 | nrow(split_data[[y]]) <=1){ + test_data <- data.frame(Dataset = dataset_display, + Group1 = paste0("Few samples to perform test. ", names(split_data)[x], " (", nrow(split_data[[x]]),")"), + Group2 = paste0(names(split_data)[y], " (", nrow(split_data[[y]]), ")"), + #Test = paste0("Few samples to perform test.", names(split_data)[x], " (", nrow(split_data[[x]]),") vs. ", names(split_data)[y], " (", nrow(split_data[[y]]), ")"), + statistic = NA, + p.value = NA, + stringsAsFactors = FALSE) + }else{ + test_data <- broom::tidy(test(split_data[[x]][[sel_feature]], + split_data[[y]][[sel_feature]], + paired = paired)) %>% + dplyr::select(statistic, p.value) + + test_data$Dataset <- as.character(dataset_display) + test_data$Group1 <- paste0(names(split_data)[x], " (", nrow(split_data[[x]]),")") + test_data$Group2 <- paste0(names(split_data)[y], " (", nrow(split_data[[y]]), ")") + test_data$FoldChange <- log2foldchanges(split_data[[x]][[sel_feature]], + split_data[[y]][[sel_feature]]) + + test_data %>% + dplyr::mutate("-log10(pvalue)" = -log10(p.value)) %>% + dplyr::mutate_if(is.numeric, round, digits = 3) %>% + dplyr::select(Dataset, Group1, Group2, "Log2(FoldChange)" = FoldChange, statistic, p.value, "-log10(pvalue)") + #dplyr::select(Dataset, Group1, "Group 1 Size" = n_samples1, Group2, "Group 2 Size" = n_samples2, statistic, p.value, "-log10(pvalue)") + } + }) + }else{ + test_data <- data.frame(Dataset = dataset_display, + Group1 = "Sample group has only one level for this dataset.", + Group2 = NA, + statistic = NA, + p.value = NA, + stringsAsFactors = FALSE) + } +} diff --git a/apps/iatlas/app/R/ici_distribution_server.R b/apps/iatlas/app/R/ici_distribution_server.R new file mode 100644 index 0000000000..6d756f6cb8 --- /dev/null +++ b/apps/iatlas/app/R/ici_distribution_server.R @@ -0,0 +1,339 @@ +ici_distribution_server <- function( + id, + cohort_obj, + metadata_feature_df, + feature_df +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + output$excluded_dataset <- shiny::renderText({ + if(all(cohort_obj()$dataset_displays %in% unique(cohort_obj()$group_tbl$dataset_display))){ + "" + }else{ + excluded_datasets <- setdiff(cohort_obj()$dataset_displays, unique(cohort_obj()$group_tbl$dataset_display)) + paste( + paste(excluded_datasets, collapse = ", "), + " not included because all samples were filtered in ICI Cohort Selection." + ) + } + }) + + output$feature_op <- renderUI({ + selectInput( + ns("var1_surv"), + "Select Feature", + feature_df %>% create_nested_list_by_class() + ) + }) + + output$group2 <- renderUI({ + #Second level group option + selectInput( + ns("groupvar2"), + "Select extra Sample Group (optional)", + c("None" = "None", metadata_feature_df), + selected = "None" + ) + }) + + output$ui_stat <- shiny::renderUI({ + req(cohort_obj(), input$groupvar2) + if(cohort_obj()$group_name == "Sample_Treatment" | input$groupvar2 == "Sample_Treatment"){ + radioButtons(ns("paired"), "Sample type", choices = c("Independent", "Paired"), inline = TRUE, selected = "Paired") + }else{ + radioButtons(ns("paired"), "Sample type", choices = ("Independent"), inline = TRUE, selected = "Independent") + } + }) + + plot_function <- shiny::reactive({ + switch( + input$plot_type, + "Box" = create_boxplot, + "Violin" = create_violinplot + ) + }) + + varible_display_name <- shiny::reactive({ + convert_value_between_columns(input_value = input$var1_surv, + df = feature_df, + from_column = "name", + to_column = "display") + }) + + varible_plot_label <- reactive({ + switch( + input$scale_method, + "None" = varible_display_name(), + + "Log2" = stringr::str_c( + "Log2( ", + varible_display_name(), + " )"), + + "Log2 + 1" = stringr::str_c( + "Log2( ", + varible_display_name(), + " + 1 )"), + + "Log10" = stringr::str_c( + "Log10( ", + varible_display_name(), + " )"), + + "Log10 + 1" = stringr::str_c( + "Log10( ", + varible_display_name(), + " + 1 )") + ) + }) + + dataset_displays <- reactive({ + setNames(cohort_obj()$dataset_displays, cohort_obj()$dataset_names) + }) + + df_selected <- reactive({ + shiny::req(cohort_obj(), input$var1_surv) + + if(input$var1_surv %in% cohort_obj()$feature_tbl$name){ #immune features module + if(cohort_obj()$group_name == "Sample_Treatment" | input$groupvar2 == "Sample_Treatment"){ + samples <- cohort_obj()$sample_tbl %>% + dplyr::inner_join(., iatlasGraphQLClient::query_feature_values(features = input$var1_surv), by = c("sample_name" = "sample")) %>% + build_distribution_io_df(., "feature_value", input$scale_method) + } else{ #get only pre treatment samples + samples <- iatlasGraphQLClient::query_tag_samples(tags = "pre_sample_treatment") %>% + dplyr::bind_rows(iatlasGraphQLClient::query_cohort_samples(cohorts = "Prins_GBM_2019")) %>% + dplyr::distinct(sample_name) %>% + dplyr::inner_join(cohort_obj()$sample_tbl, by = "sample_name") %>% + dplyr::inner_join(., iatlasGraphQLClient::query_feature_values(features = input$var1_surv), by = c("sample_name" = "sample")) %>% + build_distribution_io_df(., "feature_value", input$scale_method) + } + + }else{ #immunomodulator module + if(cohort_obj()$group_name == "Sample_Treatment" | input$groupvar2 == "Sample_Treatment"){ + samples_rna_seq <- cohort_obj()$sample_tbl %>% + dplyr::inner_join(., iatlasGraphQLClient::query_gene_expression(cohorts = cohort_obj()$dataset_names, entrez = as.numeric(input$var1_surv)), by = c("sample_name" = "sample")) %>% + build_distribution_io_df(., "rna_seq_expr", input$scale_method) + + samples_ns <- cohort_obj()$sample_tbl %>% + dplyr::inner_join(., iatlasGraphQLClient::query_gene_nanostring_expression(entrez = as.numeric(input$var1_surv)), by = c("sample_name" = "sample")) %>% + build_distribution_io_df(., c("nanostring_expr"), input$scale_method) + + samples_ns$dataset_name <- paste0("nanostring_", samples_ns$dataset_name) + + samples <- dplyr::bind_rows(samples_rna_seq, samples_ns) + }else{ + pre_samples <- iatlasGraphQLClient::query_tag_samples(tags = "pre_sample_treatment") %>% + dplyr::bind_rows(iatlasGraphQLClient::query_cohort_samples(cohorts = "Prins_GBM_2019")) %>% + dplyr::distinct(sample_name) %>% + dplyr::inner_join(cohort_obj()$sample_tbl, by = "sample_name") + + samples_rna_seq <- pre_samples %>% + dplyr::inner_join(., iatlasGraphQLClient::query_gene_expression(cohorts = cohort_obj()$dataset_names, entrez = as.numeric(input$var1_surv)), by = c("sample_name" = "sample")) %>% + build_distribution_io_df(., c("rna_seq_expr"), input$scale_method) + + samples_ns <- pre_samples %>% + dplyr::inner_join(., iatlasGraphQLClient::query_gene_nanostring_expression(entrez = as.numeric(input$var1_surv)), by = c("sample_name" = "sample")) %>% + build_distribution_io_df(., c("nanostring_expr"), input$scale_method) + + samples_ns$dataset_name <- paste0("nanostring_", samples_ns$dataset_name) + samples <- dplyr::bind_rows(samples_rna_seq, samples_ns) + } + } + + if(input$groupvar2 == "None" | cohort_obj()$group_name == input$groupvar2){ + samples %>% + dplyr::rename(group = group_name) + }else{ + groups <- samples %>% + dplyr::inner_join(iatlasGraphQLClient::query_tag_samples(parent_tags = input$groupvar2), by = "sample_name") + + combine_groups(groups, input$groupvar2,cohort_obj()) %>% + dplyr::inner_join(samples %>% dplyr::select(sample_name, y), by = "sample_name") + } + }) + + output$dist_plots <- plotly::renderPlotly({ + shiny::req(df_selected()) + + all_plots <- purrr::map(.x = unique(df_selected()$dataset_name), function(dataset){ + + if(input$groupvar2 == "None" | cohort_obj()$group_name == input$groupvar2){#only one group selected + + dataset_data <- df_selected() %>% + dplyr::filter(dataset_name == dataset) + + if(nrow(dataset_data)>0){ + dataset_data %>% + create_plot_onegroup(., + cohort_obj(), + dataset_displays(), + plot_function(), + dataset, + "y", + "group", + reorder_function = input$reorder_method_choice, + varible_plot_label()) + } + }else{ #when two grouping levels are selected + + dataset_data <- df_selected() %>% + dplyr::filter(dataset_name == dataset) + + if(nrow(dataset_data)>0){ + dataset_data %>% + create_plot_twogroup(., + cohort_obj = cohort_obj(), + dataset_displays(), + plot_function(), + dataset, + "y", + "group", + cohort_obj()$group_name, + input$groupvar2, + reorder_function = input$reorder_method_choice, + varible_plot_label()) + } + } + }) %>% Filter(Negate(is.null),.) #excluding datasets that do not have annotaion for the selected variable + + shiny::validate( + shiny::need(length(all_plots)>0, "Variable not annotated in the selected dataset(s). Select other datasets or check ICI Datasets Overview for more information.") + ) + s <- plotly::subplot(all_plots, shareX = TRUE, shareY = TRUE, nrows = 1, margin = c(0.01, 0.01, 0.01, 0.7)) + + s$x$source <- "distPlots" + s + }) + output$download_tbl <- downloadHandler( + filename = function() stringr::str_c("distplot-", Sys.Date(), ".csv"), + content = function(con) readr::write_csv(df_selected(), con) + ) + + paired_test <- shiny::reactive({ + shiny::req(input$paired) + switch( + input$paired, + "Paired" = TRUE, + "Independent" = FALSE + ) + }) + + test_function <- shiny::reactive({ + switch( + input$stattest, + "t-test" = t.test, + "Wilcox" = wilcox.test + ) + }) + + test_summary_table <- reactive({ + shiny::req(df_selected()) + shiny::validate( + shiny::need(nrow(df_selected())>0, "Variable not annotated in the selected dataset(s). Select other datasets or check ICI Datasets Overview for more information.") + ) + + purrr::map_dfr(.x = unique(df_selected()$dataset_name), + df = df_selected(), + group_to_split = "group", + sel_feature = "y", + paired = paired_test(), + test = test_function(), + label = cohort_obj()$group_name, + dataset_title = dataset_displays(), + .f = get_stat_test) + }) + + output$stats1 <- DT::renderDataTable({ + shiny::req(test_summary_table()) + test_summary_table() + }) + + output$download_test <- downloadHandler( + filename = function() stringr::str_c("test_results-", Sys.Date(), ".csv"), + content = function(con) readr::write_csv(test_summary_table(), con) + ) + + output$plot_text <- shiny::renderText({ + shiny::req(df_selected()) + + eventdata <- plotly::event_data("plotly_click", source = "distPlots") + shiny::validate(need(!is.null(eventdata), " ")) + + clicked_dataset <- eventdata$customdata[[1]] + + current_groups <- df_selected() %>% + dplyr::filter(dataset_name == clicked_dataset) + + shiny::validate(need(gsub("
", "\n", eventdata$x[[1]]) %in% unique(current_groups$group), " ")) #remove text in case grouping selection is changed + + key_value <- eventdata %>% + dplyr::slice(1) %>% + magrittr::extract2("x") %>% + gsub("
", "\n", .) + + + if(input$groupvar2 == "None"){ + if("Immune feature bin range" %in% cohort_obj()$group_tbl$characteristics){ + paste(unique(cohort_obj()$group_tbl$short_name), key_value, sep = ": ") + }else{ + selected_display <- cohort_obj()$group_tbl %>% + dplyr::filter(short_name == key_value) %>% + dplyr::select(short_name, long_name, characteristics) %>% + dplyr::distinct() + paste(selected_display$long_name, selected_display$characteristics, sep = ": ") + } + }else{ + selected_display <- df_selected() %>% + dplyr::filter(group == key_value) %>% + dplyr::select(long_name.x, characteristics.x, long_name.y, characteristics.y) %>% + dplyr::distinct() + paste( + paste(selected_display$long_name.x, selected_display$characteristics.x, sep = ": "), + paste(selected_display$long_name.y, selected_display$characteristics.y, sep = ": "), + sep = "\n" + ) + } + }) + + drilldown_df <- reactive({ + shiny::req(df_selected()) + + eventdata <- plotly::event_data("plotly_click", source = "distPlots") + shiny::validate(need(!is.null(eventdata), "Click plot above")) + + clicked_group <- gsub("
", "\n", eventdata$x[[1]]) + clicked_dataset <- eventdata$customdata[[1]] + + current_groups <- df_selected() %>% + dplyr::filter(dataset_name == clicked_dataset) %>% + dplyr::select(group) %>% + unique + + shiny::validate( + shiny::need(clicked_group %in% current_groups$group, "Click plot above")) + + df_selected() %>% + dplyr::filter(dataset_name == clicked_dataset & group == clicked_group) + }) + + output$drilldown_plot <- plotly::renderPlotly({ + shiny::req(drilldown_df()) + create_histogram( + df = drilldown_df(), + x_col = "y", + title = paste(get_plot_title(unique(drilldown_df()$dataset_name), dataset_displays()), unique(drilldown_df()$group), sep = "\n"), + x_lab = varible_plot_label() + ) + }) + + output$download_hist <- downloadHandler( + filename = function() stringr::str_c("drilldown-", Sys.Date(), ".csv"), + content = function(con) readr::write_csv(drilldown_df(), con) + ) + } + ) +} diff --git a/apps/iatlas/app/R/ici_distribution_ui.R b/apps/iatlas/app/R/ici_distribution_ui.R new file mode 100644 index 0000000000..f5ab4770cb --- /dev/null +++ b/apps/iatlas/app/R/ici_distribution_ui.R @@ -0,0 +1,81 @@ +ici_distribution_ui <- function(id){ + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::optionsBox( + width=12, + column( + width = 3, + shiny::uiOutput(ns("feature_op")) + ), + column( + width = 3, + shiny:: uiOutput(ns("group2")) + ), + column( + width = 2, + shiny::selectInput( + ns("plot_type"), + "Select Plot Type", + choices = c("Box", "Violin") + ) + ), + column( + width = 2, + shiny::selectInput( + ns("scale_method"), + "Select scaling", + choices = c( + "None", + "Log2", + "Log2 + 1", + "Log10", + "Log10 + 1" + ), + selected = "None" + ) + ), + column( + width = 2, + shiny::selectInput( + ns("reorder_method_choice"), + "Reorder Function", + choices = c("None" = "trace", + "Median" = "median ascending", + "Mean" = "mean ascending", + "Max" = "max ascending", + "Min" = "min ascending"), + selected = "None" + ) + ) + ),#optionsBox + shiny::htmlOutput(ns("excluded_dataset")), + iatlas.modules::plotBox( + width = 12, + plotly::plotlyOutput(ns("dist_plots"), height = "500px") %>% + shinycssloaders::withSpinner(), + tagAppendAttributes(shiny::textOutput(ns("plot_text")), style="white-space:pre-wrap;"), + shiny::h5("Click plot to see group information."), + shiny::downloadButton(ns("download_tbl"), "Download plot table") + ), + shiny::fluidRow( + iatlas.modules::optionsBox( + width = 3, + shiny::uiOutput(ns("ui_stat")), + shiny::radioButtons(ns("stattest"), "Test type", choices = c("t-test", "Wilcox"), inline = TRUE, selected = "t-test") + ), + iatlas.modules::plotBox( + width = 9, + DT::dataTableOutput(ns("stats1")), + downloadButton(ns('download_test'), 'Download') + ) + ), + iatlas.modules::plotBox( + width = 12, + plotly::plotlyOutput(ns("drilldown_plot")) %>% + shinycssloaders::withSpinner(), + shiny::downloadButton(ns("download_hist"), "Download plot table") + ) + #) + ) +} diff --git a/apps/iatlas/app/R/ici_hazard_ratio_functions.R b/apps/iatlas/app/R/ici_hazard_ratio_functions.R new file mode 100644 index 0000000000..49d154f1dc --- /dev/null +++ b/apps/iatlas/app/R/ici_hazard_ratio_functions.R @@ -0,0 +1,220 @@ +get_feature_by_dataset <- function(features, feature_df, gene_df, group_df, fmx_df, datasets_names, dataset_display){ + datasets <- unique(fmx_df$dataset_name) + num_features <- features[which(features %in% feature_df$name)] + gene_features <- gene_df[which(gene_df$entrez %in% features),]$hgnc + cat_features <- features[which(features %in% group_df$parent_tag_name)] + + all_features <- data.frame( + dataset = NA_character_, + group= NA_character_, + group_label = NA_character_, + feature = NA_character_, + dataset_display = NA_character_, + ft_label = NA_character_ + ) + + #Organize numerical features + if(length(num_features)>0){ + num_cols <- tidyr::crossing(dataset = datasets, name = num_features) %>% + dplyr::left_join(., feature_df %>% dplyr::select(name, display), by = "name") %>% + dplyr::select(dataset, + group = name, + group_label = display) %>% + dplyr::rowwise() %>% + dplyr::mutate(feature= group, + dataset_display = unname(dataset_display[dataset]), + ft_label = "Immune Feature") + + all_features <- rbind(all_features, num_cols) + } + #organize gene expression + if(length(gene_features)>0){ + gene_cols <- tidyr::crossing(dataset = datasets, name = gene_features) %>% + #dplyr::left_join(., gene_df %>% dplyr::select(name = entrez, display = hgnc), by = "display") %>% + dplyr::select(dataset, + group = name, + group_label = name) %>% + dplyr::rowwise() %>% + dplyr::mutate(feature= group, + dataset_display = unname(dataset_display[dataset]), + ft_label = "Gene Expression") + all_features <- rbind(all_features, gene_cols) + } + #Check which datasets have more than one level for categorical features + if(length(cat_features)>0){ + options <- tidyr::crossing(dataset = datasets, name = cat_features) + cat_values <- purrr::map2_dfr(.x = options$dataset, .y = options$name, .f = function(x, y){ + uvalue <- unique((fmx_df %>% + dplyr::filter(dataset_name == x))[[y]]) + if(length(uvalue)>1) data.frame(dataset = as.character(x), + dataset_display = unname(dataset_display[x]), + feature = as.character(y), + gname = as.character(uvalue), + stringsAsFactors = FALSE) %>% + dplyr::mutate(group = paste0(feature, gname)) + else return() + }) + if(nrow(cat_values)>0) cat_cols <- merge(cat_values, group_df, + by.x = c("gname", "feature"), by.y = c("tag_name", "parent_tag_name")) %>% + dplyr::mutate(group_label = paste(parent_tag_short_display, tag_short_display, sep = " - ")) %>% + dplyr::select(dataset, dataset_display, feature, ft_label = parent_tag_short_display, group, group_label) + + else return() + all_features <- rbind(all_features, cat_cols) + } + all_features %>% tidyr::drop_na() +} + +fit_coxph <- function(dataset1, data, feature, time, status, ft_labels, multivariate = FALSE){ + data_cox <- data %>% + dplyr::filter(dataset_name == dataset1) + + if(!all(is.na(data_cox[[time]]))){ + #checking which features have more than one level for the dataset + #valid_ft <- purrr::keep(feature, function(x) dplyr::n_distinct(data_cox[[x]])>1) + valid_ft <- unique((ft_labels %>% + dplyr::filter(dataset == dataset1))$feature) + + if(multivariate == FALSE){ + purrr::map_dfr(.x = valid_ft, function(x){ + cox_features <- stats::as.formula(paste( + "survival::Surv(", time, ",", status, ") ~ ", x)) + + survival::coxph(cox_features, data_cox)%>% + create_ph_df(dataset = dataset1) + }) + }else{ + mult_ft <- paste0(valid_ft, collapse = " + ") + + cox_features <- stats::as.formula(paste( + "survival::Surv(", time, ",", status, ") ~ ", + mult_ft) + ) + survival::coxph(cox_features, data_cox) %>% + create_ph_df(dataset = dataset1) + } + }else{ + data.frame( + logHR = NULL, + logupper = NULL, + loglower = NULL, + difflog=NULL, + logpvalue = NULL + ) + } +} + +create_ph_df <- function(coxphList, dataset){ + + coef_stats <- as.data.frame(summary(coxphList)$conf.int) + coef_stats$dataset <- dataset + coef_stats$group <- row.names(coef_stats) + coef_stats$pvalue <- (stats::coef(summary(coxphList))[,5]) + + coef_stats %>% + dplyr::mutate(logHR = log10(`exp(coef)`), + logupper = log10(`upper .95`), + loglower = log10(`lower .95`), + difflog=logHR-loglower, + logpvalue = -log10(pvalue)) +} + +build_coxph_df <- function(datasets, data, feature, time, status, ft_labels, multivariate = FALSE){ + + df <- purrr::map_dfr(.x = datasets, .f= fit_coxph, + data = data, + feature = feature, + time = time, + status = status, + ft_labels = ft_labels, + multivariate = multivariate) %>% + {suppressMessages(dplyr::right_join(x = ., ft_labels))} %>% + dplyr::mutate(group_label=replace(group_label, is.na(logHR), paste("(Ref.)", .$group_label[is.na(logHR)]))) %>% + dplyr::mutate_all(~replace(., is.na(.), 0)) + + if(multivariate == FALSE){ #so we need to compute FDR and add annotation in the heatmap + df_bh <- df %>% + dplyr::filter(!stringr::str_detect(group_label, '(Ref.)')) %>% + dplyr::group_by(dataset) %>% + dplyr::mutate(FDR = p.adjust(pvalue, method = "BH")) %>% + dplyr::ungroup() %>% + dplyr::select(dataset, group, FDR) + + df <- merge(df, df_bh, by = c("dataset", "group"), all.x = TRUE) %>% + dplyr::mutate(heatmap_annotation = dplyr::case_when( + is.na(FDR) ~ "", + pvalue > 0.05 | FDR > 0.2 ~ "", + pvalue <= 0.05 & FDR <= 0.2 & FDR > 0.05 ~ "*", + pvalue <= 0.05 & FDR <= 0.05 ~ "**" + )) + } + df +} + +build_forestplot_dataset <- function(x, coxph_df, xname){ + + subset_df <- coxph_df %>% + dplyr::filter(dataset == x) %>% + dplyr::arrange(ft_label, dataset_display)#desc(abs(logHR))) + + if(dplyr::n_distinct(coxph_df$group) == 1){ + plot_title = "" + ylabel = unique(subset_df$dataset_display) + }else{ + plot_title = unique(subset_df$dataset_display) + ylabel = factor(subset_df$group_label, levels = subset_df$group_label) + } + + p <- create_forestplot_plotly(x = subset_df$logHR, + y = ylabel, + error = subset_df$difflog, + plot_title = plot_title, + xlab = xname) + + if(dplyr::n_distinct(coxph_df$group) == 1){ + p <- p %>% + plotly::layout( + title = unique(subset_df$group_label) + ) + } + + if(dplyr::n_distinct(subset_df$ft_label)>1){ #categorical data selected, add lines dividing categories + p <- p %>% + plotly::layout( + shapes = lazyeval::lazy_eval(get_hlines_pos(subset_df %>% dplyr::select(var1 = ft_label))) + ) + } + p +} + +build_heatmap_df <- function(coxph_df){ + df <- coxph_df %>% + dplyr::filter(!stringr::str_detect(group_label, '(Ref.)')) %>% + dplyr::arrange(feature) %>% + dplyr::select(dataset_display, group_label, logHR) %>% + tidyr::pivot_wider(names_from = group_label, values_from = logHR) %>% + as.data.frame() + + row.names(df) <- sub("\\ -.*", "", df$dataset_display) + df$dataset_display <- NULL + + t(as.matrix(df)) +} + +add_BH_annotation <- function(coxph_df, p){ + + fdr_corrected <- coxph_df %>% + dplyr::select(dataset_display, group_label, pvalue, FDR, heatmap_annotation) + fdr_corrected$dataset_display <- sub("\\ -.*", "", fdr_corrected$dataset_display) + + p %>% + plotly::add_annotations(x = fdr_corrected$dataset_display, + y = fdr_corrected$group_label, + text = fdr_corrected$heatmap_annotation, + showarrow = F, + font=list(color='black')) %>% + plotly::add_annotations( text="BH pValue \n * <= 0.2 \n ** <= 0.05", xref="paper", yref="paper", + x=1.03, xanchor="left", + y=0, yanchor="bottom", + legendtitle=TRUE, showarrow=FALSE ) +} diff --git a/apps/iatlas/app/R/ici_hazard_ratio_main_server.R b/apps/iatlas/app/R/ici_hazard_ratio_main_server.R new file mode 100644 index 0000000000..ff1008ff45 --- /dev/null +++ b/apps/iatlas/app/R/ici_hazard_ratio_main_server.R @@ -0,0 +1,263 @@ +ici_hazard_ratio_main_server <- function( + id, + cohort_obj +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + output$excluded_dataset <- shiny::renderText({ + if(all(cohort_obj()$dataset_displays %in% unique(cohort_obj()$group_tbl$dataset_display))){ + "" + }else{ + excluded_datasets <- setdiff(cohort_obj()$dataset_displays, unique(cohort_obj()$group_tbl$dataset_display)) + paste( + paste(excluded_datasets, collapse = ", "), + " not included because all samples were filtered in ICI Cohort Selection." + ) + } + }) + + #store selected variables + selected_vals <- shiny::reactiveValues(vars = c("IMPRES", "Vincent_IPRES_NonResponder")) + observe({ + shiny::req(input$var2_cox) + selected_vals$vars <- input$var2_cox + }) + + categories <- shiny::reactive(iatlasGraphQLClient::query_tags(datasets = cohort_obj()[["dataset_names"]]) %>% + dplyr::mutate(class = dplyr::case_when( + tag_name %in% c( "Response", "Responder", "Progression", "Clinical_Benefit") ~ "Response to ICI", + TRUE ~ "Treatment Data")) + ) + + features <- shiny::reactive({ + cohort_obj()$feature_tbl %>% + dplyr::filter(!name %in% c("OS", "OS_time", "PFI_1", "PFI_time_1")) + }) + + genes <- shiny::reactive({ + iatlasGraphQLClient::query_immunomodulators() + + }) + + shiny::observe({ + shiny::req(categories(), features(), genes()) + var_choices_clin <- create_nested_list_by_class(categories(), + class_column = "class", + internal_column = "tag_name", + display_column = "tag_short_display") + + var_choices_feat <- create_nested_list_by_class(features(), + class_column = "class", + internal_column = "name", + display_column = "display") + + var_choices_gene <- create_nested_list_by_class(genes(), + class_column = "gene_family", + internal_column = "entrez", + display_column = "hgnc") + + var_choices <- c(var_choices_clin, var_choices_feat, var_choices_gene) + + shiny::updateSelectizeInput(session, + "var2_cox", + choices = var_choices, + selected = selected_vals$vars, + server = TRUE + ) + }) + + mult_coxph <- shiny::reactive({ + switch( + input$analysisvar, + "uni_coxph" = FALSE, + "mult_coxph" = TRUE + ) + }) + + status_column <- shiny::reactive({ + switch( + input$timevar, + "OS_time" = "OS", + "PFI_time_1"= "PFI_1" + ) + }) + + dataset_displays <- reactive({ + setNames(cohort_obj()$dataset_displays, cohort_obj()$dataset_names) + }) + + #getting survival data of all ICI pre treatment samples + OS_data <- shiny::reactive({ + iatlasGraphQLClient::query_tag_samples(tags = "pre_sample_treatment") %>% + dplyr::bind_rows(iatlasGraphQLClient::query_cohort_samples(cohorts = "Prins_GBM_2019")) %>% + dplyr::distinct(sample_name) %>% + dplyr::inner_join(iatlasGraphQLClient::query_feature_values(features = c("OS", "OS_time", "PFI_1", "PFI_time_1")), + by = c("sample_name" = "sample")) %>% + dplyr::select(sample_name, feature_name, feature_value) %>% + tidyr::pivot_wider(., names_from = feature_name, values_from = feature_value, values_fill = NA) + }) + + samples <- shiny::eventReactive(input$go_button, { + shiny::req(OS_data()) + + cohort_obj()$sample_tbl %>% + dplyr::inner_join(., OS_data(), by = "sample_name") %>% + dplyr::group_by(dataset_name) %>% + dplyr::group_modify(~ dplyr::mutate(., has_surv_data = !all(is.na(.x[[input$timevar]])))) %>% + dplyr::ungroup() %>% + dplyr::filter(has_surv_data) + }) + + groups <- shiny::reactive(iatlasGraphQLClient::query_tags_with_parent_tags(parent_tags = input$var2_cox)) + + feature_df_mult <- shiny::eventReactive(input$go_button, { + shiny::req(input$var2_cox, samples()) + shiny::validate(shiny::need(nrow(samples())>0, "Selected survival endpoint not available for selected dataset(s)")) + + feature_df <- samples() + + selected_features <- input$var2_cox[input$var2_cox %in% features()$name] + selected_genes <- input$var2_cox[input$var2_cox %in% genes()$entrez] + selected_cat <- input$var2_cox[input$var2_cox %in% categories()$tag_name] + + if(length(selected_features)>0){ + feature_df <- dplyr::inner_join(feature_df, + iatlasGraphQLClient::query_feature_values(features = selected_features) %>% + dplyr::select(sample_name = sample, feature_name, feature_value) %>% + tidyr::pivot_wider(names_from = feature_name, values_from = feature_value), + by = "sample_name") + } + + if(length(selected_genes)>0){ + feature_df <- dplyr::inner_join(feature_df, + iatlasGraphQLClient::query_gene_expression(cohorts = cohort_obj()$dataset_names, entrez = as.numeric(selected_genes))%>% + dplyr::select(sample_name = sample, feature_name = hgnc, feature_value = rna_seq_expr) %>% + tidyr::pivot_wider(names_from = feature_name, values_from = feature_value) %>% + dplyr::distinct(), + by = "sample_name") + } + + if(length(selected_cat)>0){ + feature_df <- dplyr::inner_join(feature_df, + iatlasGraphQLClient::query_tag_samples(cohorts = cohort_obj()$dataset_names, parent_tags = selected_cat) %>% + dplyr::inner_join(groups(), by = "tag_name") %>% + dplyr::select(sample_name, tag_name, parent_tag_name) %>% + tidyr::pivot_wider(names_from = parent_tag_name, values_from = tag_name), + by = "sample_name") + + } + feature_df + }) + + + dataset_ft <- shiny::eventReactive(input$go_button, { + shiny::req(input$var2_cox, feature_df_mult()) + #creates a df with the dataset x feature combinations that are available + get_feature_by_dataset( + features = input$var2_cox, + feature_df = features(), + gene_df = genes(), + group_df = groups(), + fmx_df = feature_df_mult(), + datasets = cohort_obj()[["dataset_names"]], + dataset_display = dataset_displays() + ) + }) + + coxph_df <- shiny::eventReactive(input$go_button, { + shiny::req(input$var2_cox, dataset_ft()) + build_coxph_df(datasets = cohort_obj()[["dataset_names"]], + data = feature_df_mult(), + feature = input$var2_cox, + time = input$timevar, + status = status_column(), + ft_labels = dataset_ft(), + multivariate = mult_coxph()) + }) + + output$mult_forest <- plotly::renderPlotly({ + shiny::validate(need(length(input$var2_cox)>0, "Select at least one variable.")) + all_forests <- purrr::map(.x = unique(coxph_df()$dataset), + .f = build_forestplot_dataset, + coxph_df = coxph_df(), + xname = "log10(Hazard Ratio) + 95% CI") + + if(length(unique(coxph_df()$group)) == 1){ + plotly::subplot(all_forests, nrows = dplyr::n_distinct(coxph_df()$dataset), shareX = TRUE, titleX = TRUE, titleY= TRUE, margin = 0.01) + }else{ + npannel <- ((dplyr::n_distinct(coxph_df()$dataset)+1)%/%2) + plotly::subplot(all_forests, nrows = npannel, titleX = TRUE, titleY = TRUE, margin = 0.09) + } + }) + + output$mult_heatmap <- plotly::renderPlotly({ + shiny::validate(need(length(input$var2_cox)>0, "Select at least one variable.")) + + heatmap_df <- build_heatmap_df(coxph_df()) + + p <- create_heatmap(heatmap_df, "heatmap", scale_colors = T, legend_title = "log10(Hazard Ratio)") + + if(mult_coxph() == FALSE & length(input$var2_cox)>1){ + p <- add_BH_annotation(coxph_df(), p) + } + p + }) + + summary_table <- shiny::eventReactive(input$go_button,{ + + if(mult_coxph() == FALSE){ #for univariable models, we need to display the FDR results + coxph_df() %>% + dplyr::select(dataset_display, ft_label, group_label, logHR, loglower, logupper, pvalue, logpvalue, FDR) %>% + dplyr::rename(Dataset = dataset_display, Feature = ft_label, Variable = group_label, `log10(HR)` = logHR, `p.value` = pvalue, `Neg(log10(p.value))` = logpvalue, `BH FDR` = FDR) %>% + dplyr::mutate_if(is.numeric, formatC, digits = 3) %>% + dplyr::arrange(Dataset) + }else{ + coxph_df() %>% + dplyr::select(dataset_display, ft_label, group_label, logHR, loglower, logupper, pvalue, logpvalue) %>% + dplyr::rename(Dataset = dataset_display, Feature = ft_label, Variable = group_label, `log10(HR)` = logHR, `p.value` = pvalue, `Neg(log10(p.value))` = logpvalue) %>% + dplyr::mutate_if(is.numeric, formatC, digits = 3) %>% + dplyr::arrange(Dataset) + } + }) + + output$stats_summary <- DT::renderDataTable(summary_table()) + + output$download_stats <- downloadHandler( + filename = function() stringr::str_c("HR_results-", Sys.Date(), ".csv"), + content = function(con) readr::write_csv(summary_table(), con) + ) + + shiny::observeEvent(input$method_link,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/cox_regression.markdown"), + easyClose = TRUE, + footer = NULL + )) + }) + + missing_os <- shiny::reactive({ + shiny::req(samples()) + + ds_with_os <- unique(coxph_df()$dataset_display) + + if(dplyr::n_distinct(cohort_obj()$group_tbl$dataset_display) != length(ds_with_os)){ + setdiff(cohort_obj()$group_tbl$dataset_display, ds_with_os) + } + }) + + output$notification <- shiny::renderText({ + shiny::req(missing_os()) + if(length(missing_os()) == 0){#no notification to display + "" + }else{ + paste0("Selected survival endpoint not available for ", missing_os(), collapse = "
") + } + }) + } + ) +} diff --git a/apps/iatlas/app/R/ici_hazard_ratio_main_ui.R b/apps/iatlas/app/R/ici_hazard_ratio_main_ui.R new file mode 100644 index 0000000000..87708ce2de --- /dev/null +++ b/apps/iatlas/app/R/ici_hazard_ratio_main_ui.R @@ -0,0 +1,66 @@ +ici_hazard_ratio_main_ui <- function(id){ + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox( + width = 24, + shiny::includeMarkdown("inst/markdown/ici_hazard_ratio.markdown") + ), + iatlas.modules::optionsBox( + width = 12, + column( + width = 4, + selectInput( + ns("analysisvar"), + "Select Type of Analysis", + c("Univariable Cox Proportional" = "uni_coxph", + "Multivariable Cox Proportional" = "mult_coxph" + ), + selected = "uni_coxph" + ), + actionLink(ns("method_link"), "Click to view method description for each type.") + ), + column( + width = 3, + selectInput( + ns("timevar"), + "Survival Endpoint", + c("Overall Survival" = "OS_time", + "Progression Free Interval" = "PFI_time_1"), + selected = "OS_time" + ) + ), + column( + width = 5, + shiny::selectizeInput( + ns("var2_cox"), + label = "Select or Search for variables", + choices = NULL, + multiple = TRUE + ), + shiny::actionButton(ns("go_button"), "Compute HR") + ) + ), + shiny::htmlOutput(ns("notification")), + shiny::htmlOutput(ns("excluded_dataset")), + iatlas.modules::plotBox( + width = 12, + plotly::plotlyOutput(ns("mult_heatmap"), width = "100%", height = "600px")%>% + shinycssloaders::withSpinner() + ), + iatlas.modules::plotBox( + width = 12, + plotly::plotlyOutput(ns("mult_forest"), width = "100%", height = "700px")%>% + shinycssloaders::withSpinner() + ), + iatlas.modules::messageBox( + width = 12, + p("The table shows the computed data used to create the visualizations above.") + ), + iatlas.modules::tableBox( + width = 12, + DT::dataTableOutput(ns("stats_summary")), + downloadButton(ns('download_stats'), 'Download') + ) + )#taglist +} diff --git a/apps/iatlas/app/R/ici_hazard_ratio_server.R b/apps/iatlas/app/R/ici_hazard_ratio_server.R new file mode 100644 index 0000000000..c39ecd12cd --- /dev/null +++ b/apps/iatlas/app/R/ici_hazard_ratio_server.R @@ -0,0 +1,14 @@ +ici_hazard_ratio_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + ici_hazard_ratio_main_server( + "ici_hazard_ratio_main", + cohort_obj + ) + } + ) +} diff --git a/apps/iatlas/app/R/ici_hazard_ratio_ui.R b/apps/iatlas/app/R/ici_hazard_ratio_ui.R new file mode 100644 index 0000000000..d86a614d4b --- /dev/null +++ b/apps/iatlas/app/R/ici_hazard_ratio_ui.R @@ -0,0 +1,22 @@ +ici_hazard_ratio_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "CRI iAtlas Explorer — Cox Proportional Hazard Ratio to Immune Checkpoint Inhibitors" + ), + iatlas.modules::textBox( + width = 12, + p("Analyze outcome data in Immune Checkpoint Inhibition datasets using Cox proportional hazard models."), + p("Check out our ", + a(href="https://docs.google.com/presentation/d/1KduXxUAb6lKAGDFL74dWiQb7bx2vDW7x48VFXqm_XJ0/edit?usp=sharing", "tutorial"), + "and the", a(href="https://github.com/CRI-iAtlas/iatlas-notebooks/blob/main/ici_hazard_ratio.ipynb", "Jupyter notebook"), + "reproducing the code run in this module.") + ), + iatlas.modules::sectionBox( + title = "Cox Proportional Hazard Ratio", + ici_hazard_ratio_main_ui(ns("ici_hazard_ratio_main")) + ) + ) +} diff --git a/apps/iatlas/app/R/ici_immune_features_server.R b/apps/iatlas/app/R/ici_immune_features_server.R new file mode 100644 index 0000000000..f930628751 --- /dev/null +++ b/apps/iatlas/app/R/ici_immune_features_server.R @@ -0,0 +1,32 @@ +ici_immune_features_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + + ici_datasets <- shiny::reactive({ + x <- iatlasGraphQLClient::query_datasets(types = "ici") + setNames(as.character(x$name), x$display) + }) + + categories_df <- shiny::reactive(iatlasGraphQLClient::query_tags(datasets = ici_datasets()) %>% + dplyr::mutate(class = dplyr::case_when( + tag_name %in% c( "Response", "Responder", "Progression", "Clinical_Benefit") ~ "Response to ICI", + TRUE ~ "Treatment Data")) %>% + create_nested_list_by_class(., + class_column = "class", + internal_column = "tag_name", + display_column = "tag_short_display") + ) + + ici_distribution_server( + "ici_immune_features_distribution", + cohort_obj, + metadata_feature_df = categories_df(), + feature_df <- cohort_obj()$feature_tbl + ) + } + ) +} diff --git a/apps/iatlas/app/R/ici_immune_features_ui.R b/apps/iatlas/app/R/ici_immune_features_ui.R new file mode 100644 index 0000000000..0b1994106f --- /dev/null +++ b/apps/iatlas/app/R/ici_immune_features_ui.R @@ -0,0 +1,22 @@ +ici_immune_features_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "CRI iAtlas Explorer — Immune Features in Immune Checkpoint Inhibitors datasets" + ), + iatlas.modules::textBox( + width = 12, + p("This module allows you to see how immune readouts vary across your groups.") + ), + iatlas.modules::sectionBox( + title = "Distributions", + iatlas.modules::messageBox( + width = 12, + shiny::includeMarkdown("inst/markdown/ici_immunefeatures.markdown") + ), + ici_distribution_ui(ns("ici_immune_features_distribution")) + ) + ) +} diff --git a/apps/iatlas/app/R/ici_immunomodulators_server.R b/apps/iatlas/app/R/ici_immunomodulators_server.R new file mode 100644 index 0000000000..9e15508df4 --- /dev/null +++ b/apps/iatlas/app/R/ici_immunomodulators_server.R @@ -0,0 +1,53 @@ +ici_immunomodulators_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + + ici_datasets <- shiny::reactive({ + x <- iatlasGraphQLClient::query_datasets(types = "ici") + setNames(as.character(x$name), x$display) + }) + + categories_df <- shiny::reactive(iatlasGraphQLClient::query_tags(datasets = ici_datasets()) %>% + dplyr::mutate(class = dplyr::case_when( + tag_name %in% c( "Response", "Responder", "Progression", "Clinical_Benefit") ~ "Response to ICI", + TRUE ~ "Treatment Data")) %>% + create_nested_list_by_class(., + class_column = "class", + internal_column = "tag_name", + display_column = "tag_short_display") + ) + + genes <- shiny::reactive({ + iatlasGraphQLClient::query_immunomodulators() %>% + dplyr::select( + "feature_name" = "entrez", + "feature_display" = "hgnc", + "Gene Family" = "gene_family", + "Gene Function" = "gene_function", + "Immune Checkpoint" = "immune_checkpoint", + "Super Category" = "super_category" + ) + }) + + var_choices <- reactive({ + genes() %>% + dplyr::select( + name = feature_name, + display = feature_display, + class = `Gene Family` + ) + }) + + ici_distribution_server( + "ici_immunomodulators_distribution", + cohort_obj, + metadata_feature_df = categories_df(), + feature_df = var_choices() + ) + } + ) +} diff --git a/apps/iatlas/app/R/ici_immunomodulators_ui.R b/apps/iatlas/app/R/ici_immunomodulators_ui.R new file mode 100644 index 0000000000..3940f89d60 --- /dev/null +++ b/apps/iatlas/app/R/ici_immunomodulators_ui.R @@ -0,0 +1,21 @@ +ici_immunomodulators_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "CRI iAtlas Explorer — Immunomodulators Expression in Immune Checkpoint Inhibitors datasets" + ), + iatlas.modules::textBox( + width = 12, + p("Explore the expression of genes that code for immunomodulating proteins, including checkpoint proteins.") + ), + iatlas.modules::sectionBox( + title = "Distributions", + iatlas.modules::messageBox(width = 12, + shiny::includeMarkdown("inst/markdown/ici_immunomodulators.markdown") + ), + ici_distribution_ui(ns("ici_immunomodulators_distribution")) + ) + ) +} diff --git a/apps/iatlas/app/R/ici_load_data.R b/apps/iatlas/app/R/ici_load_data.R new file mode 100644 index 0000000000..8e4399a0fc --- /dev/null +++ b/apps/iatlas/app/R/ici_load_data.R @@ -0,0 +1,13 @@ +load_io_response <- function(){ + list( + dataset_io_df = arrow::read_feather("inst/feather/datasets_io_df_all.feather") + ) +} + +load_io_data <- function(){ + io_data <- load_io_response() + + list( + dataset_df = io_data$dataset_io_df + ) +} diff --git a/apps/iatlas/app/R/ici_models_main_server.R b/apps/iatlas/app/R/ici_models_main_server.R new file mode 100644 index 0000000000..e012fff319 --- /dev/null +++ b/apps/iatlas/app/R/ici_models_main_server.R @@ -0,0 +1,309 @@ +ici_models_main_server <- function( + id, + cohort_obj, + variables_list +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + output$excluded_dataset <- shiny::renderText({ + if(all(cohort_obj()$dataset_displays %in% unique(cohort_obj()$group_tbl$dataset_display))){ + "" + }else{ + excluded_datasets <- setdiff(cohort_obj()$dataset_displays, unique(cohort_obj()$group_tbl$dataset_display)) + paste( + paste(excluded_datasets, collapse = ", "), + " not available for training because all samples were filtered in ICI Cohort Selection." + ) + } + }) + + ici_rna_ds <- shiny::reactive({ + names_ds <- setNames(cohort_obj()$dataset_displays, cohort_obj()$dataset_names) + rna_ds <- create_ici_options(unique(cohort_obj()$group_tbl$dataset_name)) + names_ds[rna_ds[['RNA-Seq']]] + }) #gets list of RNA-seq and Nanostring datasets + + output$bucket_list <- shiny::renderUI({ + list_format <- "

" + sortable::bucket_list( + header = "1. Select training and testing datasets", + group_name = ns("dataset_bucket"), + orientation = "horizontal", + sortable::add_rank_list( + text = "Datasets available", + labels = lapply( + lapply(ici_rna_ds(), function(x) paste(list_format, x, "

")), + shiny::HTML), + input_id = ns("datasets") + ), + sortable::add_rank_list( + text = "Training datasets", + input_id = ns("train") + ), + sortable::add_rank_list( + text = "Testing datasets", + input_id = ns("test") + ) + ) + }) + + observe(shiny::updateSelectizeInput(session, 'predictors_clinical_data', + choices = variables_list$clinical_data, + selected = NULL, + server = TRUE)) + observe(shiny::updateSelectizeInput(session, 'predictors_immunefeatures', + choices = variables_list$immunefeatures, + selected = NULL, + server = TRUE)) + observe(shiny::updateSelectizeInput(session, 'predictors_biomarkers', + choices = variables_list$biomarkers, + selected = NULL, + server = TRUE)) + observe(shiny::updateSelectizeInput(session, 'predictors_gene', + choices = variables_list$genes, + selected = NULL, + server = TRUE)) + observe(shiny::updateSelectizeInput(session, 'response_variable', + choices = variables_list$response_vars, + selected = "Responder", + server = TRUE)) + + predictors <- shiny::reactive( + c(input$predictors_clinical_data, input$predictors_immunefeatures, input$predictors_biomarkers, input$predictors_gene) + ) + + output$categoric_pred <- shiny::renderUI({ + shiny::req(input$balance_pred == TRUE) + shiny::validate(shiny::need(length(input$predictors_clinical_data)>0, "No categorical predictor was selected.")) + shiny::checkboxGroupInput( + ns("pred_to_balance"), + label = "Select variable(s) to be balanced", + choices = names(variables_list$clinical_data)[match(input$predictors_clinical_data,variables_list$clinical_data)] + ) + }) + output$num_transform <- shiny::renderUI({ + selected_pred <- training_obj()$predictors %>% + dplyr::filter(feature_name %in% c(input$predictors_immunefeatures, input$predictors_biomarkers,input$predictors_gene)) %>% + dplyr::mutate(menu = purrr::set_names(feature_name, feature_display)) %>% + dplyr::pull(menu) + + shiny::validate(shiny::need(length(selected_pred)>0, "No numeric predictor was selected.")) + shiny::checkboxGroupInput( + ns("pred_to_transform"), + label = "Select variable(s) to scale", + choices = selected_pred + ) + }) + + block_train <- shiny::reactiveVal(TRUE) #Train button blocked at startup + training_obj <- reactive({ + + if( (length(input$train) == 0) | (length(input$test) == 0) | length(predictors()) < 2) block_train(TRUE) + else block_train(FALSE) + + shiny::validate( + shiny::need(input$train, "Select training dataset(s)"), + shiny::need(input$test, "Select testing dataset(s)"), + shiny::need(length(predictors())>1, "Select two or more predictors") + ) + + get_training_object( + cohort_obj = cohort_obj(), + train_ds = input$train, + test_ds = input$test, + selected_response = input$response_variable, + selected_pred = predictors(), + selected_genes = input$predictors_gene, + previous_treat_to_exclude = input$exclude_previous + ) + }) + + output$samples_summary <- shiny::renderUI({ + shiny::req(training_obj()) + shiny::verticalLayout( + shiny::p( + paste( + paste("Samples in training set: ", nrow(training_obj()$subset_df$train_df)), + paste("Samples in testing set: ", nrow(training_obj()$subset_df$test_df)), + sep = " | " + ) + ), + shiny::br(), + shiny::p( + paste0("Selected formula: ", names(variables_list$response_vars)[match(input$response_variable,variables_list$response_vars)], + " ~ ", paste(subset(training_obj()$predictors, VariableType != "Category")$feature_display, collapse = " + ") + ) + ) + ) + }) + + output$response_characteristics <- shiny::renderText({ + shiny::req(input$response_variable) + iatlasGraphQLClient::query_tags(tags = input$response_variable) %>% dplyr::pull(tag_characteristics) + }) + + #scale numeric variables + selected_df <- reactive({ + list( + train = get_scaled_data(training_obj()$subset_df$train_df, scale_function_choice = input$scale_method, predictors_to_scale = input$pred_to_transform), + test = get_scaled_data(training_obj()$subset_df$test_df, scale_function_choice = input$scale_method, predictors_to_scale = input$pred_to_transform) + ) + }) + + train_df <- reactive({ + if(input$do_norm == TRUE){ + normalize_dataset( + train_df = selected_df()$train, + test_df = selected_df()$test, + variable_to_norm = dplyr::filter(training_obj()$predictors, VariableType == "Numeric")$feature_name, + predictors = c(input$response_variable, dplyr::filter(training_obj()$predictors, VariableType != "Category")$feature_name), + is_test = FALSE) %>% + dplyr::filter(dplyr::if_all(tidyselect::everything(), ~ !stringr::str_starts(., "na_"))) + }else{ + selected_df()$train %>% + tidyr::drop_na(any_of(predictors())) %>% + dplyr::filter(dplyr::if_all(tidyselect::everything(), ~ !stringr::str_starts(., "na_"))) %>% + dplyr::select("sample_name", "dataset_name", input$response_variable, all_of(dplyr::filter(training_obj()$predictors, VariableType != "Category")$feature_name)) + } + }) + + test_df <- reactive({ + if(input$do_norm == TRUE){ + normalize_dataset( + train_df = selected_df()$train, + test_df = selected_df()$test, + variable_to_norm = dplyr::filter(training_obj()$predictors, VariableType == "Numeric")$feature_name, + predictors = c(input$response_variable, dplyr::filter(training_obj()$predictors, VariableType != "Category")$feature_name), + is_test = TRUE) %>% + dplyr::filter(dplyr::if_all(tidyselect::everything(), ~ !stringr::str_starts(., "na_"))) + }else{ + selected_df()$test %>% + tidyr::drop_na(any_of(predictors())) %>% + dplyr::filter(dplyr::if_all(tidyselect::everything(), ~ !stringr::str_starts(., "na_"))) %>% + dplyr::select("sample_name", "dataset_name", input$response_variable, all_of(dplyr::filter(training_obj()$predictors, VariableType != "Category")$feature_name)) + } + }) + + observe({ #block Train button if one of the datasets is missing annotation for one predictor. Notify number of samples with NA that will be excluded + shiny::req(training_obj()) + + if(dplyr::n_distinct(training_obj()$subset_df$train_df$TCGA_Study) >1) shiny::showNotification("Warning: You selected datasets with samples from different tumor types. The data from these datasets will be merged for training.", duration = 10, id = "mix_types") + else shiny::removeNotification(id = "mix_types") + + if((nrow(training_obj()$subset_df$train_df)/length(predictors()))<10) shiny::showNotification("Warning: The number of selected predictors is higher than 10% of the number of samples selected for training.", duration = 10, id = "high_pred") + else shiny::removeNotification(id = "high_pred") + + #Check if both train and test datasets have the same levels for the independent variable + if(all( + unique(test_df()[[input$response_variable]]) %in% unique(train_df()[[input$response_variable]]))){ + response_levels <- NULL + } + else{ + block_train(TRUE) + response_levels <- "different" + shinyjs::show("response_levels") + output$response_levels <- shiny::renderText({"Testing dataset(s) with response levels not present in training. Rearrange selection to continue."}) + } + + if(nrow(training_obj()$missing_annot) == 0 & length(training_obj()$missing_level)==0 & is.null(response_levels)){ + block_train(FALSE) + shinyjs::hide("missing_data") + shinyjs::hide("missing_sample") + shinyjs::hide("response_levels") + }else{ + if(nrow(training_obj()$missing_annot)>0){ #checks for missing data + if(any(c("feature_all_na" ,"tag_all_na") %in% (training_obj()$missing_annot$missing_all))){#dataset doesn't have annotation for one selected feature + block_train(TRUE) + shinyjs::show("missing_data") + output$missing_data <- shiny::renderText({ + shiny::req(nrow(training_obj()$missing_annot) != 0) + missing_all <- (training_obj()$missing_annot %>% dplyr::filter(missing_all %in% c("feature_all_na" ,"tag_all_na"))) + paste("") + }) + }else{ + shinyjs::hide("missing_data") + } + + if("tag_one_level" %in% training_obj()$missing_annot$missing_all){ + block_train(TRUE) + shinyjs::show("single_level") + output$single_level <- shiny::renderText({ + shiny::req(nrow(training_obj()$missing_annot) != 0) + missing_all <- (training_obj()$missing_annot %>% dplyr::filter(missing_all == "tag_one_level")) + paste("") + }) + }else{ + shinyjs::hide("single_level") + } + + if(!any(c("feature_all_na" ,"tag_all_na", "tag_one_level") %in% (training_obj()$missing_annot$missing_all))){ + block_train(FALSE) + } + + if(any(c("feature_some_na" ,"tag_some_na") %in% training_obj()$missing_annot$missing_all)){ #samples with missing info for a selected feature + shinyjs::show("missing_sample") + + output$missing_sample <- shiny::renderText({ + shiny::req(nrow(training_obj()$missing_annot) != 0) + missing_some <- (training_obj()$missing_annot %>% dplyr::filter(missing_all %in% c("feature_some_na" ,"tag_some_na"))) + paste("") + }) + } + } #ends check for NAs in annotation + if(length(training_obj()$missing_level)>0){ + block_train(TRUE) + output$missing_level <- shiny::renderText({ + shiny::req(nrow(training_obj()$missing_level) != 0) + paste("") + }) + } + } + }) + + advanced_selection <- shiny::reactive({ + list( + set_seed = input$seed_value, + balance_lhs = input$balance_resp, + balance_rhs = input$balance_pred, + predictors_to_balance = input$pred_to_balance + ) + }) + + observeEvent(input$method_link,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/methods/ici_models.markdown"), + easyClose = TRUE, + footer = NULL + )) + }) + + ici_models_train_server( + "ici_model1", + shiny::reactive(training_obj()), + train_df = shiny::reactive(train_df()), + test_df = shiny::reactive(test_df()), + advanced_options = shiny::reactive(advanced_selection()), + blocked_train = shiny::reactive(block_train()) + ) + + ici_models_train_server( + "ici_model2", + shiny::reactive(training_obj()), + train_df = shiny::reactive(train_df()), + test_df = shiny::reactive(test_df()), + advanced_options = shiny::reactive(advanced_selection()), + blocked_train = shiny::reactive(block_train()) + ) + } + ) +} diff --git a/apps/iatlas/app/R/ici_models_main_ui.R b/apps/iatlas/app/R/ici_models_main_ui.R new file mode 100644 index 0000000000..f3a26cdb59 --- /dev/null +++ b/apps/iatlas/app/R/ici_models_main_ui.R @@ -0,0 +1,103 @@ +ici_models_main_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox( + width = 24, + shiny::includeMarkdown("inst/markdown/ici_models.markdown"), + shiny::actionLink(ns("method_link"), "Click to view method description.") + ), + shiny::htmlOutput(ns("excluded_dataset")), + iatlas.modules::optionsBox( + width = 24, + shiny::column( + width = 6, + shiny::uiOutput(ns("bucket_list")) + ), + shiny::column( + width = 3, + shiny::p(strong("2. Select predictors")), + shiny::selectizeInput(ns("predictors_clinical_data"), + label = "Clinical Data", + choices = NULL, + multiple = TRUE), + shiny::selectizeInput(ns("predictors_immunefeatures"), + label = "Immunefeatures", + choices = NULL, + multiple = TRUE), + shiny::selectizeInput(ns("predictors_biomarkers"), + label = "Biomarkers", + choices = NULL, + multiple = TRUE), + shiny::selectizeInput(ns("predictors_gene"), + label = "Gene Expression", + choices = NULL, + multiple = TRUE) + ), + shiny::column( + width = 3, + shiny::selectInput(ns("response_variable"), + label = "3. Select Response Variable", + choices = c("Responder", "Clinical Benefit")), + shiny::uiOutput(ns("response_characteristics")), + shiny::br(), + iatlas.modules::optionsBox( + width = 12, + title = "Advanced", + collapsible = TRUE, + collapsed = TRUE, + shiny::numericInput(ns("seed_value"), "Add seed", value = NULL, width = "80%"), + shiny::br(), + shiny::p("Balance categorical classes in cross-validation folds"), + shiny::checkboxInput(ns("balance_resp"), "Balance folds in cv for Response outcome", value = TRUE), + shiny::checkboxInput(ns("balance_pred"), "Balance folds in cv for categorical predictors", value = FALSE), + shiny::conditionalPanel( + "input.balance_pred == 1", + shiny::uiOutput(ns("categoric_pred")), + ns = ns + ), + shiny::br(), + shiny::selectInput( + ns("scale_method"), + "Scale numerical predictors", + choices = c( + "None", + "Log2", + "Log2 + 1", + "Log10", + "Log10 + 1" + ), + selected = "None" + ), + shiny::uiOutput(ns("num_transform")), + shiny::br(), + shiny::p("Transform numerical predictors"), + shiny::checkboxInput(ns("do_norm"), "Normalize numeric data", value = TRUE) + ) + ) + ), + shiny::fluidRow( + shiny::verticalLayout( + iatlas.modules::messageBox( + width = 12, + shiny::uiOutput(ns("samples_summary")), + shiny::br(), + shiny::htmlOutput(ns("response_levels")), + shiny::htmlOutput(ns("missing_data")), + shiny::htmlOutput(ns("single_level")), + shiny::htmlOutput(ns("missing_level")), + shiny::htmlOutput(ns("missing_sample")) + ) + ), + shiny::column( + width = 6, + ici_models_train_ui(ns("ici_model1")) + ), + shiny::column( + width = 6, + ici_models_train_ui(ns("ici_model2")) + ) + ) + ) +} diff --git a/apps/iatlas/app/R/ici_models_server.R b/apps/iatlas/app/R/ici_models_server.R new file mode 100644 index 0000000000..b2a6f91c3d --- /dev/null +++ b/apps/iatlas/app/R/ici_models_server.R @@ -0,0 +1,61 @@ +ici_models_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + + predictors_list <- reactive({ + + ici_tags <- iatlasGraphQLClient::query_dataset_tags(datasets = cohort_obj()$dataset_names) + + response_vars <- ici_tags %>% + dplyr::filter(tag_name %in% c("Responder", "Clinical_Benefit", "Progression")) %>% + dplyr::select(tag_short_display, tag_name) %>% + tibble::deframe() + + clinical_data <- iatlasGraphQLClient::query_dataset_tags(datasets = cohort_obj()$dataset_names) %>% + dplyr::filter(!tag_name %in% c("Response", "Responder", "Clinical_Benefit", "Progression", "Sample_Treatment", "TCGA_Study")) %>% + dplyr::select(tag_short_display, tag_name) %>% + tibble::deframe() + + immunefeatures <- cohort_obj()$feature_tbl %>% + dplyr::filter(class != "Predictor of Response to Immune Checkpoint Treatment" & + method_tag != "Survival") %>% + create_nested_list_by_class( + class_column = "class", + display_column = "display", + internal_column = "name" + ) + + biomarkers <- cohort_obj()$feature_tbl %>% + dplyr::filter(class == "Predictor of Response to Immune Checkpoint Treatment") %>% + dplyr::select(display, name) %>% + tibble::deframe() + + genes <- iatlasGraphQLClient::query_immunomodulators() %>% + create_nested_list_by_class( + class_column = "gene_family", + display_column = "hgnc", + internal_column = "entrez" + ) + + list( + response_vars = response_vars, + clinical_data = clinical_data, + immunefeatures = immunefeatures, + biomarkers = biomarkers, + genes = genes + ) + }) + + ici_models_main_server( + "ici_models_train", + cohort_obj, + variables_list = predictors_list() + ) + } + ) +} + diff --git a/apps/iatlas/app/R/ici_models_train_functions.R b/apps/iatlas/app/R/ici_models_train_functions.R new file mode 100644 index 0000000000..34083e1e6e --- /dev/null +++ b/apps/iatlas/app/R/ici_models_train_functions.R @@ -0,0 +1,570 @@ +get_dataset_id <- function(ds_labels, cohort_obj){ + ds_ids <- setNames(cohort_obj$dataset_names, cohort_obj$dataset_displays) + sapply(ds_labels, function(x) ds_ids[x]) +} + +get_dataset_label <- function(ds_name, cohort_obj){ + ds_ids <- setNames(cohort_obj$dataset_displays, cohort_obj$dataset_names) + sapply(ds_name, function(x) ds_ids[[x]]) +} +###################### +# Dataset preparation +###################### +normalize_variable <- function(x, is_test = FALSE, train_avg = NULL, train_sd = NULL){ + x <- as.numeric(x) + if(is_test == FALSE){ + if(min(x) == 0 & max(x) == 0) return(NA_integer_) #flag in case all values are 0 for a given dataset. + else (x - mean(x))/sd(x) + }else{ + (x - train_avg)/train_sd + } +} + +normalize_dataset <- function(train_df, test_df = NULL, variable_to_norm, predictors, is_test = FALSE){ + train_df[, variable_to_norm] <- sapply(train_df[, variable_to_norm], as.numeric) + if(is_test == FALSE){ + avg_train <- NULL + sd_train <- NULL + df <- train_df + }else{ + avg_train <- colMeans(train_df[,variable_to_norm, drop = FALSE]) + sd_train <- apply(train_df[,variable_to_norm, drop = FALSE], 2, sd) + df <- test_df + } + df %>% + dplyr::group_by(dataset_name) %>% + tidyr::drop_na(dplyr::any_of(predictors)) %>% + dplyr::mutate(dplyr::across(dplyr::all_of(variable_to_norm), + ~normalize_variable( + .x, + is_test = is_test, + train_avg = avg_train[dplyr::cur_column()], + train_sd = sd_train[dplyr::cur_column()]))) %>% + dplyr::ungroup() %>% + dplyr::select("sample_name", "dataset_name", dplyr::all_of(predictors)) +} + +######################### +# Training parameters +######################### +get_scaled_data <- function(df, scale_function_choice = "None", predictors_to_scale){ + + scale_function <- switch( + scale_function_choice, + "None" = identity, + "Log2" = log2, + "Log2 + 1" = function(x) log2(x + 1), + "Log10" = log10, + "Log10 + 1" = function(x) log10(x + 1) + ) + df %>% + dplyr::mutate(across(all_of(predictors_to_scale), scale_function)) +} + +exclude_treatment_data <- function(x){ + is.na(x) | x == FALSE +} + +get_predictors_df <- function( + datasets, + selected_pred, + selected_response, + selected_genes +){ + #df with selected predictors and labels + pred_features <- iatlasGraphQLClient::query_cohort_features(cohorts = datasets) %>% + dplyr::filter(feature_name %in% selected_pred) %>% + dplyr::mutate(VariableType = "Numeric") %>% + dplyr::select(feature_name, feature_display, VariableType) %>% + dplyr::distinct() + + if(nrow(pred_features) > 0){ + pred_df <- iatlasGraphQLClient::query_feature_values(cohorts = datasets, features = pred_features$feature_name) %>% + dplyr::select(sample_name = sample, feature_name, feature_value) + }else{ + pred_df <- NULL + } + + #for categorical predictors, we need to make sure to store the key to label them correctly + + cat_df <- iatlasGraphQLClient::query_tag_samples(cohorts = datasets, parent_tags = c(selected_response, selected_pred, "Prior_Rx", "TCGA_Study")) %>% #we always want TCGA Study to check if user mixed different types + dplyr::inner_join(iatlasGraphQLClient::query_tags_with_parent_tags(parent_tags = c(selected_response, selected_pred, "TCGA_Study")), by = c("tag_name", "tag_long_display", "tag_short_display", "tag_characteristics", "tag_color", "tag_order", "tag_type")) + + categories <- cat_df %>% + dplyr::mutate(feature_name = paste0(parent_tag_name, tag_name), + feature_display = tag_short_display, + VariableType = "Category") %>% + dplyr::select(feature_name, feature_display, VariableType) %>% + rbind( + iatlasGraphQLClient::query_tags_with_parent_tags(parent_tags = selected_pred)%>% + dplyr::select(feature_name = parent_tag_name, feature_display = parent_tag_short_display) %>% + dplyr::mutate(VariableType = "Categorical") + ) %>% + dplyr::distinct() + + cat_df <- dplyr::select(cat_df, sample_name, feature_name = parent_tag_name, feature_value = tag_name) #formatting to bind with others + + genes <- data.frame() + if(length(selected_genes >0)) genes <- data.frame( + feature_name = selected_genes, + feature_display = selected_genes, + VariableType = "Numeric") + if(length(selected_genes >0)){ + gene_df <- iatlasGraphQLClient::query_gene_expression(cohorts = datasets, entrez = as.numeric(selected_genes)) + genes <- gene_df %>% + dplyr::mutate(feature_name = hgnc, + feature_display = hgnc, + VariableType = "Numeric") %>% + dplyr::select(feature_name, feature_display, VariableType) %>% + dplyr::distinct() + + gene_df <- dplyr::select(gene_df, sample_name = sample, feature_name = hgnc, feature_value = rna_seq_expr) + }else{ + genes <- NULL + gene_df <- NULL + } + + list( + predictors = rbind(pred_features, categories, genes), + predictors_df = rbind(pred_df, + cat_df, + gene_df) + ) +} + +check_categorical_predictors <- function( + cat_predictors_df, + data_list +){ + cat_predictors <- dplyr::filter(cat_predictors_df,VariableType == "Categorical") + + cat_na <- if(nrow(cat_predictors) >0){ + purrr::map_dfr(.x = unique(data_list$train$dataset_display), predictor = cat_predictors$feature_name, function(dataset, predictor){ + dataset_display <- dataset #get_dataset_label(dataset, cohort_obj) + + category <- sapply(data_list$train %>% dplyr::filter(dataset_display == dataset) %>% dplyr::select(predictor), function(x)dplyr::n_distinct(x)) + category <- category[category ==1] #get categories that have only one level + + n_na <- sapply(data_list$train %>% dplyr::filter(dataset_display == dataset) %>% dplyr::select(predictor), function(x)sum(stringr::str_starts(x, "na_"))) + n_samples <- nrow(data_list$train [data_list$train$dataset_display == dataset,]) + + some_na <- n_na[n_na < n_samples & n_na >0] + if(length(some_na)>0){ + one_level_df <- data.frame(feature_name = names(some_na), + dataset = dataset, + n_missing = some_na, + missing_all = "tag_some_na") + }else{ + one_level_df <- data.frame() + } + + if(length(category>0)){ #category has only one level in training set + all_na <- n_na[names(n_na) %in% names(category) & n_na == n_samples] + no_na <- n_na[names(n_na) %in% names(category) & n_na == 0] + if(length(all_na)>0){#list categories that have only NA values + one_level_df <- rbind( + one_level_df, + data.frame(feature_name = names(all_na), + dataset = dataset, + n_missing = all_na, + missing_all = "tag_all_na") + ) + } + if(length(no_na)>0){ #list categories that have one level that is not NA + one_level_df <- rbind( + one_level_df, + data.frame(feature_name = names(no_na), + dataset = dataset, + n_missing = no_na, + missing_all = "tag_one_level") + ) + } + } + if(nrow(one_level_df)>0){ + one_level_df %>% + merge(., cat_predictors_df, by = "feature_name") %>% + dplyr::select(feature_name, feature_display, dataset, n_missing, missing_all) + }else{ + data.frame() + } + }) + }else{ + data.frame() + }#cat_na + + cat_missing <- if(nrow(cat_predictors_df) >0){ + purrr::map_dfr(.x = cat_predictors_df$feature_name, function(x){ + missing_train <- unique(data_list$train_df[[x]]) + missing_test <- unique(data_list$test_df[[x]]) + if(length(missing_test)== 0 |length(missing_train)== 0) return(NULL) + missing_level <- setdiff(missing_test, missing_train) + if(length(missing_level) != 0){ + missing_df <- data_list$test_df %>% + dplyr::filter(.[[x]] %in% missing_level) %>% + dplyr::group_by(dataset_display) %>% + dplyr::select(dataset_display, dplyr::any_of(x)) %>% + dplyr::distinct() + + group_labels <- setNames(cat_predictors_df$feature_display, cat_predictors_df$feature_name) + cat_missing <- missing_df %>% + dplyr::mutate(feature_name = x, + feature_display = subset(cat_predictors_df, feature_name == x, feature_display)$feature_display, + teste = paste0(feature_name, .data[[x]]), + group = group_labels[paste0(feature_name, .data[[x]])] #subset(cat_predictors_df, feature_name == paste0(x, missing_df[[x]]), feature_display)$feature_display + ) %>% + dplyr::rename(dataset = dataset_display) %>% + dplyr::distinct() + } + }) + }#cat_missing + + + list( + cat_na = cat_na, + cat_missing = cat_missing + ) +} + + +###### Build training obj ############### +get_training_object <- function(cohort_obj, + train_ds, + test_ds, + selected_response, + selected_pred, + selected_genes, + scale_function_choice = "None", predictors_to_scale, + previous_treat_to_exclude = NULL){ + #df with train and test + dataset_selection <- list( + train = train_ds, #get_dataset_id(train_ds, cohort_obj), + test = test_ds #get_dataset_id(test_ds, cohort_obj) + ) + + #info about selected outcome + response_levels <- iatlasGraphQLClient::query_tags_with_parent_tags(parent_tags = selected_response) + + # #df with selected predictors and labels + predictors <- get_predictors_df( + cohort_obj$dataset_names, + selected_pred, + selected_response, + selected_genes + ) + + #getting samples that are pre-treatment. We need to handle the Prins dataset differently, because an on_sample_treatment means that ICI was not neoadjuvant + if("Prins_GBM_2019" %in% cohort_obj$dataset_names){ + pre_treat_samples <- iatlasGraphQLClient::query_tag_samples(tags = "pre_sample_treatment", cohorts = cohort_obj$dataset_names) %>% + dplyr::filter(sample_name %in% cohort_obj$sample_tbl$sample_name) %>% + dplyr::bind_rows(iatlasGraphQLClient::query_cohort_samples(cohorts = "Prins_GBM_2019")) %>% #we want all samples from Prins + dplyr::distinct(sample_name) + }else{ + pre_treat_samples <- iatlasGraphQLClient::query_tag_samples(cohorts = cohort_obj$dataset_names, tags = "pre_sample_treatment") %>% + dplyr::filter(sample_name %in% cohort_obj$sample_tbl$sample_name) + } + + #consolidating df with selected predictors, dataset, adding survival data + pred_df <- predictors$predictors_df %>% + rbind(iatlasGraphQLClient::query_feature_values(cohorts = cohort_obj$dataset_names, features = c("OS", "OS_time", "PFI_1", "PFI_time_1")) %>% + dplyr::select(sample_name = sample, feature_name, feature_value)) %>% + dplyr::filter(sample_name %in% pre_treat_samples$sample_name) %>% + dplyr::distinct() %>% + #dplyr::filter(dplyr::across(tidyselect::everything(), ~ !stringr::str_starts(., "na_"))) %>% + tidyr::pivot_wider(., id_cols = sample_name, names_from = feature_name, values_from = feature_value, values_fill = NA) %>% + dplyr::inner_join(iatlasGraphQLClient::query_dataset_samples(datasets = cohort_obj$dataset_names), by = "sample_name") + + #subset dataset + data_bucket <- list( + train_df = pred_df %>% + dplyr::filter(dataset_name %in% dataset_selection$train) %>% + tidyr::drop_na(dplyr::any_of(predictors$predictors$feature_name)) %>% + dplyr::filter(dplyr::if_all(previous_treat_to_exclude, exclude_treatment_data)), + test_df = pred_df %>% + dplyr::filter(dataset_name %in% dataset_selection$test) %>% + tidyr::drop_na(dplyr::any_of(predictors$predictors$feature_name)) %>% + dplyr::filter(dplyr::if_all(previous_treat_to_exclude, exclude_treatment_data)) + ) + + #Check if any of the selected predictors is missing for a specific dataset (eg, IMVigor210 doesn't have Age data) + missing_annot <- purrr::map_dfr(.x = names(c(dataset_selection$train, dataset_selection$test)), predictor = dplyr::filter(predictors$predictors, VariableType != "Category")$feature_name, + function(dataset, predictor){ + feature <- sapply(pred_df %>% dplyr::filter(dataset_display == dataset) %>% dplyr::select(predictor), function(x)sum(is.na(x))) + + if(length(feature[feature != 0])>0){ #features that were not annotated in a dataset have NA as value + n_samples <- nrow(pred_df[pred_df$dataset_display == dataset,]) + data.frame(feature_name = names(feature[feature != 0]), + dataset = dataset, + n_missing = feature[feature != 0]) %>% + dplyr::mutate( + missing_all = dplyr::case_when( + n_missing == n_samples ~ "feature_all_na", + TRUE ~ "feature_some_na" + )) %>% + merge(., predictors$predictors, by = "feature_name") %>% + dplyr::select(feature_name, feature_display, dataset, n_missing, missing_all) + } + }) + + #In case a categorical predictor is selected, check if: + #there is more than one level in the training set + #not all samples have NA as value in the training set + #the testing dataset has the same levels included for training + cat_errors <- check_categorical_predictors( + cat_predictors_df = dplyr::filter(predictors$predictors, VariableType %in% c("Categorical", "Category")), + data_list = data_bucket) + + missing_annot <- rbind( + missing_annot, + cat_errors$cat_na + ) + + list( + dataset = dataset_selection, + response_var = selected_response, + response_levels = response_levels, + predictors = predictors$predictors, + subset_df = data_bucket, + missing_annot = missing_annot, + missing_level = cat_errors$cat_missing + ) +} + + +######################### +# Training Methods +######################### +#get folds for cross-validation +get_balance_class <- function(df, response_variable, predictors_to_balance){ + dplyr::mutate(df, balance = paste0(df[[response_variable]], df[[predictors_to_balance]])) +} +get_cv_folds <- function(train_df, balance_lhs = TRUE, balance_rhs = FALSE, response_variable, predictors_to_balance, n_cv_folds){ + if(balance_rhs == FALSE){ + if(balance_lhs == TRUE) caret::createFolds(y = factor(train_df[[response_variable]]), k = n_cv_folds, returnTrain = TRUE) + if(balance_lhs == FALSE) return(NULL) + }else{ + if(balance_lhs == TRUE) bdf <- get_balance_class(train_df, response_variable, predictors_to_balance) + if(balance_lhs == FALSE) bdf <- get_balance_class(train_df, response_variable = "", predictors_to_balance) + caret::createFolds(y = factor(bdf$balance), k = n_cv_folds, returnTrain = TRUE) + } +} +#build table with results of cross-validation +get_table_cv_results <- function(model, has_bestTune = TRUE){ + if(has_bestTune == TRUE){ + results <- model$results[rownames(model$bestTune),] + }else{ + results <- model$results + } + numeric_columns <- colnames(results[1, sapply(results,is.numeric)]) + + DT::datatable( + results, + rownames = FALSE, + options = list(dom = 't', autoWidth = FALSE, scrollX = TRUE) + ) %>% DT::formatRound(columns =numeric_columns, digits = 3) +} + +#build plots with coefficients +get_plot_var_importance <- function(model, labels = NULL, from_varImp = TRUE, scale_values = FALSE, title = ""){ + if(from_varImp == TRUE){ + plot_df <- (caret::varImp(model, scale = scale_values))$importance + + plot_df$feature_name = rownames(plot_df) + colnames(plot_df) <- c("x", "feature_name") + plot_df$error <- 0 + }else{ #at the moment, only logistic regression + plot_df <- data.frame( + x = stats::coef(summary(model))[,1], + feature_name = rownames(stats::coef(summary(model))), + error = stats::coef(summary(model))[,2] + ) + } + plot_df <- merge(plot_df, labels, by = "feature_name", all.x = TRUE) %>% + dplyr::mutate(feature_display = replace(feature_display, feature_name == "(Intercept)", "(Intercept)")) %>% + dplyr::select(x, y = feature_display, error) + plot_levels <-levels(reorder(plot_df[["y"]], plot_df[["x"]], sort)) + + create_barplot_horizontal( + df = plot_df, + x_col = "x", + y_col = "y", + error_col = "error", + key_col = NA, + color_col = "y", + label_col = NA, + order_by = plot_levels, + xlab = "", + ylab = "", + title = title, + showLegend = FALSE, + source_name = NULL, + bar_colors = "#59a0af" + ) +} + +# Methods calls +run_elastic_net <- function(train_df, response_variable, predictors, n_cv_folds, balance_lhs = TRUE, balance_rhs = FALSE, predictors_to_balance = NULL){ + print("training elastic net") + + predictors_to_model <- predictors %>% dplyr::filter(VariableType != "Category") %>% dplyr::pull(feature_name) + cvIndex <- get_cv_folds(train_df, balance_lhs, balance_rhs, response_variable, predictors_to_balance, n_cv_folds) + parameters <- stats::as.formula(paste(response_variable, "~ ", paste0(sprintf("`%s`", predictors_to_model), collapse = "+"))) + + model <- caret::train( + parameters, data = train_df, method = "glmnet", + trControl = caret::trainControl(index = cvIndex, "cv", number = n_cv_folds), + tuneLength = 15 + ) + + results <- get_table_cv_results(model, has_bestTune = TRUE) + + plot <- get_plot_var_importance(model, predictors, from_varImp = TRUE, scale_values = FALSE, title = "Absolute values of coefficients") + + list(model = model, + results = results, + plot = plot) +} + +run_logistic_reg<- function(train_df, response_variable, predictors, n_cv_folds, balance_lhs = TRUE, balance_rhs = FALSE, predictors_to_balance = NULL){ + print("training model") + predictors_to_model <- predictors %>% dplyr::filter(VariableType != "Category") %>% dplyr::pull(feature_name) + cvIndex <- get_cv_folds(train_df, balance_lhs, balance_rhs, response_variable, predictors_to_balance, n_cv_folds) + + parameters <- stats::as.formula(paste(response_variable, "~ ", paste0(sprintf("`%s`", predictors_to_model), collapse = "+"))) + model <- caret::train( + parameters, data = train_df, method = "glm", family = "binomial", + trControl = caret::trainControl(index = cvIndex, "cv", number = n_cv_folds), + tuneLength = 15 + ) + + results <- get_table_cv_results(model, has_bestTune = FALSE) + + plot <- get_plot_var_importance(model, predictors, from_varImp = FALSE, title = "Absolute values of coefficients") + + list(model = model, + results = results, + plot = plot) +} + +run_xgboost <- function(train_df, response_variable, predictors, n_cv_folds, balance_lhs = TRUE, balance_rhs = FALSE, predictors_to_balance = NULL){ + print("training xgboost") + predictors_to_model <- predictors %>% dplyr::filter(VariableType != "Category") %>% dplyr::pull(feature_name) + cvIndex <- get_cv_folds(train_df, balance_lhs, balance_rhs, response_variable, predictors_to_balance, n_cv_folds) + + parameters <- stats::as.formula(paste(response_variable, "~ ", paste0(sprintf("`%s`", predictors_to_model), collapse = "+"))) + model <- caret::train( + parameters, data = train_df, method = "xgbTree", + trControl = caret::trainControl(index = cvIndex, "cv", number = n_cv_folds), + tuneLength = 5 + ) + + results <- get_table_cv_results(model, has_bestTune = TRUE) + + plot <- get_plot_var_importance(model, predictors, from_varImp = TRUE, scale_values = TRUE, title = "Relative importance of predictors") + + list(model = model, + results = results, + plot = plot) +} + +run_rf <- function(train_df, response_variable, predictors, n_cv_folds, balance_lhs = TRUE, balance_rhs = FALSE, predictors_to_balance = NULL){ + print("training random forest") + predictors_to_model <- predictors %>% dplyr::filter(VariableType != "Category") %>% dplyr::pull(feature_name) + cvIndex <- get_cv_folds(train_df, balance_lhs, balance_rhs, response_variable, predictors_to_balance, n_cv_folds) + + parameters <- stats::as.formula(paste(response_variable, "~ ", paste0(sprintf("`%s`", predictors_to_model), collapse = "+"))) + model <- caret::train( + parameters, data = train_df, method = "rf", + trControl = caret::trainControl(index = cvIndex, "cv", number = n_cv_folds), + tuneLength = length(predictors) + ) + + results <- get_table_cv_results(model, has_bestTune = TRUE) + + plot <- get_plot_var_importance(model, predictors, from_varImp = TRUE, scale_values = TRUE, title = "Relative importance of predictors") + + list(model = model, + results = results, + plot = plot) +} +######################### +# Testing Results +######################### +change_survival_endpoint <- function(endpoint_to_change){ + if(endpoint_to_change == "OS_time") c("PFI_time_1", "KM plot with PFI as endpoint") + else c("OS_time", "KM plot with OS as endpoint") +} +get_available_survival_endpoint <- function(df, selected_survival_endpoint){ #some datasets have only OS or PFI, force use of the one available + if(all(is.na(df[[selected_survival_endpoint]]))) change_survival_endpoint(selected_survival_endpoint) + else c(selected_survival_endpoint, "") +} +get_test_title <- function(dataset, survival_endpoint){ + paste(sub("\\ -.*", "", dataset), sub("\\_.*", "", survival_endpoint), sep = "\n") +} + +get_testing_results <- function(model, test_df, training_obj, survival_endpoint){ + purrr::map(.x = training_obj$dataset$test, function(x){ + class_labels <- training_obj$response_levels %>% + dplyr::filter(tag_order %in% c(1,2)) %>% + dplyr::arrange(tag_order) %>% + dplyr::select(tag_name, tag_short_display) %>% + tibble::deframe() + + df <- test_df %>% + dplyr::filter(dataset_name == x) %>% + dplyr::mutate(prediction = as.character(predict(model, newdata = .))) %>% + dplyr::mutate(label_outcome = class_labels[.[[training_obj$response_var]]], + label_prediction = class_labels[.$prediction]) + + if(length(levels(as.factor(df$label_outcome))) > 1){ + accuracy_results <- caret::confusionMatrix(as.factor(df$label_prediction), as.factor(df$label_outcome), positive = class_labels[1]) + + rocp <- pROC::roc( + response = factor(df[[training_obj$response_var]], ordered = TRUE), + predictor = factor(df$prediction, ordered = TRUE), + levels = names(class_labels), + quiet = TRUE, + auc = TRUE) + + rplot <- pROC::ggroc(rocp) + ggplot2::labs(title = paste("AUC: ", round(rocp$auc, 3))) + + }else{ #dataset has only one response level, or all predictions are for only one class + all_levels <- union(df$label_prediction, df$label_outcome) + accuracy_results <-table(Prediction = factor(df$label_prediction, all_levels), Reference = factor(df$label_outcome, all_levels)) + rplot <- "error" + } + + #KM plot + dataset_df <- training_obj$subset_df$test %>% + select(sample_name, OS, OS_time, PFI_1, PFI_time_1, dataset_display) %>% + merge(., df, by = "sample_name") + dataset_df[, c("OS", "OS_time", "PFI_1", "PFI_time_1")] <- sapply(dataset_df[, c("OS", "OS_time", "PFI_1", "PFI_time_1")], as.numeric) + + available_endpoint <- get_available_survival_endpoint(dataset_df, survival_endpoint) + surv_df <- build_survival_df( + df = dataset_df, + group_column = "label_prediction", + time_column =available_endpoint[1], + filter_df = FALSE) + + fit_df <- survival::survfit(survival::Surv(time, status) ~ measure, data = surv_df) + + test_title <- get_test_title(dataset = unique(dataset_df$dataset_display), available_endpoint[2]) + + kmplot <- create_kmplot(fit = fit_df, + df = surv_df, + confint = TRUE, + risktable = FALSE, + title = test_title, + group_colors = c("red", "green"), + show_pval = TRUE, + show_pval_method = TRUE, + facet = FALSE) + list( + results = as.data.frame(df), + accuracy_results = accuracy_results, + roc_plot = rplot, + km_plot = kmplot + ) + }) +} + diff --git a/apps/iatlas/app/R/ici_models_train_server.R b/apps/iatlas/app/R/ici_models_train_server.R new file mode 100644 index 0000000000..598ea5928d --- /dev/null +++ b/apps/iatlas/app/R/ici_models_train_server.R @@ -0,0 +1,127 @@ +ici_models_train_server <- function( + id, + training_obj, + train_df, + test_df, + advanced_options, + blocked_train +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + shiny::observe({ #we need to block the train button in case the selection will cause error in training or testing + shinyjs::toggleState("compute_train", condition = (blocked_train() == FALSE)) + }) + + #Running model + train_method <- reactive({ + switch( + input$train_method, + "Elastic Net Regression" = run_elastic_net, + "Logistic Regression" = run_logistic_reg, + "Random Forest" = run_rf, + "XGBoost" = run_xgboost, + ) + }) + model_train <- eventReactive(input$compute_train, { + shiny::validate(shiny::need(length(training_obj()$predictors)>1, "Select predictors for model training.")) + if(advanced_options()$balance_rhs == TRUE) shiny::validate(shiny::need(length(advanced_options()$predictors_to_balance)>0, "Select categorical predictors for balancing (advanced options)")) + if(!is.na(advanced_options()$set_seed)) set.seed(advanced_options()$set_seed) + + train_method()( + train_df = train_df(), + response_variable = training_obj()$response_var, + predictors = training_obj()$predictor, + n_cv_folds = input$cv_number, + balance_lhs = advanced_options()$balance_lhs, + balance_rhs = advanced_options()$balance_rhs, + predictors_to_balance = advanced_options()$predictors_to_balance + ) + }) + + output$results <- DT::renderDataTable({ + shiny::req(model_train()) + model_train()$results + }) + + output$plot_coef <- plotly::renderPlotly({ + shiny::req(model_train()) + model_train()$plot + }) + + ###TEST + prediction_test <- eventReactive(input$compute_test, { + get_testing_results(model_train()$model, + test_df(), + training_obj(), + input$test_survival) + }) + #Results of test for each selected dataset are stored in a list, so below we will plot all elements in the list + shiny::observeEvent(input$compute_test,{ + shiny::req(prediction_test()) + output$test_plots <- renderUI({ + plot_output_list <- + lapply(1:length(training_obj()$dataset$test), function(i) { + plotname <- training_obj()$dataset$test[i] + shiny::verticalLayout( + + shiny::fluidRow( + shiny::column( + width = 8, + plotOutput(ns(paste0("km_", plotname)), height = 300), + ), + shiny::column( + width = 4, + plotOutput(ns(paste0("roc_", plotname)), height = 200) + ) + ), + verbatimTextOutput(ns(paste0("ac_", plotname))), + shiny::hr() + ) + }) + do.call(tagList, plot_output_list) + }) + }) + + shiny::observeEvent(input$compute_test,{ + lapply(1:length(shiny::isolate(training_obj()$dataset$test)), function(i){ + my_dataset <- training_obj()$dataset$test[i] + output[[paste0("ac_", my_dataset)]] <- shiny::renderPrint({ + shiny::req(prediction_test()) + prediction_test()[[i]]$accuracy_results + }) + output[[paste0("roc_", my_dataset)]] <- shiny::renderPlot({ + shiny::req(prediction_test()) + shiny::validate( + shiny::need(!is.character(prediction_test()[[i]]$roc_plot), "No ROC curve computed.")) + prediction_test()[[i]]$roc_plot + }) + output[[paste0("km_", my_dataset)]] <- shiny::renderPlot({ + shiny::req(prediction_test()) + prediction_test()[[i]]$km_plot + }) + }) + }) + + #if user creates a new model, previous testing results will be hidden + shiny::observeEvent(input$compute_train,{ + shinyjs::hide("test_plots") + }) + shiny::observeEvent(input$compute_test,{ + shinyjs::show("test_plots") + }) + + output$download_train <- shiny::downloadHandler( + filename = function() stringr::str_c("train-", Sys.Date(), ".tsv"), + content = function(con) readr::write_delim(dplyr::mutate(train_df(), prediction = predict(model_train()$model, newdata = train_df())), con, delim = "\t") + ) + output$download_test <- shiny::downloadHandler( + filename = function() stringr::str_c("test-", Sys.Date(), ".tsv"), + content = function(con) readr::write_delim(purrr::map_dfr(prediction_test(), function(x)x$results), con, delim = "\t") + ) + } + ) +} diff --git a/apps/iatlas/app/R/ici_models_train_ui.R b/apps/iatlas/app/R/ici_models_train_ui.R new file mode 100644 index 0000000000..d45f12ef07 --- /dev/null +++ b/apps/iatlas/app/R/ici_models_train_ui.R @@ -0,0 +1,57 @@ +ici_models_train_ui <- function(id){ + ns <- shiny::NS(id) + + shiny::tagList( + verticalLayout( + iatlas.modules::optionsBox( + width = 12, + shinyjs::useShinyjs(), + shiny::column( + width = 6, + shiny::selectInput(ns("train_method"), + label = "Select training method", + choices = c("Elastic Net Regression", "Logistic Regression", "Random Forest", "XGBoost"), + selected = "Elastic Net Regression") + ), + shiny::column( + width = 6, + shiny::sliderInput(ns("cv_number"), + label = "Number of folds for cross-validation", + min = 1, + max = 10, + step = 1, + value = 3) + ), + shiny::column(width = 3), + shiny::column( + width = 3, + shiny::actionButton(ns("compute_train"), "Train Model") + ) + ), + iatlas.modules::plotBox( + width = 12, + DT::dataTableOutput(ns("results")), + plotly::plotlyOutput(ns("plot_coef")) %>% + shinycssloaders::withSpinner(), + shiny::downloadButton(ns("download_train"), "Download training predictions") + ) + ), + iatlas.modules::optionsBox( + width = 12, + shiny::actionButton(ns("compute_test"), "Run model in the test dataset(s)"), + shiny::br(), + shiny::selectInput(ns("test_survival"), "Select Survival Endpoint for KM plot with predicted outcome", + choices = c("Overall Survival" = "OS_time", + "Progression Free Interval" = "PFI_time_1"), + selected = "OS_time") + ), + shiny::column( + width = 12, + iatlas.modules::plotBox( + width = 24, + uiOutput(ns("test_plots")), + shiny::downloadButton(ns("download_test"), "Download testing predictions") + ) + ) + ) +} diff --git a/apps/iatlas/app/R/ici_models_ui.R b/apps/iatlas/app/R/ici_models_ui.R new file mode 100644 index 0000000000..2080c53dd8 --- /dev/null +++ b/apps/iatlas/app/R/ici_models_ui.R @@ -0,0 +1,22 @@ +ici_models_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "CRI iAtlas Explorer — Machine Learning Models of Response to Immunotherapy with Immune Checkpoint Inhibition datasets" + ), + iatlas.modules::textBox( + width = 12, + p("Train and run multivariable models with cross-validation on ICI genomics and immunogenomics data."), + p("Check out our ", + a(href="https://docs.google.com/presentation/d/1Z86yWIQ33KNhQY6PHziSLyjEi1xzLzBPdQLXTWc6bZE/edit#slide=id.p", "tutorial"), + "and the", a(href="https://github.com/CRI-iAtlas/iatlas-notebooks/tree/main/ici_models_notebooks", "Jupyter notebooks"), + "reproducing the code run in this module.") + ), + iatlas.modules::sectionBox( + title = "Multivariable Models", + ici_models_main_ui(ns("ici_models_train")) + ) + ) +} diff --git a/apps/iatlas/app/R/ici_modules_functions.R b/apps/iatlas/app/R/ici_modules_functions.R new file mode 100644 index 0000000000..568a57d163 --- /dev/null +++ b/apps/iatlas/app/R/ici_modules_functions.R @@ -0,0 +1,220 @@ +ioresponse_data <- load_io_data() + +create_ici_options <- function(.datasets){ + nanostring_ds <- c("Chen_CanDisc_2016", "Melero_GBM_2019", "Prat_CanRes_2017") + rnaseq_nano_ds <- "Prins_GBM_2019" + + return( + list( + 'RNA-Seq' = .datasets[!(.datasets %in% nanostring_ds)], + 'Nanostring' = .datasets[.datasets %in% c(nanostring_ds, rnaseq_nano_ds)] + ) + ) +} + +#utils functions from shiny-iatlas + +assert_df_has_columns <- function(df, columns){ + missing_columns <- columns[!columns %in% colnames(df)] + if(length(missing_columns) != 0){ + stop("df has missing columns: ", + stringr::str_c(missing_columns, collapse = ", ")) + } +} + +assert_df_has_rows <- function(df){ + if(nrow(df) == 0){ + stop("result df is empty") + } +} + +convert_values <- function(values, df, from_column, to_column){ + assert_df_has_columns(df, c(from_column, to_column)) + df %>% + dplyr::select(FROM = from_column, TO = to_column) %>% + dplyr::filter(FROM %in% values) %>% + magrittr::use_series(TO) +} + +convert_value_between_columns <- function( + input_value, df, from_column, to_column, + no_matches = "error", + many_matches = "error"){ + + result <- convert_values( + input_value, df, from_column, to_column) + + # 1 match + if (length(result) == 1) return(result) + + # no matches + if (length(result) == 0){ + if(no_matches == "return_input"){ + return(input_value) + } else if(no_matches == "return_na") { + return(NA) + } else { + stop("input value has no matches: ", input_value) + } + } + + # many matches + if (length(result) > 1){ + if(many_matches == "return_result"){ + return(result) + } else { + stop("input value: ", + input_value, + ", has multiple matches: ", + stringr::str_c(result, collapse = ", ")) + } + } +} + +create_filtered_nested_list_by_class <- function( + feature_df, + filter_value, + class_column = "CLASS", + display_column = "DISPLAY", + internal_column = "INTERNAL", + filter_column = "FILTER"){ + + feature_df %>% + dplyr::select( + CLASS = class_column, + DISPLAY = display_column, + INTERNAL = internal_column, + FILTER = filter_column) %>% + dplyr::filter(FILTER == filter_value) %>% + select(CLASS, INTERNAL, DISPLAY) %>% + create_nested_list_by_class() +} + +create_nested_list_by_class <- function( + df, + class_column = "class", + display_column = "display", + internal_column = "name", + filter_expr = T) +{ + df %>% + dplyr::filter({{filter_expr}}) %>% + dplyr::select( + CLASS = class_column, + DISPLAY = display_column, + INTERNAL = internal_column + ) %>% + dplyr::mutate(CLASS = ifelse(is.na(CLASS), "Other", CLASS)) %>% + dplyr::mutate(CLASS = ifelse(CLASS == "", "Other", CLASS)) %>% + df_to_nested_list( + group_column = "CLASS", + key_column = "INTERNAL", + value_column = "DISPLAY") +} + +df_to_nested_list <- function(df, group_column, key_column, value_column){ + df %>% + get_complete_df_by_columns(c(group_column, value_column, key_column)) %>% + tidyr::nest(data = c(value_column, key_column)) %>% + dplyr::mutate(data = purrr::map(data, tibble::deframe)) %>% + tibble::deframe() #%>% + # sapply(., as.list) +} + +get_complete_df_by_columns <- function(df, columns){ + assert_df_has_columns(df, columns) + result_df <- df %>% + dplyr::select(columns) %>% + tidyr::drop_na() + assert_df_has_rows(result_df) + return(result_df) +} + +# functions for multiple ici modules + +get_group_labels <- function(df, group, group_labels = ioresponse_data$sample_group_df){ + group_labels %>% + dplyr::filter(Category == group) %>% + dplyr::select(FeatureValue, FeatureLabel, FeatureHex, order_within_sample_group) +} + +#functions to add lines for categorical groups + +get_lines_pos <- function(samples, y){ + + n_int <- nrow(samples) + + divs <-seq(0, 1, len=n_int+1) + + #getting the intervals with the same variable + int_pos <- divs[1] + for(i in 1:n_int){ + try(if(samples$var1[i] != samples$var1[i+1]) int_pos <- c(int_pos, divs[i+1]), silent = TRUE) + } + int_pos <- c(int_pos, divs[n_int+1]) + + lines_pos <- "list(" + for (i in 1:(length(int_pos)-1)) { + + lines_pos <- paste(lines_pos, + "list(line = list(color = 'rgba(68, 68, 68, 0.5)', width = 1), type = 'line', x0 =", + (int_pos[i]+0.01), + ", x1 =", + (int_pos[i]+0.01), + ", xref = 'paper', y0 =", + 0.2, + ", y1 =", + - 0.1, + ", yref = 'paper'), + list(line = list(color = 'rgba(68, 68, 68, 0.5)', width = 1), type = 'line', x0 =", + (int_pos[i+1]), + ", x1 =", + (int_pos[i+1]), + ", xref = 'paper', y0 =", + 0.2, + ", y1 =", + - 0.1, + ", yref = 'paper') + " + ) + if(i != (length(int_pos)-1)) lines_pos <- paste(lines_pos, ",") + } + paste(lines_pos, ")") +} + +get_hlines_pos <- function(samples){ + + n_int <- nrow(samples) + + divs <-seq(0, 1, len=n_int+1) + + #getting the intervals with the same variable + int_pos <- as.numeric()#divs[1] + for(i in 1:n_int){ + try(if(samples$var1[i] != samples$var1[i+1]) int_pos <- c(int_pos, divs[i+1]), silent = TRUE) + } + int_pos <- c(int_pos, divs[n_int+1]) + + lines_pos <- "list(" + for (i in 1:(length(int_pos)-1)) { + + lines_pos <- paste(lines_pos, + "list(line = list(color = 'rgba(68, 68, 68, 0.5)', width = 1), type = 'line', x0 =", + 0, + ", x1 =", + -0.5, + ", xref = 'paper', y0 =", + (int_pos[i]), + ", y1 =", + (int_pos[i]), + ", yref = 'paper') + " + ) + if(i != (length(int_pos)-1)) lines_pos <- paste(lines_pos, ",") + } + paste(lines_pos, ")") +} + +# ICI Clinical Outcomes +# TODO: Creating a list of KM plots for each selected dataset + diff --git a/apps/iatlas/app/R/ici_neoantigen_classes_server.R b/apps/iatlas/app/R/ici_neoantigen_classes_server.R new file mode 100644 index 0000000000..23c70fb19a --- /dev/null +++ b/apps/iatlas/app/R/ici_neoantigen_classes_server.R @@ -0,0 +1,80 @@ +ici_neoantigen_classes_server <- function( + id, + cohort_obj, + count_df, + dataset_displays, + legend_plot +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + cohort_count <- shiny::reactive({ + cohort_patients <- cohort_obj()$sample_tbl %>% + dplyr::inner_join(count_df, by = c("sample_name" = "sample")) %>% + dplyr::mutate(ERROR = NA) %>% + dplyr::group_by(dataset_name, group_name, feature_name) %>% + dplyr::mutate(y = sum(feature_value)) %>% + dplyr::mutate(text = paste("Neoantigen class: ", feature_name, "\n Group: ", group_name, "\n Count: ", y)) %>% + dplyr::select(dataset_name, group_name, feature_name, y, ERROR, text) %>% + dplyr::distinct() + }) + + all_plots <- shiny::reactive({ + shiny::validate(shiny::need(nrow(cohort_count)>0, "There is no neoantigen data for the selected dataset(s)")) + shiny::req(cohort_count()) + + purrr::map(cohort_obj()$dataset_names, function(x){ + dataset_df <- cohort_count() %>% + dplyr::filter(dataset_name == x) + + if(nrow(dataset_df)>0){ + dataset_df %>% + create_barplot( + ., + x_col = "feature_name", + y_col = "y", + error_col = "ERROR", + key_col = NA, + color_col = "group_name", + label_col = "text", + title = "", + source_name = "neo_class", + bar_colors = unique(cohort_obj()$plot_colors), + showlegend = FALSE + ) %>% + add_title_subplot_plotly(unname(dataset_displays()[x])) + } + }) %>% Filter(Negate(is.null),.) + }) + + output$classes_plot <- shiny::renderUI({ + shiny::req(all_plots()) + n_rows = (length(all_plots())+2)%/%3 + box_height = paste0(n_rows*400, "px") + + plotly::plotlyOutput(ns("neoantigen_classes_plot"), height = box_height) + }) + + output$legend <- DT:: renderDT({ + shiny::validate(shiny::need(nrow(cohort_count)>0, "")) + legend_plot()}) + + output$neoantigen_classes_plot <- plotly::renderPlotly({ + shiny::req(all_plots()) + plotly::subplot(all_plots(), nrows = (length(all_plots())+2)%/%3, margin = c(0.02, 0.02, 0.1, 0.1)) + }) + + observeEvent(input$method_link,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/methods/neoantigen-classes.markdown"), + easyClose = TRUE, + footer = NULL + )) + }) + } + ) +} diff --git a/apps/iatlas/app/R/ici_neoantigen_classes_ui.R b/apps/iatlas/app/R/ici_neoantigen_classes_ui.R new file mode 100644 index 0000000000..045923636c --- /dev/null +++ b/apps/iatlas/app/R/ici_neoantigen_classes_ui.R @@ -0,0 +1,29 @@ +ici_neoantigen_classes_ui <- function( + id, + cohort_obj +){ + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox( + width = 24, + shiny::p("The bar plots below summarize the frequency of classes of neoantigen for each dataset and group."), + shiny::actionLink(ns("method_link"), "Click to view the description about classes of neoantigens.") + ), + iatlas.modules::plotBox( + width = 12, + shiny::column( + width = 10, + shiny::uiOutput(ns("classes_plot")) %>% + shinycssloaders::withSpinner(.) + ), + shiny::column( + width = 2, + div( + DT::DTOutput(ns("legend")), + style = "font-size: 70%" + ) + ) + ) + ) +} diff --git a/apps/iatlas/app/R/ici_neoantigen_correlations_server.R b/apps/iatlas/app/R/ici_neoantigen_correlations_server.R new file mode 100644 index 0000000000..8e58babad7 --- /dev/null +++ b/apps/iatlas/app/R/ici_neoantigen_correlations_server.R @@ -0,0 +1,149 @@ +ici_neoantigen_correlations_server <- function( + id, + cohort_obj, + count_df, + dataset_displays +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + cohort_count <- shiny::reactive({ + cohort_patients <- cohort_obj()$sample_tbl %>% + dplyr::inner_join(count_df, by = c("sample_name" = "sample")) %>% + dplyr::select(sample_name, antigen_class = feature_name, antigen_class_display = feature_display, antigen_count = feature_value) + }) + + output$class_selection_ui <- shiny::renderUI({ + classes <- cohort_obj()$feature_tbl$class %>% + unique() %>% + sort() + + shiny::selectInput( + inputId = ns("feature_class_choice"), + label = "Select or Search for Feature Class", + choices = classes, + selected = classes[1] + ) + }) + + output$neoantigen_selection_ui <- shiny::renderUI({ + shiny::selectInput( + inputId = ns("neoantigen_feature_choice"), + label = "Select or Search for Antigen Class", + choices = unique(count_df$feature_name), + selected = "Self-Antigen" + ) + }) + + output$summarise_function_ui <- shiny::renderUI({ + funs = list( + "pearson" = purrr::partial(stats::cor, method = "pearson"), + "Spearman" = purrr::partial(stats::cor, method = "spearman"), + "Kendall" = purrr::partial(stats::cor, method = "kendall") + ) + + shiny::selectInput( + inputId = ns("summarise_function_choice"), + label = "Select Summarise Function", + choices = names(funs) + ) + }) + + feature_data <- shiny::reactive({ + shiny::req(input$feature_class_choice) + + cohort_count() %>% + dplyr::filter(antigen_class == input$neoantigen_feature_choice) %>% + dplyr::inner_join(.,cohort_obj()$get_feature_values(feature_classes = input$feature_class_choice), by = "sample_name") %>% + dplyr::select(-c(dataset_name, dataset_display)) %>% + dplyr::distinct() %>% + dplyr::inner_join(cohort_obj()$sample_tbl, by = "sample_name") %>% + dplyr::mutate(x_axis = paste(group_name, unname(dataset_displays()[dataset_name]), sep = " - ")) + }) + + correlation_data <- shiny::reactive({ + shiny::req(feature_data()) + shiny::validate(shiny::need(nrow(feature_data()) != 0, "There is no neoantigen in the selected class.")) + + feature_data() %>% + dplyr::group_by(x_axis, feature_display) %>% + dplyr::summarise(COR = stats::cor( + feature_value, + antigen_count, + method = input$summarise_function_choice, + use = "pairwise.complete.obs" + ), + .groups = "keep") %>% + tidyr::pivot_wider(names_from = x_axis, values_from = COR) %>% + tibble::column_to_rownames("feature_display") + + }) + + output$cor_plot <- plotly::renderPlotly({ + shiny::req(correlation_data()) + + create_heatmap(as.matrix(correlation_data()), "heatmap") %>% + plotly::layout(margin = list( + t = 30, + b = 10, + pad = 1 + ), + xaxis = list(tickangle = 45)) + + }) + + values <- shiny::reactiveValues(selected_group = NULL) + + shiny::observeEvent(plotly::event_data(event = "plotly_click", + source = "heatmap"), { + + clicked <- plotly::event_data(event = "plotly_click", + source = "heatmap") + + if (!is.null(clicked)) { + values$selected_group <- clicked$x + values$selected_feature <- clicked$y + } + + }) + + output$scatter_plot <- plotly::renderPlotly({ + shiny::req(feature_data()) + shiny::validate(shiny::need(values$selected_group, message = "Click on heatmap for scatterplot")) + + x <- feature_data() %>% + dplyr::filter(feature_display == values$selected_feature) %>% + dplyr::filter(x_axis == values$selected_group) %>% + dplyr::mutate(text = paste("Count", input$neoantigen_feature_choice, ": ", antigen_count, "\n", + values$selected_feature, ": ", feature_value)) + + lm_zero=lm(antigen_count~feature_value, data = x) + + create_scatterplot( + x, + x_col = "feature_value", + y_col = "antigen_count", + xlab = values$selected_feature, + ylab = paste("Count", input$neoantigen_feature_choice), + title = paste(input$neoantigen_feature_choice, "x", values$selected_feature, "\n for", values$selected_group), + color_col = "group_color", + label_col = "text", + show_legend = FALSE + ) %>% + plotly::add_lines(x =~feature_value, y = fitted(lm_zero),line = list(color = 'black',dash="dot", alpha = 0.5)) + }) + + observeEvent(input$method_link,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/methods/neoantigen-correlation.markdown"), + easyClose = TRUE, + footer = NULL + )) + }) + } + ) +} diff --git a/apps/iatlas/app/R/ici_neoantigen_correlations_ui.R b/apps/iatlas/app/R/ici_neoantigen_correlations_ui.R new file mode 100644 index 0000000000..b2b596acde --- /dev/null +++ b/apps/iatlas/app/R/ici_neoantigen_correlations_ui.R @@ -0,0 +1,40 @@ +ici_neoantigen_correlations_ui <- function( + id, + cohort_obj +){ + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox( + width = 24, + p("Select a class of immune features and a type of neoantigen. + The selection will generate a heatmap summarizing the correlation between the frequency of neoantigens and immune features values, for each dataset and groups selected in ICI Cohort Selection. + Click on the heatmap for a scatter plot with the immune features values and the frequency of neoantigen origin for the selected dataset and group. For information about distributions of immune features, refer to the Immune Features module."), + shiny::actionLink(ns("method_link"), "Click to view the description of the method for computing the correlation.") + ), + iatlas.modules::optionsBox( + width = 24, + shiny::column( + width = 5, + shiny::uiOutput(ns("class_selection_ui")) + ), + shiny::column( + width = 4, + shiny::uiOutput(ns("neoantigen_selection_ui")) + ), + shiny::column( + width = 3, + shiny::uiOutput(ns("summarise_function_ui")) + ) + ), + iatlas.modules::plotBox( + width = 24, + plotly::plotlyOutput(ns("cor_plot"), width = "100%", height = "600") %>% + shinycssloaders::withSpinner(.) + ), + iatlas.modules::plotBox( + width = 24, + plotly::plotlyOutput(ns("scatter_plot"), width = "100%", height = "300") + ) + ) +} diff --git a/apps/iatlas/app/R/ici_neoantigen_frequency_server.R b/apps/iatlas/app/R/ici_neoantigen_frequency_server.R new file mode 100644 index 0000000000..2734b6ebf3 --- /dev/null +++ b/apps/iatlas/app/R/ici_neoantigen_frequency_server.R @@ -0,0 +1,135 @@ +ici_neoantigen_frequency_server <- function( + id, + cohort_obj, + top_mhc_df, + dataset_displays, + legend_plot +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + clicked_point <- shiny::reactiveValues(ev="") + + output$gene_selection <- shiny::renderUI({ + shiny::selectInput(ns("gene"), + "Select Gene:", + choices = c("All", unique(top_mhc_df$gene_hgnc)), + selected = "All") + }) + + plot_df <- shiny::reactive({ + shiny::req(input$gene) + df <- cohort_obj()$sample_tbl %>% + dplyr::inner_join(iatlasGraphQLClient::query_sample_patients(), by = "sample_name") %>% + dplyr::inner_join(top_mhc_df, by = c("patient_name" = "patient")) + + if(input$gene != "All") df <- dplyr::filter(df, gene_hgnc == input$gene) + + df %>% + dplyr::group_by(dataset_name, group_name, pmhc) %>% + dplyr::summarise(n = sum(freq_pmhc), n_pat= dplyr::n_distinct(patient_name)) %>% + dplyr::mutate(text = paste0(pmhc, "\n Group: ", group_name)) %>% + dplyr::mutate(highlight = ifelse(pmhc == clicked_point$ev, 1, 0)) #add flag to mark a point that was clicked by the user + }) + + all_plots <- shiny::reactive({ + shiny::validate(shiny::need(nrow(plot_df())>0, "There is no neoantigen data for the selected dataset(s)")) + shiny::req(plot_df()) + + purrr::map(cohort_obj()$dataset_names, function(x){ + dataset_df <- plot_df() %>% + dplyr::filter(dataset_name == x) %>% + dplyr::mutate(n = jitter(n), n_pat = jitter(n_pat)) + + if(nrow(dataset_df)>0){ + p <- ggplot2::ggplot(dataset_df, aes(x=n, y=n_pat, text=text, key = pmhc)) + + geom_point(data=subset(dataset_df, highlight==0), aes(colour = group_name)) + + scale_color_manual("Group", values = (cohort_obj()$plot_colors))+ + theme_bw() + + theme( + legend.position="none", + panel.border = element_blank(), + panel.grid.major.x = element_blank(), + panel.grid.minor.x = element_blank(), + plot.margin = unit(c(1, 0.5, 0, 0), "cm") + )+ + labs( + y = "Number of patients with peptide-MHC", + x = "Peptide-MHCs ordered by frequency") + + + if(sum(dataset_df$highlight) != 0) p <- p + geom_point(data=subset(dataset_df, highlight==1), color="black", shape = "diamond", size=4) + + plotly::ggplotly(p, + tooltip="text", + source = "neo_plot") %>% + add_title_subplot_plotly(unname(dataset_displays()[x])) + } + }) %>% Filter(Negate(is.null),.) + }) + + output$frequency_plot <- shiny::renderUI({ + shiny::req(all_plots()) + n_rows = (length(all_plots())+1)%/%2 + box_height = paste0(n_rows*600, "px") + + plotly::plotlyOutput(ns("neoantigen_frequency_plot"), height = box_height) + }) + + output$neoantigen_frequency_plot <- plotly::renderPlotly({ + shiny::req(all_plots()) + plotly::subplot(all_plots(), nrows = (length(all_plots())), margin = 0.08, shareX = FALSE, shareY = FALSE, titleX = TRUE, titleY = TRUE) + }) + + output$legend <- DT:: renderDT({ + shiny::validate(shiny::need(nrow(plot_df())>0, "")) + legend_plot()}) + + #adding interactivity to select a point from the plot and render table with data for all groups + observe({ + shiny::req(all_plots()) + eventdata <- plotly::event_data( "plotly_click", source = "neo_plot") + if(is.null(eventdata)){ + clicked_point$ev <- "" + }else{ + clicked_point$ev <- eventdata$key + } + }) + + output$pmhc_tbl <- DT::renderDT({ + shiny::req(all_plots()) + shiny::validate( + shiny::need(unique(clicked_point$ev) %in% plot_df()$pmhc, "") + ) + + DT::datatable( + plot_df() %>% + dplyr::filter(pmhc == clicked_point$ev) %>% + dplyr::mutate(Dataset = dataset_displays()[dataset_name]) %>% + dplyr::ungroup() %>% + dplyr::select( + Dataset, + Group = group_name, + "Freq" = n, + "# patients" = n_pat + ), + rownames = FALSE, + caption = unique(clicked_point$ev), + options = list(dom = 't') + ) + }) + + observeEvent(input$method_link,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/methods/neoantigen-frequency.markdown"), + easyClose = TRUE, + footer = NULL + )) + }) + } + ) +} diff --git a/apps/iatlas/app/R/ici_neoantigen_frequency_ui.R b/apps/iatlas/app/R/ici_neoantigen_frequency_ui.R new file mode 100644 index 0000000000..4d4cf6ec8a --- /dev/null +++ b/apps/iatlas/app/R/ici_neoantigen_frequency_ui.R @@ -0,0 +1,39 @@ +ici_neoantigen_frequency_ui <- function( + id, + cohort_obj +){ + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox( + width = 24, + p("The scatterplot shows the frequency of the top 1% most common combinations of MHC, peptide (pMHC), and gene and the number of patients + who have it. The points are colored based on the grouping criteria selected in the Cohort Selection module."), + p("Points with high values on both axis represent pMHCs that are frequent (x-axis) and are carried by multiple patients (y-axis), + and potentially have several mutations events that lead to their appearance. + On the other hand, points with lower values on both axis represent pMHCs with low frequency that are present in few patients. "), + p("Click on any point for a table summarizing the frequency of the selection across all groups and selected datasets."), + shiny::actionLink(ns("method_link"), "Click to view the description of the method for this visualization."), + ), + iatlas.modules::optionsBox( + width = 12, + shiny::uiOutput(ns("gene_selection")) + ), + iatlas.modules::plotBox( + width = 12, + shiny::column( + width = 9, + shiny::uiOutput(ns("frequency_plot")) %>% + shinycssloaders::withSpinner(.) + ), + shiny::column( + width = 3, + div( + DT::DTOutput(ns("legend")), + DT::DTOutput(ns("pmhc_tbl")), + style = "font-size: 70%" + ) + ) + ) + ) +} diff --git a/apps/iatlas/app/R/ici_neoantigen_server.R b/apps/iatlas/app/R/ici_neoantigen_server.R new file mode 100644 index 0000000000..d1852a3d7a --- /dev/null +++ b/apps/iatlas/app/R/ici_neoantigen_server.R @@ -0,0 +1,100 @@ +ici_neoantigen_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + + #getting neoantigen data + top_mhc_df <- shiny::reactive(iatlasGraphQLClient::query_neoantigens()) + + count_df <- shiny::reactive(iatlasGraphQLClient::query_feature_values(feature_classes = "Neoantigen")) + + #vector with dataset labels for easy reference + dataset_displays <- reactive({ + setNames(cohort_obj()$dataset_displays, cohort_obj()$dataset_names) + }) + + # #adding warning for user of dataset selected in ICI Cohort Selection that doesn't have neoantigen data in iAtlas + output$excluded_dataset <- shiny::renderText({ + if(any(!cohort_obj()$sample_tbl$sample_name %in% unique(count_df()$sample))){ + absent_samples <- cohort_obj()$sample_tbl %>% + dplyr::mutate(flag = dplyr::if_else( + sample_name %in% count_df()$sample, + 1, + 0 + )) %>% + dplyr::group_by(dataset_name) %>% + dplyr::summarise(total_samples = dplyr::n_distinct(sample_name), + n_included = sum(flag)) %>% + dplyr::mutate(text = glue::glue("
  • Dataset {dataset_displays()[dataset_name]} has {n_included} samples from a total of {total_samples} included in this module.")) + + paste( + "" + ) + }else{ + "" + } + }) + + plot_legend <- shiny::reactive({ + tbl <- dplyr::distinct( + data.frame( + b = cohort_obj()$plot_colors, + a = names(cohort_obj()$plot_colors) + )) + + DT::datatable( + tbl, + rownames = FALSE, + class = "", + callback = DT::JS("$('table.dataTable.no-footer').css('border-bottom', 'none');"), + options = list( + dom = 't', + lengthChange = FALSE, + headerCallback = DT::JS( + "function(thead, data, start, end, display){", + " $(thead).remove();", + "}") + ) + ) %>% + DT::formatStyle('b', backgroundColor = DT::styleEqual(tbl$b, tbl$b)) %>% + DT::formatStyle('b', color = DT::styleEqual(tbl$b, tbl$b)) + + }) + + ici_neoantigen_classes_server( + "ici_neoantigen_classes", + cohort_obj, + count_df(), + shiny::reactive(dataset_displays()), + shiny::reactive(plot_legend()) + ) + ici_neoantigen_correlations_server( + "ici_neoantigen_correlations", + cohort_obj, + count_df(), + shiny::reactive(dataset_displays()) + ) + ici_neoantigen_frequency_server( + "ici_neoantigen_frequency", + cohort_obj, + top_mhc_df(), + shiny::reactive(dataset_displays()), + shiny::reactive(plot_legend()) + ) + + shiny::observeEvent(input$method_link,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/methods/neoantigen-prediction.markdown"), + easyClose = TRUE, + footer = NULL + )) + }) + } + ) +} diff --git a/apps/iatlas/app/R/ici_neoantigen_ui.R b/apps/iatlas/app/R/ici_neoantigen_ui.R new file mode 100644 index 0000000000..a46ce8fd40 --- /dev/null +++ b/apps/iatlas/app/R/ici_neoantigen_ui.R @@ -0,0 +1,36 @@ +ici_neoantigen_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "iAtlas Explorer — Neoantigens in Immune Checkpoint Inhibitors datasets" + ), + iatlas.modules::textBox( + width = 12, + p("Explore the prevalence, variety and distribution of predicted neoantigens in iAtlas datasets. Neoantigen prediction was performed using the Landscape of Effective Neoantigens Software (LENS) workflow", + a(href="https://academic.oup.com/bioinformatics/article/39/6/btad322/7162685", "(Vensko 2023).")), + p("Check out our ", + a(href="https://docs.google.com/presentation/d/1yQ1_twHL33bMEDRlsxf-Thz589uafOvrB8alMfOgzdE/edit?usp=sharing", "tutorial"), + "and", a(href="https://github.com/CRI-iAtlas/iatlas-notebooks/blob/main/ici_neoantigen.ipynb", "Jupyter notebook"), + "reproducing the code run in this module."), + shiny::actionLink(ns("method_link"), "Click to view the description of the method for neoantigen prediction.") + ), + iatlas.modules::messageBox( + width = 12, + shiny::htmlOutput(ns("excluded_dataset")) + ), + iatlas.modules::sectionBox( + title = "Classes of Neoantigens", + ici_neoantigen_classes_ui(ns("ici_neoantigen_classes")), + ), + iatlas.modules::sectionBox( + title = "Correlations", + ici_neoantigen_correlations_ui(ns("ici_neoantigen_correlations")) + ), + iatlas.modules::sectionBox( + title = "Frequency of peptides", + ici_neoantigen_frequency_ui(ns("ici_neoantigen_frequency")) + ), + ) +} diff --git a/apps/iatlas/app/R/ici_overview_category_server.R b/apps/iatlas/app/R/ici_overview_category_server.R new file mode 100644 index 0000000000..0ebae2ce6f --- /dev/null +++ b/apps/iatlas/app/R/ici_overview_category_server.R @@ -0,0 +1,114 @@ +ici_overview_category_server <- function( + id, + ioresponse_data, + data_group +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + dataset_type <- shiny::reactive({ + switch( + data_group(), + "ici" = "ici", + "cancer genomics" = "analysis", + "single-cell RNA-Seq" = "ici" #UPDATE!! + ) + }) + + ici_datasets <- shiny::reactive(iatlasGraphQLClient::query_datasets(types = dataset_type())) + ici_samples <- shiny::reactive(iatlasGraphQLClient::query_dataset_samples(datasets = ici_datasets()$name)) + + categories <- shiny::reactive(iatlasGraphQLClient::query_tags(datasets = ici_datasets()$name)) + + output$select_group1 <- renderUI({ + #shiny::req(categories()) + shiny::selectInput(ns("group1"), "Select Category", + choices = categories()$tag_short_display) + # selected = "Responder") + }) + + output$select_group2 <- renderUI({ + shiny::req(input$group1) + shiny::selectInput(ns("group2"), "Select second category to see groups overlap", + choices = (categories() %>% + dplyr::filter(tag_short_display != input$group1))$tag_short_display) + # selected = "Drug") + }) + + group1 <- reactive({ + shiny::req(input$group1) + convert_value_between_columns(input_value = input$group1, + df = shiny::isolate(categories()), + from_column = "tag_short_display", + to_column = "tag_name") + }) + + group2 <- reactive({ + shiny::req(input$group2) + convert_value_between_columns(input_value = input$group2, + df = shiny::isolate(categories()), + from_column = "tag_short_display", + to_column = "tag_name") + }) + + + output$ici_groups_df <- DT::renderDT({ + DT::datatable(categories() %>% + dplyr::filter(tag_short_display %in% input$group1) %>% + dplyr::select(Category = tag_short_display, Definition = tag_characteristics), #, `Sample Groups`, `Available for`), + rownames = FALSE, + options = list(dom = 't')) + }) + + values_for_group1 <- shiny::reactive({ + shiny::req(group1()) + iatlasGraphQLClient::query_tag_samples(samples = ici_samples()$sample_name, parent_tags = group1()) %>% + merge(., ici_samples(), by = "sample_name") + }) + + output$ici_per_ds_df <- DT::renderDT({ + shiny::req(input$group1) + DT::datatable(get_io_overview_table(values_for_group1()), + rownames = FALSE, + width = "80%", + caption = paste("Group Size per dataset for", input$group1), + options = list(dom = 't', + pageLength = 50, + order = list(list(0, 'asc')))) + }) + + output$ici_mosaic <- plotly::renderPlotly({ + shiny::req(values_for_group1(), group2()) + + df_mosaic <- get_io_mosaic_df(values_for_group1(), group2()) + + df_colors <- df_mosaic %>% + dplyr::select(y, plot_color) %>% + dplyr::distinct() + + plot_colors <- df_colors$plot_color + names(plot_colors) <- as.character(df_colors$y) + + create_mosaicplot(df_mosaic %>% dplyr::select(x,y), + title = stringr::str_c(input$group2, "by", input$group1, sep = " "), + fill_colors = plot_colors) %>% + plotly::layout( + autosize = TRUE, + margin = list(b=0) + ) + }) + + observeEvent(input$method_link,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/methods/Response_ICI_Predictors.markdown"), + easyClose = TRUE, + footer = NULL + )) + }) + } + ) +} diff --git a/apps/iatlas/app/R/ici_overview_category_ui.R b/apps/iatlas/app/R/ici_overview_category_ui.R new file mode 100644 index 0000000000..f2449c73e5 --- /dev/null +++ b/apps/iatlas/app/R/ici_overview_category_ui.R @@ -0,0 +1,52 @@ +ici_overview_category_ui <- function( + id, + cohort_obj +){ + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox( + width = 24, + # shiny::includeMarkdown(get_markdown_path( + # "ici_overview_datasets" + # )) + p("Samples in each dataset can be grouped based on study characteristics. + Here you can obtain details of these categories and the number of samples in each group per dataset."), + actionLink(ns("method_link"), "Click to view method description.") + ), + iatlas.modules::optionsBox( + width = 12, + shiny::uiOutput(ns("select_group1")) + ), + iatlas.modules::plotBox( + width = 12, + DT::DTOutput( + ns("ici_groups_df") + )%>% + shinycssloaders::withSpinner(), + br(), + DT::DTOutput( + ns("ici_per_ds_df") + ) %>% + shinycssloaders::withSpinner(), + style = "overflow-y: scroll;overflow-x: scroll;", + ), + #test if can be in the same submodule + iatlas.modules::sectionBox( + title = "Group Overlap", + iatlas.modules::messageBox( + width = 24, + p("See a mosaic plot for two sample groups.") + ), + iatlas.modules::optionsBox( + width = 12, + shiny::uiOutput(ns("select_group2")) + ), + iatlas.modules::plotBox( + width = 12, + plotly::plotlyOutput(ns("ici_mosaic"), height = "600px") %>% + shinycssloaders::withSpinner() + ) + ) + ) +} diff --git a/apps/iatlas/app/R/ici_overview_datasets_server.R b/apps/iatlas/app/R/ici_overview_datasets_server.R new file mode 100644 index 0000000000..60d6622e4a --- /dev/null +++ b/apps/iatlas/app/R/ici_overview_datasets_server.R @@ -0,0 +1,74 @@ +ici_overview_datasets_server <- function( + id, + ioresponse_data, + data_group +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + download_text <- shiny::reactive( + switch( + data_group(), + "ici" = c("https://github.com/CRI-iAtlas/iatlas-notebooks/blob/main/ici_query_iatlas_data.ipynb", + "Information about downloading the Immune Checkpoint Inhibition data available in iAtlas is available at this Jupyter notebook."), + "cancer genomics" = c("https://github.com/CRI-iAtlas/iatlas-notebooks/blob/main/querying_TCGA_features_and_expression.ipynb", + "Information about downloading the Cancer Genomics data available in iAtlas is available at this Jupyter notebook."), + "single-cell RNA-Seq"= c("https://github.com/CRI-iAtlas/iatlas-notebooks/blob/main/query_iatlas_single_cell_datasets.ipynb", + "Information about downloading the pseudobulk single-cell RNAseq data available in iAtlas is available at this Jupyter notebook."), + ) + ) + + dataset_info <- shiny::reactive({ + ioresponse_data$dataset_df %>% + dplyr::filter(type == data_group()) + }) + + output$sums <- shiny::renderUI({ + n_samples <- sum(dataset_info()$Samples) + n_patients <- sum(dataset_info()$Patients) + + display_text <- glue::glue( + "CRI iAtlas has {n_samples} samples, from {n_patients} patients in this category of datasets." + ) + + if(data_group() != "single-cell RNA-Seq"){ + tags$div( + display_text, + tags$a(href=download_text()[1], + download_text()[2]) + ) + }else{ + + + tags$div( + display_text, + shiny::p("The MSK and Vanderbilt data sets were generated as part of the NCI Human Tumor Atlas Network, shared via ", + a(href = "https://humantumoratlas.org/", "https://humantumoratlas.org/ .")), + tags$a(href=download_text()[1], + download_text()[2]) + ) + } + + }) + + output$ici_datasets_df <- DT::renderDT({ + DT::datatable((dataset_info() %>% + dplyr::mutate( + Reference = paste( + "", + Citation,"", + sep="" + ) + )%>% + select(Dataset, Study, Antibody, Samples, Patients, `Sequencing.Method`, Reference)), + options = list(pageLength = 20), + escape= FALSE) + }) + + } + ) +} diff --git a/apps/iatlas/app/R/ici_overview_datasets_ui.R b/apps/iatlas/app/R/ici_overview_datasets_ui.R new file mode 100644 index 0000000000..9fa8d81587 --- /dev/null +++ b/apps/iatlas/app/R/ici_overview_datasets_ui.R @@ -0,0 +1,23 @@ +ici_overview_datasets_ui <- function(id){ + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox( + width = 24, + shiny::uiOutput( + ns("sums") + ), + # shiny::includeMarkdown(get_markdown_path( + # "ici_overview_datasets" + # )) + ), + iatlas.modules::plotBox( + width = 12, + DT::DTOutput( + ns("ici_datasets_df") + ), + shiny::br() + # tags$a(href="https://www.synapse.org/#!Synapse:syn24200710", "Download data from Synapse") + ) + ) +} diff --git a/apps/iatlas/app/R/ici_overview_functions.R b/apps/iatlas/app/R/ici_overview_functions.R new file mode 100644 index 0000000000..0b53dbb3a3 --- /dev/null +++ b/apps/iatlas/app/R/ici_overview_functions.R @@ -0,0 +1,53 @@ +get_io_overview_table <- function(values_for_group1){ + values_for_group1 %>% + dplyr::group_by(dataset_display, Order = tag_order, Group = tag_short_display) %>% + dplyr::mutate(dataset_display = sub("\\ -.*", "", dataset_display)) %>% + dplyr::summarise(n = dplyr::n_distinct(sample_name), .groups = "keep") %>% + tidyr::pivot_wider( + names_from = dataset_display, + values_from = n) +} + +get_io_mosaic_df <- function(values_for_group1, group2){ + iatlasGraphQLClient::query_tag_samples(samples = values_for_group1$sample_name, parent_tags = group2) %>% + merge(., values_for_group1, by = "sample_name") %>% + dplyr::mutate(x= paste(sub("\\ -.*", "", dataset_display), tag_short_display.y)) %>% + dplyr::select(x, y = tag_short_display.x, plot_color = tag_color.x) +} + +create_mosaicplot <- function( + df, + title = NULL, + fill_colors = NA, + xlab = NULL, + ylab = NULL) { + + plot <- df %>% + ggplot2::ggplot() + + ggmosaic::geom_mosaic(ggplot2::aes_string(x = stringr::str_c("ggmosaic::product(y, x)") ,fill = "y")) + + #ggmosaic::geom_mosaic(aes_string(x = "ggmosaic::product(y, x)" ,fill = "y")) + + ggmosaic::scale_y_productlist(expand = c(0, 0)) + + ggmosaic::scale_x_productlist(expand = c(0, 0)) + + labs(title) + + xlab(xlab) + + ylab(ylab) + + theme_minimal() + + theme( + legend.title = element_blank(), + axis.text.x = element_text(angle = 90, hjust = 1), + axis.text.y = element_blank(), + axis.ticks.y = element_blank() + ) + if (!is.na(fill_colors[[1]])) { + plot <- plot + scale_fill_manual(values = fill_colors) + } + p <- plotly::plotly_build(plot) %>% + plotly::layout(title = title, + legend = list(traceorder = 'reversed')) %>% + format_plotly() + p["width"] <- list(NULL) + p["height"] <- list(NULL) + p$x$layout["width"] <- list(NULL) + p$x$layout["height"] <- list(NULL) + p +} diff --git a/apps/iatlas/app/R/ici_overview_server.R b/apps/iatlas/app/R/ici_overview_server.R new file mode 100644 index 0000000000..98b7348676 --- /dev/null +++ b/apps/iatlas/app/R/ici_overview_server.R @@ -0,0 +1,25 @@ +ici_overview_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + + ioresponse_data <- load_io_data() + + ici_overview_datasets_server( + "ici_overview_datasets", + ioresponse_data, + shiny::reactive(input$data_group) + ) + + # ici_overview_category_server( + # "ici_overview_category", + # ioresponse_data, + # shiny::reactive(input$data_group) + # ) + + } + ) +} diff --git a/apps/iatlas/app/R/ici_overview_ui.R b/apps/iatlas/app/R/ici_overview_ui.R new file mode 100644 index 0000000000..9e7e6946b1 --- /dev/null +++ b/apps/iatlas/app/R/ici_overview_ui.R @@ -0,0 +1,39 @@ +ici_overview_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "CRI iAtlas Explorer — Datasets of Treatment with Immune Checkpoint Inhibitors" + ), + iatlas.modules::textBox( + width = 12, + p("There are different types of data in CRI iAtlas, select the one you are interested.") + # p("This module describes the datasets that are available in CRI iAtlas for the analysis of molecular response to + # Immune Checkpoint Inhibitor immunotherapy(ICI). Primary data processing and scoring of immune response, including + # immune signatures and cell-content estimates were performed by UNC Lineberger team Dante Bortone, Sarah Entwistle, + # led by Benjamin G. Vincent.") + ), + iatlas.modules::optionsBox( + width = 12, + shiny::radioButtons( + ns("data_group"), + "Select the type of data for more information", + choices = c( + "Immune Checkpoint Inhibitors datasets" = "ici", + "Cancer Genomics datasets" = "cancer genomics", + "Single-cell RNA-Seq datasets" = "single-cell RNA-Seq" + ), + selected = "ici" + ) + ), + iatlas.modules::sectionBox( + title = "Dataset Information", + ici_overview_datasets_ui(ns("ici_overview_datasets")) + # ), + # iatlas.modules::sectionBox( + # title = "Category Key", + # ici_overview_category_ui(ns("ici_overview_category")) + ) + ) +} diff --git a/apps/iatlas/app/R/immune_feature_correlations_server.R b/apps/iatlas/app/R/immune_feature_correlations_server.R new file mode 100644 index 0000000000..d62d0b7c40 --- /dev/null +++ b/apps/iatlas/app/R/immune_feature_correlations_server.R @@ -0,0 +1,100 @@ +immune_feature_correlations_server <- function( + id, + cohort_obj, + mock_event_data = shiny::reactive(NULL) +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + feature_sample_data_function <- shiny::reactive({ + function(.feature_class){ + tbl <- + cohort_obj()$get_feature_values(feature_classes = .feature_class) %>% + dplyr::select( + "sample_name", + "group_name" = "group_short_name", + "feature_name", + "feature_display", + "feature_value", + "feature_order", + "dataset_name" + ) + } + }) + + response_sample_data_function <- shiny::reactive({ + function(.feature){ + tbl <- + cohort_obj()$get_feature_values(features = .feature) %>% + dplyr::select( + "sample_name", + "feature_name", + "feature_value" + ) + } + }) + + feature_data <- shiny::reactive({ + cohort_obj()$feature_tbl %>% + dplyr::select( + "feature_name" = "name", + "feature_display" = "display", + "feature_class" = "class", + "feature_order" = "order" + ) + }) + + response_data <- shiny::reactive({ + cohort_obj()$feature_tbl %>% + dplyr::select( + "feature_name" = "name", + "feature_display" = "display", + "feature_class" = "class" + ) %>% + dplyr::arrange(.data$feature_class) + }) + + group_data <- shiny::reactive({ + cohort_obj()$group_tbl %>% + dplyr::select( + "group_name" = "short_name", + "group_description" = "characteristics", + "group_color" = "color" + ) %>% + dplyr::mutate("group_display" = .data$group_name) + }) + + summarise_function_list = shiny::reactive({ + list( + "Pearson" = purrr::partial(stats::cor, method = "pearson"), + "Spearman" = purrr::partial(stats::cor, method = "spearman"), + "Kendall" = purrr::partial(stats::cor, method = "kendall") + ) + }) + + default_class <- shiny::reactive( + feature_data()$feature_class[[1]] + ) + + result <- iatlas.modules::heatmap_server( + "heatmap", + + feature_sample_data_function = feature_sample_data_function, + response_sample_data_function = response_sample_data_function, + + feature_data = feature_data, + response_data = response_data, + group_data = group_data, + summarise_function_list = summarise_function_list, + drilldown = shiny::reactive(T), + default_class = default_class, + mock_event_data = mock_event_data + ) + + } + ) +} + diff --git a/apps/iatlas/app/R/immune_feature_correlations_ui.R b/apps/iatlas/app/R/immune_feature_correlations_ui.R new file mode 100644 index 0000000000..5a70a47d82 --- /dev/null +++ b/apps/iatlas/app/R/immune_feature_correlations_ui.R @@ -0,0 +1,66 @@ +immune_feature_correlations_ui <- function(id) { + ns <- shiny::NS(id) + iatlas.modules::heatmap_ui( + ns("heatmap") + # html = shiny::includeMarkdown( + # get_markdown_path("immune_features_dist") + # ) + ) + + # shiny::tagList( + # iatlas.modules::messageBox( + # width = 12, + # shiny::includeMarkdown(get_markdown_path( + # "immune_features_correlations" + # )) + # ), + # shiny::fluidRow( + # iatlas.modules::optionsBox( + # width = 12, + # shiny::column( + # width = 6, + # shiny::uiOutput(ns("class_selection_ui")) + # ), + # shiny::column( + # width = 3, + # shiny::uiOutput(ns("response_selection_ui")) + # ), + # shiny::column( + # width = 3, + # shiny::selectInput( + # ns("correlation_method"), + # "Select or Search for Correlation Method", + # choices = c( + # "Pearson" = "pearson", + # "Spearman" = "spearman", + # "Kendall" = "kendall" + # ), + # selected = "spearman" + # ) + # ) + # ) + # ), + # shiny::fluidRow( + # iatlas.modules::plotBox( + # width = 12, + # shiny::fluidRow( + # "heatmap" %>% + # ns() %>% + # plotly::plotlyOutput(.) %>% + # shinycssloaders::withSpinner(.), + # iatlas.modules::plotly_ui(ns("heatmap")) + # ) + # ) + # ), + # shiny::fluidRow( + # iatlas.modules::plotBox( + # width = 12, + # "scatterPlot" %>% + # ns() %>% + # plotly::plotlyOutput(.) %>% + # shinycssloaders::withSpinner(.), + # iatlas.modules::plotly_ui(ns("scatterplot")) + # ) + # ) + # ) +} diff --git a/apps/iatlas/app/R/immune_feature_distributions_server.R b/apps/iatlas/app/R/immune_feature_distributions_server.R new file mode 100644 index 0000000000..ba853b54f7 --- /dev/null +++ b/apps/iatlas/app/R/immune_feature_distributions_server.R @@ -0,0 +1,58 @@ +immune_feature_distributions_server <- function( + id, + cohort_obj, + mock_event_data = shiny::reactive(NULL) +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + sample_data_function <- shiny::reactive({ + function(.feature){ + cohort_obj()$get_feature_values(features = .feature) %>% + dplyr::select( + "sample_name", + "group_name" = "group_short_name", + "feature_name", + "feature_display", + "feature_value", + "feature_order" + ) %>% + dplyr::mutate("dataset_name" = cohort_obj()$dataset_names) + } + }) + + feature_data <- shiny::reactive({ + cohort_obj()$feature_tbl %>% + dplyr::select( + "feature_class" = "class", + "feature_name" = "name", + "feature_display" = "display" + ) + }) + + group_data <- shiny::reactive({ + cohort_obj()$group_tbl %>% + dplyr::select( + "group_name" = "short_name", + "group_description" = "characteristics", + "group_color" = "color" + ) %>% + dplyr::mutate("group_display" = .data$group_name) + }) + + result <- iatlas.modules::distributions_plot_server( + "distplot", + sample_data_function, + feature_data = feature_data, + group_data = group_data, + distplot_xlab = shiny::reactive(cohort_obj()$group_display), + drilldown = shiny::reactive(T), + mock_event_data = mock_event_data + ) + + } + ) +} diff --git a/apps/iatlas/app/R/immune_feature_distributions_ui.R b/apps/iatlas/app/R/immune_feature_distributions_ui.R new file mode 100644 index 0000000000..6a4750c537 --- /dev/null +++ b/apps/iatlas/app/R/immune_feature_distributions_ui.R @@ -0,0 +1,9 @@ +immune_feature_distributions_ui <- function(id) { + ns <- shiny::NS(id) + iatlas.modules::distributions_plot_ui( + ns("distplot"), + html = shiny::includeMarkdown( + get_markdown_path("immune_features_dist") + ) + ) +} diff --git a/apps/iatlas/app/R/immune_features_server.R b/apps/iatlas/app/R/immune_features_server.R new file mode 100644 index 0000000000..9f87345756 --- /dev/null +++ b/apps/iatlas/app/R/immune_features_server.R @@ -0,0 +1,24 @@ +immune_features_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + + call_module_server( + "immune_feature_distributions", + cohort_obj, + server_function = immune_feature_distributions_server, + ui_function = immune_feature_distributions_ui + ) + + call_module_server( + "immune_feature_correlations", + cohort_obj, + server_function = immune_feature_correlations_server, + ui_function = immune_feature_correlations_ui + ) + } + ) +} diff --git a/apps/iatlas/app/R/immune_features_ui.R b/apps/iatlas/app/R/immune_features_ui.R new file mode 100644 index 0000000000..a83c20794d --- /dev/null +++ b/apps/iatlas/app/R/immune_features_ui.R @@ -0,0 +1,26 @@ +immune_features_ui <- function(id) { + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox("CRI iAtlas Explorer — Immune Feature Trends"), + iatlas.modules::textBox( + width = 12, + shiny::p(paste0( + "This module allows you to see how immune readouts vary ", + "across your groups, and how they relate to one another." + )), + shiny::p("Check out our ", + a(href="https://github.com/CRI-iAtlas/iatlas-notebooks/blob/main/immune_feature_trends.ipynb", "Jupyter notebook"), + "reproducing the code run in this module.") + ), + iatlas.modules::sectionBox( + title = "Distributions", + module_ui(ns("immune_feature_distributions")) + ), + iatlas.modules::sectionBox( + title = "Correlations", + module_ui(ns("immune_feature_correlations")) + ) + ) +} diff --git a/apps/iatlas/app/R/immune_subtype_classifier_functions.R b/apps/iatlas/app/R/immune_subtype_classifier_functions.R new file mode 100644 index 0000000000..8766cb098d --- /dev/null +++ b/apps/iatlas/app/R/immune_subtype_classifier_functions.R @@ -0,0 +1,44 @@ + +# David L Gibbs +# dgibbs@systemsbiology.org + +# this script will form the backend of the shiny app. + +library(ImmuneSubtypeClassifier) + +readNewDataTable <- function(fileinfo, sepflag) { + + if(is.null(fileinfo)) { + fileinfo <- list(name='ebpp_test1_1to20.tsv', size=1, type='text/csv', datapath='inst/tsv/ebpp_test1_1to20.tsv') + } + + newdata <- read.table(file=fileinfo$datapath, sep=sepflag, header=T, stringsAsFactors = F) + + newX <- as.matrix(newdata[,-1]) + rownames(newX) <- as.character(newdata[,1]) + + newX +} + +# this function computes scores given some expression data. +classifySubtype <- function(newdata) { + + # make cluster calls using the models. + calls <- ImmuneSubtypeClassifier::callEnsemble(X = newdata, geneids = 'symbol') + + print(utils::head(calls)) + + calls[,3] <- round(calls[,3], digits = 3) + calls[,4] <- round(calls[,4], digits = 3) + calls[,5] <- round(calls[,5], digits = 3) + calls[,6] <- round(calls[,6], digits = 3) + calls[,7] <- round(calls[,7], digits = 3) + calls[,8] <- round(calls[,8], digits = 3) + + print("Done") + + return(list(Calls = calls)) + +} + + diff --git a/apps/iatlas/app/R/immune_subtype_classifier_server.R b/apps/iatlas/app/R/immune_subtype_classifier_server.R new file mode 100644 index 0000000000..b817242678 --- /dev/null +++ b/apps/iatlas/app/R/immune_subtype_classifier_server.R @@ -0,0 +1,106 @@ +immune_subtype_classifier_server <- function( + id, + group_display_choice, + group_internal_choice, + subset_df, + plot_colors +){ + shiny::moduleServer( + id, + function(input, output, session) { + + newData <- eventReactive(input$subtypeGObutton, { + readNewDataTable(input$expr_file_pred, input$sepa) + }) + + ebpp_genes <- reactive({ + data(ebpp_gene) + ebpp_genes_sig + }) + + output$genelist <- downloadHandler( + filename = "subtypeclassifier_genes.tsv", + content = function(con){ + write.csv(ebpp_genes(), con) + } + ) + + geneMatchErrorReport <- function(X, geneid='symbol') { + data(ebpp_gene) + + if (geneid == 'symbol') { + idx <- match(table = rownames(X), x = ebpp_genes_sig$Symbol) ### this is just for the EBPP genes ### + + } else { + print("For geneids, please use gene symbols.") + return(NA) + } + + # idx will be 485 elements long... non matched ebpp_sig_genes + # will show as NAs in the list. + # SO... we calculate sum of NAs over size of ebpp_genes_sig + + matchError <- sum(is.na(idx)) / nrow(ebpp_genes_sig) + + # NAs in idx will enter NA rows in X2 + + g <- ebpp_genes_sig[is.na(idx),] ### Adds NA rows in missing genes + + return(list(matchError=matchError, missingGenes=g, numGenesInClassifier=nrow(ebpp_genes_sig))) + } + + + # get new calls + getCalls <- reactive({ + shiny::validate( + shiny::need(ncol(newData())>1, + "Only one column available in the uploaded file. Please check if the selected file separator is the correct one.")) + + output$geneMatchCnt <- renderText({ + matchInfo <- geneMatchErrorReport(X=newData()) + + n <- (round(matchInfo$matchError, digits = 3))*100 + m <- matchInfo$numGenesInClassifier + + paste0(' Match error: ', n, '% from a total of ', m, ' genes required by the classifier. Missing genes shown below. ') + }) + + classifySubtype(newData()) + }) + + + output$barPlot <- renderPlot({ + counts <- table(getCalls()$Calls$BestCall) + barplot(counts, main="New Cluster Label Calls", + xlab="Cluster Labels") + }) + + + # Filter data based on selections + output$subtypetable <- DT::renderDataTable( + DT::datatable(as.data.frame(getCalls()$Calls)) + ) + + missing_genes <- reactive({ + as.data.frame(geneMatchErrorReport(X=newData())$missingGenes) + }) + # Missing Genes Table + output$missinggenetable <- DT::renderDataTable( + DT::datatable(missing_genes() + #as.data.frame(geneMatchErrorReport(X=newData())$missingGenes) + ) + ) + + output$download_calls <- downloadHandler( + filename = function() stringr::str_c("immune-calls-", Sys.Date(), ".csv"), + content = function(con) readr::write_csv(getCalls()$Calls, con) + ) + + output$download_missing <- downloadHandler( + filename = function() stringr::str_c("missing-genes-", Sys.Date(), ".csv"), + content = function(con) readr::write_csv(missing_genes(), con) + ) + + } + ) +} diff --git a/apps/iatlas/app/R/immune_subtype_classifier_ui.R b/apps/iatlas/app/R/immune_subtype_classifier_ui.R new file mode 100644 index 0000000000..c9bf22db27 --- /dev/null +++ b/apps/iatlas/app/R/immune_subtype_classifier_ui.R @@ -0,0 +1,152 @@ +immune_subtype_classifier_ui <- function(id) { + + ns <- shiny::NS(id) + + shiny::tagList( + + iatlas.modules::titleBox("CRI iAtlas Tools — Immune Subtype Classifier"), + + iatlas.modules::textBox( + width = 12, + shiny::p("Upload gene expression* and classify immune subtypes."), + shiny::p("Check out our ", + a(href="https://docs.google.com/presentation/d/1QB0fisbZGZ2u6LNpuC8NcyLCNc1o_llaXRIy8XW3vp8/edit?usp=sharing", "tutorial"), + "about this tool.") + ), + + # Immunomodulator distributions section ---- + iatlas.modules::sectionBox( + title = "Immune Subtype Classification", + + iatlas.modules::messageBox( + width = 12, + + shiny::p("Upload gene expression (csv or tsv). **BETA** any gene quantification pipeline should be OK."), + + shiny::p(""), + shiny::p(""), + shiny::p("Notes on input data:"), + shiny::tags$ul( + shiny::tags$li("First row should be a header, with a 'GeneSymbol' column label, followed by sample IDs."), + shiny::tags$li("First column should contain gene symbols, after that, samples."), + shiny::tags$li("For an example of outputs, leave the input file blank, set ensemble size to a small number (32) and click GO.") + ), + shiny::p(""), + shiny::tags$a(href="https://github.com/CRI-iAtlas/iatlas-app/blob/staging/inst/tsv/ebpp_test1_1to20.tsv", "Get an example input file here."), + shiny::p(""), + shiny::tags$hr(), + shiny::p(shiny::tags$b("Data Formatting Example:")), + shiny::p(""), + shiny::p("GeneSymbol, Sample1, Sample2,..."), + shiny::p("RKK1, 14.5, 100.1,..."), + shiny::p("CMQ4, 1.10, 80.711,..."), + shiny::p("...., ...., and etc..."), + shiny::p(""), + shiny::p(""), + shiny::tags$hr(), + + shiny::p("Tool settings:"), + shiny::tags$ul( + shiny::tags$li(shiny::em('File separator'), ", select commas or tabs.") + ), + + shiny::p(""), + shiny::p("Notes on the classification"), + shiny::tags$ul( + shiny::tags$li("An ensemble of XGBoost classifiers was used."), + shiny::tags$li("Robust features are computed that are not dependent on expression value.") + ), + shiny::p(""), + shiny::p("Outputs:"), + shiny::tags$ul( + shiny::tags$li("Table shows TCGA reported subtypes with new aligned subtype calls."), + shiny::tags$li("Barplot shows subtypes given to the new data."), + shiny::tags$li("Table gives aligned subtypes, signature scores, and cluster probabilities.") + ), + shiny::p(""), + shiny::p("Manuscript context: See figure 1A.") + ), + shiny::fluidRow( + iatlas.modules::optionsBox( + width = 12, + shiny::column( + width = 2, + shiny:: radioButtons(ns("sepa"), "File Separator", + choices = c(Tab = "\t", Comma = ","), selected = "\t") + ), + + shiny::column( + width = 4, + shiny::fileInput(ns("expr_file_pred"), "Choose file. Leave blank for example run.", + multiple = FALSE, + accept = c("text/csv", + "text/comma-separated-values,text/plain", + ".csv", + ".csv.gz", + "text/tsv", + "text/comma-separated-values,text/plain", + ".tsv", + ".tsv.gz"), + placeholder = 'data/ebpp_test1_1to20.tsv') + ), + + shiny::column( + width = 3, + shiny::actionButton(ns("subtypeGObutton"), "GO") + ), + shiny::column( + width = 3, + shiny::downloadLink(ns("genelist"), "Download list of genes required by the classifier.") + ) + ) + ), + shiny::fluidRow( + iatlas.modules::plotBox( + width=12, + htmlOutput(ns('geneMatchCnt')) + ) + ), + shiny::fluidRow( + iatlas.modules::plotBox( + width = 12, + shiny::plotOutput(ns('barPlot')) %>% + shinycssloaders::withSpinner() + ) + ) + ), + + # Main results + iatlas.modules::sectionBox( + title = "Subtype Classification Table", + iatlas.modules::messageBox( + width = 12, + p("The table shows the results of subtype classification. Use the Search box in the upper right to find a sample of interest.") + ), + shiny::fluidRow( + iatlas.modules::tableBox( + width = 12, + DT::dataTableOutput(ns("subtypetable")) %>% + shinycssloaders::withSpinner(), + shiny::downloadButton(ns('download_calls'), 'Download') + ) + ) + ), + + # Any missing genes table + iatlas.modules::sectionBox( + title = "Missing genes from upload", + iatlas.modules::messageBox( + width = 12, + p("The table shows any missing genes.") + ), + shiny::fluidRow( + iatlas.modules::tableBox( + width = 12, + DT::dataTableOutput(ns("missinggenetable")) %>% + shinycssloaders::withSpinner(), + shiny::downloadButton(ns('download_missing'), 'Download') + ) + ) + ) + ) # taglist +} diff --git a/apps/iatlas/app/R/immunomodulator_datatable_server.R b/apps/iatlas/app/R/immunomodulator_datatable_server.R new file mode 100644 index 0000000000..00ec8e83ba --- /dev/null +++ b/apps/iatlas/app/R/immunomodulator_datatable_server.R @@ -0,0 +1,15 @@ +immunomodulator_datatable_server <- function( + id, + cohort_obj +) { + shiny::moduleServer( + id, + function(input, output, session) { + + data_table_server( + "im_table", + shiny::reactive(build_im_dt_tbl()) + ) + } + ) +} diff --git a/apps/iatlas/app/R/immunomodulator_datatable_ui.R b/apps/iatlas/app/R/immunomodulator_datatable_ui.R new file mode 100644 index 0000000000..a0bd043aca --- /dev/null +++ b/apps/iatlas/app/R/immunomodulator_datatable_ui.R @@ -0,0 +1,11 @@ +immunomodulators_datatable_ui <- function(id) { + + ns <- shiny::NS(id) + + data_table_ui( + ns("im_table"), + message_html = shiny::includeMarkdown( + "inst/markdown/immunomodulators_dt.markdown" + ) + ) +} diff --git a/apps/iatlas/app/R/immunomodulator_distributions_server.R b/apps/iatlas/app/R/immunomodulator_distributions_server.R new file mode 100644 index 0000000000..b41736b382 --- /dev/null +++ b/apps/iatlas/app/R/immunomodulator_distributions_server.R @@ -0,0 +1,64 @@ +immunomodulator_distributions_server <- function( + id, + cohort_obj, + mock_event_data = shiny::reactive(NULL) +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + sample_data_function <- shiny::reactive({ + function(.feature){ + cohort_obj()$get_gene_values(entrez = as.integer(.feature)) %>% + dplyr::select( + "sample_name", + "group_name" = "group_short_name", + "feature_name" = "entrez", + "feature_display" = "hgnc", + "feature_value" = "rna_seq_expr" + ) %>% + dplyr::mutate( + "dataset_name" = cohort_obj()$dataset_names, + "feature_name" = as.character(.data$feature_name) + ) + } + }) + + feature_data <- shiny::reactive({ + iatlasGraphQLClient::query_immunomodulators() %>% + dplyr::select( + "feature_name" = "entrez", + "feature_display" = "hgnc", + "Gene Family" = "gene_family", + "Gene Function" = "gene_function", + "Immune Checkpoint" = "immune_checkpoint", + "Super Category" = "super_category" + ) %>% + dplyr::mutate("feature_name" = as.character(.data$feature_name)) + }) + + group_data <- shiny::reactive({ + cohort_obj()$group_tbl %>% + dplyr::select( + "group_name" = "short_name", + "group_description" = "characteristics", + "group_color" = "color" + ) %>% + dplyr::mutate("group_display" = .data$group_name) + }) + + result <- iatlas.modules::distributions_plot_server( + "distplot", + sample_data_function = sample_data_function, + feature_data = feature_data, + group_data = group_data, + distplot_xlab = shiny::reactive(cohort_obj()$group_display), + scale_method_default = shiny::reactive("Log10"), + drilldown = shiny::reactive(T), + mock_event_data = mock_event_data + ) + } + ) +} diff --git a/apps/iatlas/app/R/immunomodulator_distributions_ui.R b/apps/iatlas/app/R/immunomodulator_distributions_ui.R new file mode 100644 index 0000000000..1d2145509c --- /dev/null +++ b/apps/iatlas/app/R/immunomodulator_distributions_ui.R @@ -0,0 +1,9 @@ +immunomodulators_distributions_ui <- function(id) { + ns <- shiny::NS(id) + iatlas.modules::distributions_plot_ui( + ns("distplot"), + html = shiny::includeMarkdown( + get_markdown_path("immunomodulators_distributions") + ) + ) +} diff --git a/apps/iatlas/app/R/immunomodulators_functions.R b/apps/iatlas/app/R/immunomodulators_functions.R new file mode 100644 index 0000000000..bd2e62401d --- /dev/null +++ b/apps/iatlas/app/R/immunomodulators_functions.R @@ -0,0 +1,44 @@ + +build_im_dt_tbl <- function(){ + ims <- + iatlasGraphQLClient::query_immunomodulators() %>% + dplyr::select( + "hgnc", + "entrez", + "friendly_name", + "gene_family", + "super_category", + "immune_checkpoint", + "gene_function", + "publications" + ) %>% + dplyr::arrange(.data$hgnc) + + references <- ims %>% + dplyr::select("entrez", "publications") %>% + tidyr::unnest(cols = "publications") %>% + dplyr::mutate("references" = stringr::str_c( + "https://www.ncbi.nlm.nih.gov/pubmed/", + .data$pubmedId, + sep = "/" + )) %>% + dplyr::select(-"pubmedId") %>% + dplyr::group_by(.data$entrez) %>% + dplyr::summarise( + "references" = stringr::str_c(.data$references, collapse = " | "), + .groups = "drop" + ) + + ims %>% + dplyr::left_join(references, by = "entrez") %>% + dplyr::select( + Hugo = .data$hgnc, + `Entrez ID` = .data$entrez, + `Friendly Name` = .data$friendly_name, + `Gene Family` = .data$gene_family, + `Super Category` = .data$super_category, + `Immune Checkpoint` = .data$immune_checkpoint, + Function = .data$gene_function, + `Reference(s) [PMID]` = .data$references + ) +} diff --git a/apps/iatlas/app/R/immunomodulators_server.R b/apps/iatlas/app/R/immunomodulators_server.R new file mode 100644 index 0000000000..d51e045250 --- /dev/null +++ b/apps/iatlas/app/R/immunomodulators_server.R @@ -0,0 +1,24 @@ +immunomodulators_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + + call_module_server( + "distributions", + cohort_obj, + server_function = immunomodulator_distributions_server, + ui_function = immunomodulators_distributions_ui + ) + + call_module_server( + "datatable", + cohort_obj, + server_function = immunomodulator_datatable_server, + ui_function = immunomodulators_datatable_ui + ) + } + ) +} diff --git a/apps/iatlas/app/R/immunomodulators_ui.R b/apps/iatlas/app/R/immunomodulators_ui.R new file mode 100644 index 0000000000..e29211bb2d --- /dev/null +++ b/apps/iatlas/app/R/immunomodulators_ui.R @@ -0,0 +1,24 @@ +immunomodulators_ui <- function(id) { + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox("CRI iAtlas Explorer — Immunomodulators"), + iatlas.modules::textBox( + width = 12, + shiny::p(paste0( + "Explore the expression of genes that code for ", + "immunomodulating proteins, including checkpoint proteins." + )), + ), + iatlas.modules::sectionBox( + title = "Immunomodulator Distributions", + module_ui(ns("distributions")) + ), + iatlas.modules::sectionBox( + title = "Immunomodulator Annotations", + module_ui(ns("datatable") + ) + ) + ) +} diff --git a/apps/iatlas/app/R/io_target_datatable_server.R b/apps/iatlas/app/R/io_target_datatable_server.R new file mode 100644 index 0000000000..bd69a40a92 --- /dev/null +++ b/apps/iatlas/app/R/io_target_datatable_server.R @@ -0,0 +1,20 @@ +io_target_datatable_server <- function( + id, + cohort_obj +) { + shiny::moduleServer( + id, + function(input, output, session) { + + data_table_server( + "datatable", + shiny::reactive( + build_io_target_dt_tbl( + iatlasGraphQLClient::query_io_targets() + ) + ), + escape = F + ) + } + ) +} diff --git a/apps/iatlas/app/R/io_target_datatable_ui.R b/apps/iatlas/app/R/io_target_datatable_ui.R new file mode 100644 index 0000000000..df436c7c14 --- /dev/null +++ b/apps/iatlas/app/R/io_target_datatable_ui.R @@ -0,0 +1,11 @@ +io_target_datatable_ui <- function(id) { + + ns <- shiny::NS(id) + + data_table_ui( + ns("datatable"), + message_html = shiny::includeMarkdown( + "inst/markdown/io_target_dt.markdown" + ) + ) +} diff --git a/apps/iatlas/app/R/io_target_distributions_server.R b/apps/iatlas/app/R/io_target_distributions_server.R new file mode 100644 index 0000000000..0bb9399585 --- /dev/null +++ b/apps/iatlas/app/R/io_target_distributions_server.R @@ -0,0 +1,75 @@ +io_target_distributions_server <- function( + id, + cohort_obj, + mock_event_data = shiny::reactive(NULL) +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + url_gene <- shiny::reactive({ + query <- shiny::parseQueryString(session$clientData$url_search) + get_gene_from_url(query) + }) + + default_gene <- shiny::reactive({ + if(is.na(url_gene())) return(NULL) + else return(url_gene()) + }) + + sample_data_function <- shiny::reactive({ + function(.feature){ + + cohort_obj()$get_gene_values(entrez = as.integer(.feature)) %>% + dplyr::select( + "sample_name", + "group_name" = "group_short_name", + "feature_name" = "entrez", + "feature_display" = "hgnc", + "feature_value" = "rna_seq_expr" + ) %>% + dplyr::mutate( + "dataset_name" = cohort_obj()$dataset_names, + "feature_name" = as.character(.data$feature_name) + ) + } + }) + + feature_data <- shiny::reactive({ + iatlasGraphQLClient::query_io_targets() %>% + dplyr::select( + "feature_name" = "entrez", + "feature_display" = "hgnc", + "Pathway" = "pathway", + "Therapy Type" = "therapy_type" + ) %>% + dplyr::mutate("feature_name" = as.character(.data$feature_name)) + }) + + group_data <- shiny::reactive({ + cohort_obj()$group_tbl %>% + dplyr::select( + "group_name" = "short_name", + "group_description" = "characteristics", + "group_color" = "color" + ) %>% + dplyr::mutate("group_display" = .data$group_name) + }) + + result <- iatlas.modules::distributions_plot_server( + "distplot", + sample_data_function, + feature_data = feature_data, + group_data = group_data, + feature_default = default_gene, + distplot_xlab = shiny::reactive(cohort_obj()$group_display), + scale_method_default = shiny::reactive("Log10"), + drilldown = shiny::reactive(T), + mock_event_data = mock_event_data + ) + + } + ) +} diff --git a/apps/iatlas/app/R/io_target_distributions_ui.R b/apps/iatlas/app/R/io_target_distributions_ui.R new file mode 100644 index 0000000000..bba50800d8 --- /dev/null +++ b/apps/iatlas/app/R/io_target_distributions_ui.R @@ -0,0 +1,9 @@ +io_target_distributions_ui <- function(id) { + ns <- shiny::NS(id) + iatlas.modules::distributions_plot_ui( + ns("distplot"), + html = shiny::includeMarkdown( + get_markdown_path("io_target_dist") + ) + ) +} diff --git a/apps/iatlas/app/R/io_target_functions.R b/apps/iatlas/app/R/io_target_functions.R new file mode 100644 index 0000000000..37dd4b5bb2 --- /dev/null +++ b/apps/iatlas/app/R/io_target_functions.R @@ -0,0 +1,33 @@ + +get_gene_from_url <- function(url_query){ + gene <- url_query[['gene']] + if (!is.null(gene)) return(gene) + return(NA) +} + +build_io_target_dt_tbl <- function(tbl){ + tbl %>% + dplyr::select( + Hugo = .data$hgnc, + `Entrez ID` = .data$entrez, + `Friendly Name` = .data$io_landscape_name, + Pathway = .data$pathway, + `Therapy Type` = .data$therapy_type, + Description = .data$description, + ) %>% + dplyr::mutate(`Link to IO Landscape` = create_io_landscape_links( + .data$`Friendly Name` + )) +} + +create_io_landscape_links <- function(io_gene_names){ + stringr::str_c( + "", + io_gene_names, + "" + ) +} diff --git a/apps/iatlas/app/R/io_targets_server.R b/apps/iatlas/app/R/io_targets_server.R new file mode 100644 index 0000000000..42dcbe4bbb --- /dev/null +++ b/apps/iatlas/app/R/io_targets_server.R @@ -0,0 +1,24 @@ +io_targets_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + + call_module_server( + "distributions", + cohort_obj, + server_function = io_target_distributions_server, + ui_function = io_target_distributions_ui + ) + + call_module_server( + "datatable", + cohort_obj, + server_function = io_target_datatable_server, + ui_function = io_target_datatable_ui + ) + } + ) +} diff --git a/apps/iatlas/app/R/io_targets_ui.R b/apps/iatlas/app/R/io_targets_ui.R new file mode 100644 index 0000000000..5021d918d8 --- /dev/null +++ b/apps/iatlas/app/R/io_targets_ui.R @@ -0,0 +1,20 @@ +io_targets_ui <- function(id) { + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox("CRI iAtlas Explorer — IO Targets"), + iatlas.modules::textBox( + width = 12, + shiny::includeMarkdown(get_markdown_path("io_target")) + ), + iatlas.modules::sectionBox( + title = "IO Target Gene Expression Distributions", + module_ui(ns("distributions")) + ), + iatlas.modules::sectionBox( + title = "IO Target Annotations", + module_ui(ns("datatable")) + ) + ) +} diff --git a/apps/iatlas/app/R/kmplot.R b/apps/iatlas/app/R/kmplot.R new file mode 100644 index 0000000000..ff74553978 --- /dev/null +++ b/apps/iatlas/app/R/kmplot.R @@ -0,0 +1,28 @@ +create_kmplot <- function(fit, df, confint, risktable, title, group_colors, show_pval = FALSE, show_pval_method = FALSE, facet = FALSE) { + + if(facet ==FALSE){ + survminer::ggsurvplot( + fit, + data = df, + conf.int = confint, + risk.table = risktable, + title = title, + palette = group_colors, + pval = show_pval, + pval.method = show_pval_method, + ) + }else{ + survminer::ggsurvplot_list( + fit, + data = df, + pval = show_pval, + pval.method = show_pval_method, + conf.int = confint, + risk.table = risktable, + title = title, + palette = group_colors + ) + } + +} + diff --git a/apps/iatlas/app/R/model_selection_functions.R b/apps/iatlas/app/R/model_selection_functions.R new file mode 100644 index 0000000000..42637a6be6 --- /dev/null +++ b/apps/iatlas/app/R/model_selection_functions.R @@ -0,0 +1,34 @@ + +get_items_from_numeric_covariate_output <- function(output, name){ + output %>% + purrr::discard(purrr::map_lgl(., is.null)) %>% + purrr::map(purrr::pluck, name) %>% + unlist() %>% + unname() +} + +get_names_from_categorical_covariate_output <- function(output){ + output %>% + purrr::discard(purrr::map_lgl(., is.null)) %>% + unlist() %>% + unname() +} + +create_numerical_covariate_string <- function( + covs, + transforms, + transform_func +){ + if (any(is.null(covs), is.null(transforms))) return(NULL) + covs %>% + purrr::map2_chr(transforms, transform_func) %>% + stringr::str_c(collapse = " + ") +} + +create_covariate_string <- function(prefix_str, num_str, cat_str){ + list(prefix_str, num_str, cat_str) %>% + purrr::discard(., purrr::map_lgl(., is.null)) %>% + paste0(collapse = " + ") +} + + diff --git a/apps/iatlas/app/R/model_selection_server.R b/apps/iatlas/app/R/model_selection_server.R new file mode 100644 index 0000000000..80d6823ffc --- /dev/null +++ b/apps/iatlas/app/R/model_selection_server.R @@ -0,0 +1,162 @@ +model_selection_server <- function( + id, + numerical_covariate_tbl, + categorical_covariate_tbl, + model_string_prefix, + model_formula_prefix = shiny::reactive("response ~ status") +) { + shiny::moduleServer( + id, + function(input, output, session) { + + # numeric covariate ui -------------------------------------------------- + + numerical_covariate_list <- shiny::reactive({ + iatlas.modules::create_nested_named_list( + numerical_covariate_tbl(), + names_col1 = "class", + names_col2 = "display", + values_col = "feature" + ) + }) + + numeric_covariate_module <- shiny::reactive({ + purrr::partial( + iatlas.modules2::numeric_model_covariate_element_server, + covariate_list = numerical_covariate_list + ) + }) + + numeric_covariate_module_ui <- shiny::reactive( + iatlas.modules2::numeric_model_covariate_element_ui + ) + + numeric_covariate_output <- iatlas.modules2::insert_remove_element_server( + "select_numeric_covariate", + element_module = numeric_covariate_module, + element_module_ui = numeric_covariate_module_ui + ) + + numerical_covariates <- shiny::reactive({ + numeric_covariate_output() %>% + shiny::reactiveValuesToList(.) %>% + get_items_from_numeric_covariate_output( + ., + "covariate_choice_name" + ) + }) + + numerical_transformations <- shiny::reactive({ + numeric_covariate_output() %>% + shiny::reactiveValuesToList(.) %>% + get_items_from_numeric_covariate_output( + ., + "transformation_choice" + ) + }) + + numerical_display_string <- shiny::reactive({ + if(is.null(numerical_covariates())) return(NULL) + if(is.null(numerical_transformations())) return(NULL) + covs <- numerical_covariate_tbl() %>% + dplyr::filter(.data$feature %in% numerical_covariates()) %>% + dplyr::pull("display") %>% + stringr::str_c(collapse = " + ") + + create_numerical_covariate_string( + covs, + numerical_transformations(), + iatlas.modules::transform_feature_string + ) + }) + + numerical_formula_string <- shiny::reactive({ + if(is.null(numerical_covariates())) return(NULL) + if(is.null(numerical_transformations())) return(NULL) + + create_numerical_covariate_string( + numerical_covariates(), + numerical_transformations(), + iatlas.modules::transform_feature_formula + ) + }) + + # categorical covariate ui ---------------------------------------------- + + categorical_covariate_list <- shiny::reactive({ + iatlas.modules::create_nested_named_list( + categorical_covariate_tbl(), + names_col1 = "class", + names_col2 = "display", + values_col = "feature" + ) + }) + + categorical_covariate_module <- shiny::reactive({ + purrr::partial( + iatlas.modules2::categorical_model_covariate_element_server, + covariate_list = categorical_covariate_list + ) + }) + + categorical_covariate_module_ui <- shiny::reactive( + iatlas.modules2::categorical_model_covariate_element_ui + ) + + categorical_covariate_output <- iatlas.modules2::insert_remove_element_server( + "select_categorical_covariate", + element_module = categorical_covariate_module, + element_module_ui = categorical_covariate_module_ui + ) + + categorical_covariates <- shiny::reactive({ + categorical_covariate_output() %>% + shiny::reactiveValuesToList(.) %>% + get_names_from_categorical_covariate_output() + }) + + categorical_display_string <- shiny::reactive({ + if(is.null(categorical_covariates())) return(NULL) + categorical_covariate_tbl() %>% + dplyr::filter(.data$feature %in% categorical_covariates()) %>% + dplyr::pull("display") %>% + stringr::str_c(collapse = " + ") + }) + + categorical_formula_string <- shiny::reactive({ + if(is.null(categorical_covariates())) return(NULL) + stringr::str_c(categorical_covariates(), collapse = " + ") + }) + + # combine covariataes into output --------------------------------------- + + display_string <- shiny::reactive({ + req(model_string_prefix()) + create_covariate_string( + model_string_prefix(), + numerical_display_string(), + categorical_display_string() + ) + }) + + formula_string <- shiny::reactive({ + req(model_formula_prefix) + create_covariate_string( + model_formula_prefix(), + numerical_formula_string(), + categorical_formula_string() + ) + }) + + shiny::reactive({ + list( + "categorical_covariates" = categorical_covariates(), + "numerical_covariates" = numerical_covariates(), + "numerical_transformations" = numerical_transformations(), + "display_string" = display_string(), + "formula_string" = formula_string() + ) + }) + } + ) +} diff --git a/apps/iatlas/app/R/model_selection_ui.R b/apps/iatlas/app/R/model_selection_ui.R new file mode 100644 index 0000000000..9af927f1bb --- /dev/null +++ b/apps/iatlas/app/R/model_selection_ui.R @@ -0,0 +1,24 @@ +model_selection_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::fluidRow( + iatlas.modules::optionsBox( + width = 12, + shiny::column( + width = 12, + iatlas.modules2::insert_remove_element_ui( + ns("select_numeric_covariate"), + "Add numerical covariate" + ) + ), + shiny::column( + width = 12, + iatlas.modules2::insert_remove_element_ui( + ns("select_categorical_covariate"), + "Add categorical covariate" + ) + ) + ) + ) +} diff --git a/apps/iatlas/app/R/module_ui.R b/apps/iatlas/app/R/module_ui.R new file mode 100644 index 0000000000..ab795540ad --- /dev/null +++ b/apps/iatlas/app/R/module_ui.R @@ -0,0 +1,4 @@ +module_ui <- function(id) { + ns <- shiny::NS(id) + shiny::uiOutput(ns("ui")) +} diff --git a/apps/iatlas/app/R/sc_bubbleplot_server.R b/apps/iatlas/app/R/sc_bubbleplot_server.R new file mode 100644 index 0000000000..7e6c1aad2c --- /dev/null +++ b/apps/iatlas/app/R/sc_bubbleplot_server.R @@ -0,0 +1,65 @@ +sc_bubbleplot_server <- function( + id, + cohort_obj +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + bubble_df <- shiny::reactive(arrow::read_feather("inst/feather/bubble_plot_df.feather")) + + shiny::observe({ + # shiny::req(bubble_df()) + shiny::updateSelectizeInput( + session, + "genes", + choices = unique(bubble_df()$gene), + selected = c("CTLA4", "PDCD1", "LAG3"), + server = TRUE + ) + }) + + plot_df <- shiny::reactive({ + shiny::req(bubble_df(), input$genes) + plot_df <- dplyr::filter(bubble_df(), gene %in% input$genes) %>% + dplyr::mutate(show_text = paste( + paste0("% cells with expression for gene: ", round(perc_expr, 3)*100, "%"), + paste("Average value:", round(avg, 3)), sep = "\n" + )) + }) + + bubble_plot_ggplot <- function(df){ + + df %>% + ggplot2::ggplot(aes(x=cell_type, y=gene, text = show_text, size=perc_expr, color=avg, fill = avg)) + + ggplot2::geom_point(aes(color=avg), pch = 21) + + ggplot2::scale_color_viridis_c(option = "viridis") + + ggplot2::scale_fill_viridis_c(option = "viridis") + + ggplot2::theme_minimal() + + ggplot2::ylab("Gene Symbol") + + ggplot2::xlab("Cell type") + + ggplot2::theme(strip.text = ggplot2::element_text(size = 12), + axis.text.x = ggplot2::element_text(size = 10, angle = 315, hjust = 1, vjust = 0.5), + title = ggplot2::element_text(size = 12), + panel.spacing.y = unit(3, "lines"))+ + ggplot2::facet_wrap(~dataset, ncol = 1) + } + + + output$bubble_plot <- plotly::renderPlotly({ + shiny::req(plot_df()) + datasets <- unique(plot_df()$dataset) + + plotly::ggplotly(bubble_plot_ggplot(plot_df()), tooltip = "show_text", source = "bubbleplot")%>% + plotly::layout( + font = list( + family = "Roboto, Open Sans, sans-serif") + ) + }) + + + } + ) +} diff --git a/apps/iatlas/app/R/sc_bubbleplot_ui.R b/apps/iatlas/app/R/sc_bubbleplot_ui.R new file mode 100644 index 0000000000..6aad6039f8 --- /dev/null +++ b/apps/iatlas/app/R/sc_bubbleplot_ui.R @@ -0,0 +1,33 @@ +sc_bubbleplot_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::messageBox( + width = 24, + shiny::p("See the percentage of cells from a given type that have counts for selected genes with average expression values.") + ), + shiny::verticalLayout( + # shiny::column( + #width = 3, + iatlas.modules::optionsBox( + width=24, + #shiny::uiOutput(ns("select_cells")), + shiny::selectizeInput( + ns("genes"), + label = "Select or Search for genes", + choices = NULL, + multiple = TRUE + ) + #) + ), + # shiny::column( + # width = 9, + iatlas.modules::plotBox( + width=24, + plotly::plotlyOutput(ns("bubble_plot")) + ) + # ) + ) + ) +} diff --git a/apps/iatlas/app/R/sc_immune_features_distribution_server.R b/apps/iatlas/app/R/sc_immune_features_distribution_server.R new file mode 100644 index 0000000000..d5de340d22 --- /dev/null +++ b/apps/iatlas/app/R/sc_immune_features_distribution_server.R @@ -0,0 +1,244 @@ +sc_immune_features_distribution_server <- function(id, cohort_obj, gsea_df, feature_op){ + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + output$excluded_dataset <- shiny::renderText({ + if(all(cohort_obj()$dataset_displays %in% unique(cohort_obj()$group_tbl$dataset_display))){ + "" + }else{ + excluded_datasets <- setdiff(cohort_obj()$dataset_displays, unique(cohort_obj()$group_tbl$dataset_display)) + paste( + paste(excluded_datasets, collapse = ", "), + " not included because all samples were filtered in SC Cohort Selection." + ) + } + }) + + dataset_display <- reactive({ + shiny::req(cohort_obj()) + setNames(cohort_obj()$dataset_displays, cohort_obj()$dataset_names) + }) + + plot_function <- shiny::reactive({ + switch( + input$plot_type, + "Violin" = create_violinplot, + "Box" = create_boxplot + ) + }) + + output$feature_op <- shiny::renderUI({ + shiny::selectInput( + ns("var1_surv"), + "Select Feature", + choices = feature_op %>% create_nested_list_by_class() + ) + }) + + output$group2 <- renderUI({ + shiny::checkboxInput( + ns("groupvar2"), + "Stratify cell types by group", + value = TRUE + ) + }) + + output$ui_stat <- shiny::renderUI({ + req(cohort_obj(), input$groupvar2) + if(cohort_obj()$group_name == "Sample_Treatment" & (input$groupvar2 == TRUE)){ + radioButtons(ns("paired"), "Sample type", choices = c("Independent", "Paired"), inline = TRUE, selected = "Paired") + }else{ + radioButtons(ns("paired"), "Sample type", choices = c("Independent", "Paired"), inline = TRUE, selected = "Independent") + } + }) + + + varible_display_name <- shiny::reactive({ + convert_value_between_columns(input_value = input$var1_surv, + df = feature_op, + from_column = "name", + to_column = "display") + }) + + varible_plot_label <- shiny::reactive({ + switch( + input$scale_method, + "None" = varible_display_name(), + + "Log2" = stringr::str_c( + "Log2( ", + varible_display_name(), + " )"), + + "Log2 + 1" = stringr::str_c( + "Log2( ", + varible_display_name(), + " + 1 )"), + + "Log10" = stringr::str_c( + "Log10( ", + varible_display_name(), + " )"), + + "Log10 + 1" = stringr::str_c( + "Log10( ", + varible_display_name(), + " + 1 )") + ) + }) + + df_selected <- shiny::reactive({ + shiny::req(gsea_df(), input$var1_surv) + + samples <- gsea_df() %>% + build_distribution_io_df(., "feature_value", input$scale_method) + + if(input$groupvar2){ + samples <- samples %>% + dplyr::left_join(dplyr::select(cohort_obj()$sample_tbl, sample_name, group_name), by = dplyr::join_by("sample_name")) %>% + dplyr::mutate(group_name = paste(group, group_name, sep = " - ")) %>% + dplyr::select("feature_name", "feature_value", "dataset_name", "sample_name", "group" = group_name, "y") + } + samples + }) + + dataset_displays <- shiny::reactive({ + names_datasets <- unique(df_selected()$dataset_name) + setNames(names_datasets, names_datasets) + }) + + group_colors <- shiny::reactive({ + shiny::req(df_selected()) + group_colors <- grDevices::colorRampPalette(RColorBrewer::brewer.pal(12, "Set3"))(dplyr::n_distinct(df_selected()$group)) + setNames(group_colors, unique(df_selected()$group)) + }) + + # xlabel <- shiny::reactive({ + # if(is_false(input$groupvar2)) "Cell Type" + # else paste("Cell Type", cohort_obj()$group_display, sep = " - ") + # }) + + output$dist_plots <- plotly::renderPlotly({ + shiny::req(df_selected()) + + all_plots <- purrr::map(.x = dataset_displays(), + .f = function(x){ + plot_function()(df = dplyr::filter(df_selected(), dataset_name == x), + x_col = "group", + y_col = "y", + #xlab = xlabel(), + ylab = varible_plot_label(), + custom_data = as.character(x), + fill_colors = group_colors(), + #source = "p1", + showlegend = F) %>% + add_title_subplot_plotly(dataset_display()[[x]]) %>% + plotly::layout( + xaxis = list(automargin = TRUE, + tickangle = 80, + categoryorder = input$reorder_method_choice + ), + margin = list(b = 10), + plot_bgcolor = "rgb(250, 250, 250)" + ) + }) + + s <- plotly::subplot(all_plots, shareX = TRUE, shareY = TRUE, nrows = 1, margin = c(0.01, 0.01, 0.01, 0.7)) + + s$x$source <- "distPlots" + s + }) + + output$download_tbl <- downloadHandler( + filename = function() stringr::str_c("distplot-", Sys.Date(), ".csv"), + content = function(con) readr::write_csv(df_selected(), con) + ) + + paired_test <- shiny::reactive({ + shiny::req(input$paired) + switch( + input$paired, + "Paired" = TRUE, + "Independent" = FALSE + ) + }) + + test_function <- shiny::reactive({ + switch( + input$stattest, + "t-test" = t.test, + "Wilcox" = wilcox.test + ) + }) + + test_summary_table <- reactive({ + shiny::req(df_selected()) + shiny::validate( + shiny::need(nrow(df_selected())>0, "Variable not annotated in the selected dataset(s).") + ) + + purrr::map_dfr(.x = unique(df_selected()$dataset_name), + df = df_selected(), + group_to_split = "group", + sel_feature = "y", + paired = paired_test(), + test = test_function(), + label = group, + dataset_title = dataset_display(), + .f = get_stat_test) + }) + + output$stats1 <- DT::renderDataTable( + # shiny::req(test_summary_table()) + test_summary_table(), + options = list( + order = list(list(7, 'desc')) + ) + ) + + output$download_test <- downloadHandler( + filename = function() stringr::str_c("test_results-", Sys.Date(), ".csv"), + content = function(con) readr::write_csv(test_summary_table(), con) + ) + + drilldown_df <- reactive({ + shiny::req(df_selected()) + + eventdata <- plotly::event_data("plotly_click", source = "distPlots") + shiny::validate(need(!is.null(eventdata), "Click plot above")) + + clicked_group <- gsub("
    ", "\n", eventdata$x[[1]]) + clicked_dataset <- eventdata$customdata[[1]] + + current_groups <- df_selected() %>% + dplyr::filter(dataset_name == clicked_dataset) %>% + dplyr::select(group) %>% + unique + + shiny::validate( + shiny::need(clicked_group %in% current_groups$group, "Click plot above")) + + df_selected() %>% + dplyr::filter(dataset_name == clicked_dataset & group == clicked_group) + }) + + output$drilldown_plot <- plotly::renderPlotly({ + shiny::req(drilldown_df()) + create_histogram( + df = drilldown_df(), + x_col = "y", + title = paste((dataset_display()[[unique(drilldown_df()$dataset_name)]]), unique(drilldown_df()$group), sep = "\n"), + x_lab = varible_plot_label() + ) + }) + + output$download_hist <- downloadHandler( + filename = function() stringr::str_c("drilldown-", Sys.Date(), ".csv"), + content = function(con) readr::write_csv(drilldown_df(), con) + ) + } + ) +} diff --git a/apps/iatlas/app/R/sc_immune_features_distribution_ui.R b/apps/iatlas/app/R/sc_immune_features_distribution_ui.R new file mode 100644 index 0000000000..c911a90154 --- /dev/null +++ b/apps/iatlas/app/R/sc_immune_features_distribution_ui.R @@ -0,0 +1,84 @@ +sc_immune_features_distribution_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::optionsBox( + width=12, + shiny::fluidRow( + column( + width = 3, + shiny::uiOutput(ns("feature_op")) + ), + column( + width = 3, + shiny:: uiOutput(ns("group2")) + ), + column( + width = 2, + shiny::selectInput( + ns("plot_type"), + "Select Plot Type", + choices = c( "Box", "Violin") + ) + ), + column( + width = 2, + shiny::selectInput( + ns("scale_method"), + "Select scaling", + choices = c( + "None", + "Log2", + "Log2 + 1", + "Log10", + "Log10 + 1" + ), + selected = "None" + ) + ), + column( + width = 2, + shiny::selectInput( + ns("reorder_method_choice"), + "Reorder Function", + choices = c("None" = "trace", + "Median" = "median ascending", + "Mean" = "mean ascending", + "Max" = "max ascending", + "Min" = "min ascending"), + selected = "None" + ) + ) + ) + ),#optionsBox + shiny::htmlOutput(ns("excluded_dataset")), + iatlas.modules::plotBox( + width = 12, + plotly::plotlyOutput(ns("dist_plots"), height = "500px") %>% + shinycssloaders::withSpinner(), + tagAppendAttributes(shiny::textOutput(ns("plot_text")), style="white-space:pre-wrap;"), + shiny::h5("Click plot to see group information."), + shiny::downloadButton(ns("download_tbl"), "Download plot table") + ), + shiny::fluidRow( + iatlas.modules::optionsBox( + width = 3, + shiny::uiOutput(ns("ui_stat")), + shiny::radioButtons(ns("stattest"), "Test type", choices = c("t-test", "Wilcox"), inline = TRUE, selected = "t-test") + ), + iatlas.modules::plotBox( + width = 9, + DT::dataTableOutput(ns("stats1"))%>% + shinycssloaders::withSpinner(.), + downloadButton(ns('download_test'), 'Download') + ) + ), + iatlas.modules::plotBox( + width = 12, + plotly::plotlyOutput(ns("drilldown_plot")) %>% + shinycssloaders::withSpinner(), + shiny::downloadButton(ns("download_hist"), "Download plot table") + ) + ) +} diff --git a/apps/iatlas/app/R/sc_immune_features_server.R b/apps/iatlas/app/R/sc_immune_features_server.R new file mode 100644 index 0000000000..0b11ad08ed --- /dev/null +++ b/apps/iatlas/app/R/sc_immune_features_server.R @@ -0,0 +1,44 @@ +sc_immune_features_server <- function(id, cohort_obj){ + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + single_cell_datasets <- shiny::reactive( + iatlasGraphQLClient::query_datasets(types = "scrna") + ) + + pseudobulk_df <- shiny::reactive({ + iatlasGraphQLClient::query_pseudobulk_feature_values() %>% + dplyr::inner_join(cohort_obj()$sample_tbl, by = "sample_name") %>% + dplyr::select( + "sample_name", + "group" = "cell_type", + "feature_name" , + "feature_display", + "feature_value" = "value", + "dataset_name" + ) + }) + + sc_immune_features_distribution_server( + "sc_immune_features_distribution", + cohort_obj, + pseudobulk_df, + feature_op = dplyr::filter(cohort_obj()$feature_tbl, !class %in% c("Clinical", "umap")) + ) + + observeEvent(input$method_link,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/methods/sc-pseudobulk-scoring.md"), + easyClose = TRUE, + footer = NULL + )) + }) + + + } + ) +} diff --git a/apps/iatlas/app/R/sc_immune_features_ui.R b/apps/iatlas/app/R/sc_immune_features_ui.R new file mode 100644 index 0000000000..5e57b3434d --- /dev/null +++ b/apps/iatlas/app/R/sc_immune_features_ui.R @@ -0,0 +1,23 @@ +sc_immune_features_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "iAtlas Explorer — Immune Features in single cell RNA seq datasets" + ), + iatlas.modules::textBox( + width = 12, + p("This module allows you to see how immune readouts vary across cell types.") + ), + iatlas.modules::sectionBox( + title = "Distributions", + iatlas.modules::messageBox( + width = 12, + shiny::includeMarkdown("inst/markdown/sc_immunefeatures.markdown"), + shiny::actionLink(ns("method_link"), "Click to view method description.") + ), + sc_immune_features_distribution_ui(ns("sc_immune_features_distribution")) + ) + ) +} diff --git a/apps/iatlas/app/R/sc_immunomodulators_server.R b/apps/iatlas/app/R/sc_immunomodulators_server.R new file mode 100644 index 0000000000..4a17216931 --- /dev/null +++ b/apps/iatlas/app/R/sc_immunomodulators_server.R @@ -0,0 +1,118 @@ +sc_immunomodulators_server <- function(id, cohort_obj){ + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + dataset_display <- reactive({ + shiny::req(cohort_obj()) + setNames(cohort_obj()$dataset_displays, cohort_obj()$dataset_names) + }) + + bubble_df <- shiny::reactive({ + iatlasGraphQLClient::query_cell_stats() + }) + + genes <- shiny::reactive({ + iatlasGraphQLClient::query_immunomodulators() %>% + dplyr::filter(entrez %in% (bubble_df()$gene_entrez))%>% + dplyr::select( + name = entrez, + display = hgnc, + class = gene_family + ) + }) + + shiny::observe({ + shiny::req(genes()) + shiny::updateSelectizeInput( + session, + "genes", + choices = create_nested_list_by_class(genes()), + selected = c(1493, 3902), + server = TRUE + ) + }) + + plot_df <- shiny::reactive({ + shiny::req(bubble_df(), input$genes) + + plot_df <- bubble_df() %>% + dplyr::filter(gene_entrez %in% input$genes) %>% + dplyr::filter(dataset_name %in% cohort_obj()$dataset_names) %>% + dplyr::inner_join(genes(), by = dplyr::join_by(gene_entrez == name)) %>% + dplyr::mutate(show_text = paste( + paste0("% cells with expression for gene: ", round(perc_expr, 3)*100, "%"), + paste("Average value:", round(avg_expr, 3)), sep = "\n" + ), + dataset_display = dataset_display()[dataset_name]) + }) + + bubble_plot_ggplot <- function(df){ + + df %>% + ggplot2::ggplot(aes(x=type, y=display, text = show_text, size=perc_expr, color=avg_expr, fill = avg_expr)) + + ggplot2::geom_point(aes(color=avg_expr), pch = 21) + + ggplot2::scale_color_viridis_c(option = "viridis") + + ggplot2::scale_fill_viridis_c(option = "viridis") + + ggplot2::theme_minimal() + + ggplot2::ylab("Gene Symbol") + + ggplot2::xlab("Cell type") + + ggplot2::facet_wrap(~dataset_display, ncol = 1)+ + ggplot2::theme(strip.text = ggplot2::element_text(size = 12), + axis.text.x = ggplot2::element_text(size = 10, angle = 315, hjust = 1, vjust = 0.5), + title = ggplot2::element_text(size = 12)) + } + + + output$bubble_plot <- plotly::renderPlotly({ + shiny::req(plot_df()) + + plotly::ggplotly(bubble_plot_ggplot(plot_df()), tooltip = "show_text", source = "bubbleplot")%>% + plotly::layout( + font = list( + family = "Roboto, Open Sans, sans-serif") + ) + }) + + #preparing data for pseudobulk plots + + pseudobulk_df <- shiny::reactive({ + shiny::req(input$genes) + iatlasGraphQLClient::query_pseudobulk_expression(cohorts = cohort_obj()$dataset_names, entrez = as.numeric(input$genes)) %>% + dplyr::inner_join(cohort_obj()$sample_tbl, by = "sample_name") %>% + dplyr::select( + "sample_name", + "group" = "cell_type", + "feature_name" = "gene_entrez", + "feature_display" = "gene_hgnc", + "feature_value" = "single_cell_seq_sum", + "dataset_name" + ) + }) + + selected_genes <- shiny::reactive({ + dplyr::filter(genes(), name %in% input$genes) + }) + + sc_immune_features_distribution_server( + "sc_immunomodulators_distribution", + cohort_obj, + pseudobulk_df, + feature_op = selected_genes() + ) + + observeEvent(input$method_link,{ + shiny::showModal(modalDialog( + title = "Method", + includeMarkdown("inst/markdown/methods/sc-pseudobulk.md"), + easyClose = TRUE, + footer = NULL + )) + }) + + + } + ) +} diff --git a/apps/iatlas/app/R/sc_immunomodulators_ui.R b/apps/iatlas/app/R/sc_immunomodulators_ui.R new file mode 100644 index 0000000000..ad22d50288 --- /dev/null +++ b/apps/iatlas/app/R/sc_immunomodulators_ui.R @@ -0,0 +1,54 @@ +sc_immunomodulators_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "iAtlas Explorer — Immuno modulators in single-cell RNA-seq datasets" + ), + iatlas.modules::textBox( + width = 12, + p("This module allows you to explore the expression of immunomodulators genes in single-cell RNA-seq datasets.") + ), + iatlas.modules::sectionBox( + title = "Distributions", + # shiny::column( + # width = 6, + shiny::tagList( + iatlas.modules::messageBox( + width = 24, + shiny::includeMarkdown("inst/markdown/sc_immunomodulators_bubbleplot.markdown") + # shiny::p("See the percentage of cells from a given type that have counts for selected genes with average expression values.") + ), + shiny::verticalLayout( + iatlas.modules::optionsBox( + width=24, + shiny::column( + width = 8, + shiny::selectizeInput( + ns("genes"), + label = "Select or Search for genes", + choices = NULL, + multiple = TRUE + ) + ) + ), + iatlas.modules::plotBox( + width=24, + plotly::plotlyOutput(ns("bubble_plot"), height = "800px") + ) + ) + #) + ), + # shiny::column( + # width = 6, + iatlas.modules::messageBox( + width = 12, + shiny::includeMarkdown("inst/markdown/sc_immunomodulators.markdown"), + shiny::actionLink(ns("method_link"), "Click to view pseudobulk method description.") + ), + sc_immune_features_distribution_ui(ns("sc_immunomodulators_distribution")) + #) + ) + ) +} diff --git a/apps/iatlas/app/R/sc_umap_server.R b/apps/iatlas/app/R/sc_umap_server.R new file mode 100644 index 0000000000..96c14ce122 --- /dev/null +++ b/apps/iatlas/app/R/sc_umap_server.R @@ -0,0 +1,125 @@ +sc_umap_server <- function( + id, + cohort_obj +) { + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + all_umap <- shiny::reactive({ + arrow::read_feather("inst/feather/sc_umap_coord.feather") + }) + + dataset_display <- reactive({ + shiny::req(cohort_obj()) + setNames(cohort_obj()$dataset_names, cohort_obj()$dataset_displays) + }) + + output$select_dataset <- shiny::renderUI({ + shiny::selectInput( + ns("datasets"), + "Choose dataset(s)", + choices = names(dataset_display()) + ) + }) + + umap_df <-shiny::eventReactive(input$plot_button,{ + all_umap() %>% + dplyr::filter(dataset_name == dataset_display()[input$datasets]) + }) + + link_to_cellxgene <- shiny::reactive(setNames(c("Explore in CELLxGENE", + "Explore in CELLxGENE", + "Explore in CELLxGENE", + "Explore in CELLxGENE", + "Explore in Single Cell Portal", + ""), + c("MSK", "Vanderbilt", "Krishna_2021", "Li_2022", "Bi_2021", "Shiao_2024"))) + + + group_colors <- shiny::eventReactive(input$plot_button,{ + #shiny::req(umap_df(), color_criteria()) + group_colors <- grDevices::colorRampPalette(RColorBrewer::brewer.pal(12, "Set3"))(dplyr::n_distinct(umap_df()$cell_type)) + setNames(group_colors, unique(umap_df()$cell_type)) + }) + + + output$umap_plot <- plotly::renderPlotly({ + shiny::req(umap_df(), group_colors()) + + datasets <- unique(umap_df()$dataset_name) + + all_plots <- purrr::map(.x = datasets, + .f = function(x){ + umap_df() %>% + dplyr::filter(dataset_name == x) %>% + plotly::plot_ly( + x = ~ umap_1, + y = ~ umap_2, + type = "scatter", + color = ~(dplyr::filter(umap_df(), dataset_name == x))$cell_type, + colors = group_colors(), + mode = "markers", + height = "600", + showlegend = FALSE + )%>% + add_title_subplot_plotly(names(dataset_display()[dataset_display() == datasets]))%>% + plotly::layout( + xaxis = list(zeroline = F, + showgrid = F, + showticklabels = F), + yaxis = list(zeroline = F, + showgrid = F, + showticklabels = F), + margin = list(b = 10, t = 70), + plot_bgcolor = "rgb(250, 250, 250)" + ) %>% + plotly::add_annotations( + x = 1, + xref = "paper", + xanchor = "right", + y = 1, + yref = "paper", + yanchor = "bottom", + text = link_to_cellxgene()[[x]], + showarrow = FALSE + ) + }) + plotly::subplot(all_plots, nrows = length(datasets), shareX = FALSE, titleX = FALSE, titleY= FALSE, margin = 0.1) + + }) + + + plot_legend <- shiny::reactive({ + tbl <- dplyr::distinct( + data.frame( + b = group_colors(), + a = names(group_colors()) + )) + + DT::datatable( + tbl, + rownames = FALSE, + class = "", + callback = DT::JS("$('table.dataTable.no-footer').css('border-bottom', 'none');"), + options = list( + dom = 't', + lengthChange = FALSE, + headerCallback = DT::JS( + "function(thead, data, start, end, display){", + " $(thead).remove();", + "}") + ) + ) %>% + DT::formatStyle('b', backgroundColor = DT::styleEqual(tbl$b, tbl$b)) %>% + DT::formatStyle('b', color = DT::styleEqual(tbl$b, tbl$b)) + + }) + + output$legend <- DT::renderDT(plot_legend()) + + } + ) +} diff --git a/apps/iatlas/app/R/sc_umap_ui.R b/apps/iatlas/app/R/sc_umap_ui.R new file mode 100644 index 0000000000..8bc38fba11 --- /dev/null +++ b/apps/iatlas/app/R/sc_umap_ui.R @@ -0,0 +1,57 @@ +sc_umap_ui <- function(id){ + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox( + "iAtlas Explorer — UMAP Viewer of Single cell RNA-Seq data" + ), + iatlas.modules::textBox( + width = 24, + shiny::p("Explore UMAP visualizations of single-cell RNA-Seq datasets.") + ), + iatlas.modules::messageBox( + width = 24, + shiny::p("Explore UMAP visualizations of single-cell RNA-Seq datasets. Links for visualizations on CELLxGENE are provided for further exploration.") + ), + iatlas.modules::optionsBox( + width=24, + shiny::column( + width = 4, + shiny::uiOutput(ns("select_dataset")) + ), + + shiny::column( + width = 6, + style = "margin-top: 10px;", + shiny::actionButton( + ns("plot_button"), + "Plot UMAP" + ) + # shiny::selectInput( + # ns("color"), + # label = "Color by", + # choices = c("Cell Type"="cell_type", "Type" = "type"), + # selected = "cell_type", + # multiple = FALSE + # ) + ) + ), + iatlas.modules::plotBox( + width=24, + shiny::column( + width = 10, + plotly::plotlyOutput(ns("umap_plot"), + height = "600px") %>% + shinycssloaders::withSpinner(.) + ), + shiny::column( + width = 2, + div( + DT::DTOutput(ns("legend")), + style = "font-size: 70%" + ) + ) + ) + ) +} diff --git a/apps/iatlas/app/R/scatterplot.R b/apps/iatlas/app/R/scatterplot.R new file mode 100644 index 0000000000..fa757ad618 --- /dev/null +++ b/apps/iatlas/app/R/scatterplot.R @@ -0,0 +1,99 @@ +create_scatterplot <- function( + df, + x_col = "x", + y_col = "y", + key_col = NA, + color_col = NA, + size_col = NA, + label_col = NA, + xlab = "", + ylab = "", + title = "", + identity_line = FALSE, + source_name = NULL, + fill_colors = NULL, + show_legend = TRUE, + horizontal_line = FALSE, + horizontal_line_y = NULL) { + + if(is.na(key_col)) key_col <- x_col + if(is.na(color_col)) color_col <- x_col + if(is.na(label_col)) label_col <- x_col + + p <- + wrapr::let( + alias = c( + X = x_col, + Y = y_col, + KEY = key_col, + COLOR = color_col, + LABEL = label_col), + plotly::plot_ly( + df, + x = ~X, + y = ~Y, + color = ~COLOR, + colors = fill_colors, + showlegend = show_legend, + legendgroup = ~COLOR, + text = ~LABEL, + key = ~KEY, + source = source_name) %>% + plotly::add_markers( + alpha = 0.5, + hoverinfo = 'text', + text = ~LABEL, + textposition = 'top left' + )) + + p <- p %>% + plotly::layout( + title = title, + xaxis = list(title = xlab), + yaxis = list(title = ylab) + ) + + if (horizontal_line) { + p <- p %>% + plotly::layout( + shapes = list( + type = "line", + x0 = min(df[[x_col]]), + y0 = horizontal_line_y, + x1 = max(df[[x_col]]), + y1 = horizontal_line_y, + line = list(color = "black", dash = "dot", alpha = 0.5) + )) + } + + + if (!is.na(size_col)) { + p <- p %>% + plotly::add_trace(df, + x = ~X, + y = ~Y, + color = ~COLOR, + size = ~size_col) + + } + + if (identity_line) { + p %>% + plotly::layout( + shapes = list( + type = "line", + x0 = 0, + y0 = 0, + x1 = 1, + y1 = 1, + line = list(color = "black", dash = "dot", alpha = 0.5) + ), + xaxis = list(range(0, 1)), + yaxis = list(range(0, 1)) + ) %>% + format_plotly() + } else { + p %>% + format_plotly() + } +} diff --git a/apps/iatlas/app/R/til_map_datatable_functions.R b/apps/iatlas/app/R/til_map_datatable_functions.R new file mode 100644 index 0000000000..51892c5277 --- /dev/null +++ b/apps/iatlas/app/R/til_map_datatable_functions.R @@ -0,0 +1,15 @@ + +#' Create Tilmap Slide Link +#' +#' @param slide_barcodes A vector of strings +create_tm_slide_link <- function(slide_barcodes){ + paste0( + "", + slide_barcodes, + "" + ) +} diff --git a/apps/iatlas/app/R/til_map_datatable_server.R b/apps/iatlas/app/R/til_map_datatable_server.R new file mode 100644 index 0000000000..3348d90002 --- /dev/null +++ b/apps/iatlas/app/R/til_map_datatable_server.R @@ -0,0 +1,62 @@ +til_map_datatable_server <- function(id, cohort_obj) { + shiny::moduleServer( + id, + function(input, output, session) { + + patient_tbl <- shiny::reactive({ + patient_tbl <- + iatlasGraphQLClient::query_sample_patients( + samples = cohort_obj()$sample_tbl$sample_name + ) %>% + dplyr::select("sample_name", "patient_name") + }) + + slide_tbl <- shiny::reactive({ + slide_tbl <- + iatlasGraphQLClient::query_patient_slides( + samples = cohort_obj()$sample_tbl$sample_name + ) %>% + dplyr::select("patient_name", "slide_name") %>% + tidyr::drop_na() + }) + + feature_tbl <- shiny::reactive({ + feature_tbl <- + cohort_obj()$get_feature_values(feature_classes = "TIL Map Characteristic") %>% + dplyr::mutate( + "feature_value" = round(.data$feature_value, digits = 1) + ) %>% + dplyr::select("sample_name", "feature_display", "feature_value") %>% + tidyr::pivot_wider( + ., + names_from = "feature_display", + values_from = "feature_value" + ) + }) + + + tilmap_tbl <- shiny::reactive({ + + shiny::req(patient_tbl(), slide_tbl(), feature_tbl()) + + sample_tbl <- cohort_obj()$sample_tbl + + tilmap_tbl <- + dplyr::inner_join(sample_tbl, patient_tbl(), by = "sample_name") %>% + dplyr::inner_join(feature_tbl(), by = "sample_name") %>% + dplyr::inner_join(slide_tbl(), by = "patient_name") %>% + dplyr::select(-"patient_name") %>% + dplyr::mutate("Image" = create_tm_slide_link(.data$slide_name)) %>% + dplyr::select(- "slide_name") %>% + dplyr::select( + "Sample" = "sample_name", + "Selected Group" = "group_name", + "Image", + dplyr::everything() + ) + }) + + data_table_server("til_table", tilmap_tbl, escape = F) + } + ) +} diff --git a/apps/iatlas/app/R/til_map_datatable_ui.R b/apps/iatlas/app/R/til_map_datatable_ui.R new file mode 100644 index 0000000000..e116674f45 --- /dev/null +++ b/apps/iatlas/app/R/til_map_datatable_ui.R @@ -0,0 +1,13 @@ +til_map_datatable_ui <- function(id) { + + ns <- shiny::NS(id) + + shiny::tagList( + data_table_ui( + ns("til_table"), + message_html = shiny::includeMarkdown( + get_markdown_path("tilmap_table") + ), + ) + ) +} diff --git a/apps/iatlas/app/R/til_map_distributions_server.R b/apps/iatlas/app/R/til_map_distributions_server.R new file mode 100644 index 0000000000..433c602be5 --- /dev/null +++ b/apps/iatlas/app/R/til_map_distributions_server.R @@ -0,0 +1,60 @@ +til_map_distributions_server <- function( + id, + cohort_obj, + mock_event_data = shiny::reactive(NULL) +){ + shiny::moduleServer( + id, + function(input, output, session) { + + ns <- session$ns + + sample_data_function <- shiny::reactive({ + function(.feature){ + result <- + cohort_obj()$get_feature_values(features = .feature) %>% + dplyr::select( + "sample_name", + "group_name" = "group_short_name", + "feature_name", + "feature_display", + "feature_value", + "feature_order" + ) %>% + dplyr::mutate("dataset_name" = cohort_obj()$dataset_names) + } + }) + + feature_data <- shiny::reactive({ + cohort_obj()$feature_tbl %>% + dplyr::filter(.data$class %in% "TIL Map Characteristic") %>% + dplyr::select( + "feature_name" = "name", + "feature_display" = "display", + "feature_class" = "class" + ) + }) + + group_data <- shiny::reactive({ + cohort_obj()$group_tbl %>% + dplyr::select( + "group_name" = "short_name", + "group_description" = "characteristics", + "group_color" = "color" + ) %>% + dplyr::mutate("group_display" = .data$group_name) + }) + + result <- iatlas.modules::distributions_plot_server( + id = "distplot", + sample_data_function = sample_data_function, + feature_data = feature_data, + group_data = group_data, + distplot_xlab = shiny::reactive(cohort_obj()$group_display), + drilldown = shiny::reactive(T), + mock_event_data = mock_event_data + ) + + } + ) +} diff --git a/apps/iatlas/app/R/til_map_distributions_ui.R b/apps/iatlas/app/R/til_map_distributions_ui.R new file mode 100644 index 0000000000..195c5a11b8 --- /dev/null +++ b/apps/iatlas/app/R/til_map_distributions_ui.R @@ -0,0 +1,9 @@ +til_map_distributions_ui <- function(id) { + ns <- shiny::NS(id) + iatlas.modules::distributions_plot_ui( + ns("distplot"), + html = shiny::includeMarkdown( + get_markdown_path("tilmap_dist") + ) + ) +} diff --git a/apps/iatlas/app/R/til_map_server.R b/apps/iatlas/app/R/til_map_server.R new file mode 100644 index 0000000000..bcf35601f3 --- /dev/null +++ b/apps/iatlas/app/R/til_map_server.R @@ -0,0 +1,32 @@ +til_map_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + + show_submodule <- shiny::reactive({ + function(cohort_obj){ + cohort_obj$has_classes("TIL Map Characteristic") + } + }) + + call_module_server( + "til_map_distributions", + cohort_obj, + test_function = show_submodule, + server_function = til_map_distributions_server, + ui_function = til_map_distributions_ui + ) + + call_module_server( + "til_map_datatable", + cohort_obj, + test_function = show_submodule, + server_function = til_map_datatable_server, + ui_function = til_map_datatable_ui + ) + } + ) +} diff --git a/apps/iatlas/app/R/til_map_ui.R b/apps/iatlas/app/R/til_map_ui.R new file mode 100644 index 0000000000..09cffb6bf6 --- /dev/null +++ b/apps/iatlas/app/R/til_map_ui.R @@ -0,0 +1,20 @@ +til_map_ui <- function(id) { + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox("CRI iAtlas Explorer — TIL Maps"), + iatlas.modules::textBox( + width = 12, + shiny::includeMarkdown(get_markdown_path("tilmap")) + ), + iatlas.modules::sectionBox( + title = "Distributions", + module_ui(ns("til_map_distributions")) + ), + iatlas.modules::sectionBox( + title = "TIL Map Annotations", + module_ui(ns("til_map_datatable")) + ) + ) +} diff --git a/apps/iatlas/app/R/tumor_microenvironment_cell_proportions_server.R b/apps/iatlas/app/R/tumor_microenvironment_cell_proportions_server.R new file mode 100644 index 0000000000..e1e368a030 --- /dev/null +++ b/apps/iatlas/app/R/tumor_microenvironment_cell_proportions_server.R @@ -0,0 +1,61 @@ +tumor_microenvironment_cell_proportions_server <- function( + id, + cohort_obj, + mock_event_data = shiny::reactive(NULL) +) { + shiny::moduleServer( + id, + function(input, output, session) { + + sample_data_function <- shiny::reactive({ + function(.feature_class){ + + result <- + cohort_obj()$get_feature_values(features = c( + "leukocyte_fraction", "Stromal_Fraction", "Tumor_fraction" + )) %>% + dplyr::select( + "sample_name", + "group_name" = "group_short_name", + "feature_name", + "feature_display", + "feature_value" + ) + } + }) + + group_data <- shiny::reactive({ + cohort_obj()$group_tbl %>% + dplyr::select( + "group_name" = "short_name", + "group_description" = "characteristics", + "group_color" = "color" + ) %>% + dplyr::mutate("group_display" = .data$group_name) + }) + + + feature_data <- shiny::reactive({ + cohort_obj()$feature_tbl %>% + dplyr::select( + "feature_name" = "name", + "feature_display" = "display" + ) + }) + + result <- iatlas.modules::barplot_server( + "barplot", + sample_data_function, + group_data = group_data, + feature_data = feature_data, + barplot_xlab = shiny::reactive("Fraction type by group"), + barplot_ylab = shiny::reactive("Fraction mean"), + barplot_label = shiny::reactive("Fraction"), + drilldown = shiny::reactive(T), + y_feature_input = shiny::reactive("Leukocyte Fraction"), + x_feature_input = shiny::reactive("Stromal Fraction"), + mock_event_data = mock_event_data + ) + } + ) +} diff --git a/apps/iatlas/app/R/tumor_microenvironment_cell_proportions_ui.R b/apps/iatlas/app/R/tumor_microenvironment_cell_proportions_ui.R new file mode 100644 index 0000000000..88307f04b4 --- /dev/null +++ b/apps/iatlas/app/R/tumor_microenvironment_cell_proportions_ui.R @@ -0,0 +1,13 @@ +tumor_microenvironment_cell_proportions_ui <- function(id){ + ns <- shiny::NS(id) + iatlas.modules::barplot_ui( + ns("barplot"), + barplot_html = shiny::includeMarkdown( + get_markdown_path("overall_cell_proportions1") + ), + drilldown_html = shiny::includeMarkdown( + get_markdown_path("overall_cell_proportions2") + ) + ) +} + diff --git a/apps/iatlas/app/R/tumor_microenvironment_server.R b/apps/iatlas/app/R/tumor_microenvironment_server.R new file mode 100644 index 0000000000..b417e962b4 --- /dev/null +++ b/apps/iatlas/app/R/tumor_microenvironment_server.R @@ -0,0 +1,49 @@ +tumor_microenvironment_server <- function( + id, + cohort_obj +){ + shiny::moduleServer( + id, + function(input, output, session) { + + show_ocp_submodule <- shiny::reactive({ + function(cohort_obj) { + cohort_obj$has_features( + c("leukocyte_fraction", "Stromal_Fraction", "Tumor_fraction") + ) + } + }) + + call_module_server( + "tumor_microenvironment_cell_proportions", + cohort_obj, + test_function = show_ocp_submodule, + server_function = tumor_microenvironment_cell_proportions_server, + ui_function = tumor_microenvironment_cell_proportions_ui + ) + + show_ctf_submodule <- shiny::reactive({ + function(cohort_obj){ + fraction_classes <- c( + "Immune Cell Proportion - Common Lymphoid and Myeloid Cell Derivative Class", + "Immune Cell Proportion - Differentiated Lymphoid and Myeloid Cell Derivative Class", + "Immune Cell Proportion - Multipotent Progenitor Cell Derivative Class", + "Immune Cell Proportion - Original" + ) + cohort_obj$has_classes( + classes = fraction_classes, + all_classes = F + ) + } + }) + + call_module_server( + "tumor_microenvironment_type_fractions", + cohort_obj, + test_function = show_ctf_submodule, + server_function = tumor_microenvironment_type_fractions_server, + ui_function = tumor_microenvironment_type_fractions_ui + ) + } + ) +} diff --git a/apps/iatlas/app/R/tumor_microenvironment_type_fractions_server.R b/apps/iatlas/app/R/tumor_microenvironment_type_fractions_server.R new file mode 100644 index 0000000000..d9e4b8644c --- /dev/null +++ b/apps/iatlas/app/R/tumor_microenvironment_type_fractions_server.R @@ -0,0 +1,68 @@ +tumor_microenvironment_type_fractions_server <- function( + id, + cohort_obj, + mock_event_data = shiny::reactive(NULL) +) { + shiny::moduleServer( + id, + function(input, output, session) { + + sample_data_function <- shiny::reactive({ + function(.feature_class){ + result <- + cohort_obj()$get_feature_values( + feature_classes = .feature_class + ) %>% + dplyr::select( + "sample_name", + "group_name" = "group_short_name", + "feature_name", + "feature_display", + "feature_value" + ) + } + }) + + group_data <- shiny::reactive({ + cohort_obj()$group_tbl %>% + dplyr::select( + "group_name" = "short_name", + "group_description" = "characteristics", + "group_color" = "color" + ) %>% + dplyr::mutate("group_display" = .data$group_name) + }) + + + feature_data <- shiny::reactive({ + cohort_obj()$feature_tbl %>% + dplyr::select( + "feature_name" = "name", + "feature_display" = "display", + "feature_class" = "class" + ) %>% + dplyr::filter( + .data$feature_class %in% + c( + "Immune Cell Proportion - Common Lymphoid and Myeloid Cell Derivative Class", + "Immune Cell Proportion - Differentiated Lymphoid and Myeloid Cell Derivative Class", + "Immune Cell Proportion - Multipotent Progenitor Cell Derivative Class", + "Immune Cell Proportion - Original" + ) + ) + }) + + result <- iatlas.modules::barplot_server( + "barplot", + sample_data_function, + group_data = group_data, + feature_data = feature_data, + barplot_xlab = shiny::reactive("Fraction type by group"), + barplot_ylab = shiny::reactive("Fraction mean"), + barplot_label = shiny::reactive("Fraction"), + drilldown = shiny::reactive(T), + mock_event_data = mock_event_data + ) + } + ) +} diff --git a/apps/iatlas/app/R/tumor_microenvironment_type_fractions_ui.R b/apps/iatlas/app/R/tumor_microenvironment_type_fractions_ui.R new file mode 100644 index 0000000000..b51f2bc629 --- /dev/null +++ b/apps/iatlas/app/R/tumor_microenvironment_type_fractions_ui.R @@ -0,0 +1,10 @@ +tumor_microenvironment_type_fractions_ui <- function(id){ + + ns <- shiny::NS(id) + iatlas.modules::barplot_ui( + ns("barplot"), + barplot_html = shiny::includeMarkdown( + get_markdown_path("cell_type_fractions") + ), + ) +} diff --git a/apps/iatlas/app/R/tumor_microenvironment_ui.R b/apps/iatlas/app/R/tumor_microenvironment_ui.R new file mode 100644 index 0000000000..bfa22ceed1 --- /dev/null +++ b/apps/iatlas/app/R/tumor_microenvironment_ui.R @@ -0,0 +1,25 @@ +tumor_microenvironment_ui <- function(id) { + + ns <- shiny::NS(id) + + shiny::tagList( + iatlas.modules::titleBox("CRI iAtlas Explorer — Tumor Microenvironment"), + iatlas.modules::textBox( + width = 12, + shiny::includeMarkdown(get_markdown_path("tumor_microenvironment")), + shiny::p("Check out our ", + a(href="https://github.com/CRI-iAtlas/iatlas-notebooks/blob/main/cell_content_barplots.ipynb", "Jupyter notebook"), + "reproducing the code run in this module.") + ), + iatlas.modules::sectionBox( + title = "Overall Cell Proportions", + module_ui(ns("tumor_microenvironment_cell_proportions")) + ), + iatlas.modules::sectionBox( + title = "Cell Type Fractions", + module_ui(ns("tumor_microenvironment_type_fractions")) + ) + ) +} + + diff --git a/apps/iatlas/app/R/utils.R b/apps/iatlas/app/R/utils.R new file mode 100644 index 0000000000..5ed44ba75a --- /dev/null +++ b/apps/iatlas/app/R/utils.R @@ -0,0 +1,33 @@ + +# system files ---------------------------------------------------------------- + +get_system_path_file <- function( + prefix, extension, folder, package = "iatlas.app" +){ + file_name <- stringr::str_c(prefix, extension) + file.path(system.file(folder, package = package), file_name) +} + +get_markdown_path <- function(name, extension = ".markdown"){ + get_system_path_file(name, extension, "markdown") +} + +get_example_path <- function(name, extension = ".csv"){ + get_system_path_file(name, extension, "examples") +} + +get_javascript_path <- function(name, extension = ".js"){ + get_system_path_file(name, extension, "javascript") +} + +get_html_path <- function(name, extension = ".html"){ + get_system_path_file(name, extension, "html_files") +} + +get_tsv_path <- function(name, extension = ".tsv"){ + get_system_path_file(name, extension, "tsv") +} + +get_svg_path <- function(name, extension = ".svg"){ + get_system_path_file(name, extension, "svg") +} diff --git a/apps/iatlas/app/R/violinplot.R b/apps/iatlas/app/R/violinplot.R new file mode 100644 index 0000000000..8d163b263f --- /dev/null +++ b/apps/iatlas/app/R/violinplot.R @@ -0,0 +1,60 @@ +create_violinplot <- function( + df, + x_col = "x", + y_col = "y", + key_col = NA, + color_col = NA, + label_col = NA, + split_col = NA, + xlab = "", + ylab = "", + title = "", + source_name = NULL, + custom_data = "", + fill_colors = NA, + points = NULL, + showlegend = T) { + + + if(is.na(key_col)) key_col <- x_col + if(is.na(color_col)) color_col <- x_col + if(is.na(label_col)) label_col <- x_col + if(is.na(split_col)) split_col <- x_col + + wrapr::let( + alias = c( + X = x_col, + Y = y_col, + KEY = key_col, + COLOR = color_col, + SPLIT = split_col, + LABEL = label_col), + plotly::plot_ly( + df, + x = ~X, + y = ~Y, + split = ~SPLIT, + color = ~COLOR, + key = ~KEY, + text = ~LABEL, + points = points, + source = source_name, + customdata = custom_data, + colors = fill_colors, + type = 'violin', + hoverinfo = 'text', + showlegend = showlegend, + box = list( + visible = TRUE + ), + meanline = list( + visible = TRUE + ))) %>% + plotly::layout( + title = title, + xaxis = list(title = xlab), + yaxis = list(title = ylab) + ) %>% + format_plotly() %>% + I +} diff --git a/apps/iatlas/app/README.md b/apps/iatlas/app/README.md new file mode 100644 index 0000000000..ee09a872e6 --- /dev/null +++ b/apps/iatlas/app/README.md @@ -0,0 +1,202 @@ + +# CRI iAtlas-App + +The CRI iAtlas app is an interactive web portal that provides multiple analysis modules to visualize and explore immune response characterizations across cancer types. The app is hosted on shinyapps.io at [https://isb-cgc.shinyapps.io/iatlas-app/](https://isb-cgc.shinyapps.io/iatlas-app/) and can also be accessed via the main CRI iAtlas page at [http://www.cri-iatlas.org/](http://www.cri-iatlas.org/). + +The portal is built entirely in **R** and **Shiny** using the **RStudio** development environment. Layout and interactivity within the portal are achieved by heavy use of the following packages: + +- [shinydashboard](https://rstudio.github.io/shinydashboard/) +- [plotly](https://plot.ly/r/) +- [crosstalk](https://rstudio.github.io/crosstalk/) + +## Install + +### Requirements + +- R: https://www.r-project.org/ - v4.2+ + +- RStudio: https://rstudio.com/products/rstudio/download + +### MacOS Install instructions + +Install package manager: +- [HomeBrew](https://brew.sh/) (the instructions below are for HomeBrew) +- or [MacPorts](https://www.macports.org/), which is very similar to use for installing packages + +Then in the terminal, run: + +- xcode-select --install +- brew install cairo +- brew install R or install R .pkg from https://cran.r-project.org/bin/macosx/ +- download and install RStudio: https://rstudio.com/products/rstudio/download + +### Initialize R Packages and run App + +To run the app locally: + +1. Clone this repository + +1. Open `iatlas-app.Rproj` + +1. Follow the instructions in your console + +1. Restart R (ctrl+shift+F10) + +1. Run the command shiny::runApp() in your console + +## Branches: Staging & Master + +We recommend the following workflow. When you are starting a new feature or project: + +### Create a Working Branch + +Checkout and get the latest from staging: +```shell +git checkout staging +git pull +``` + +Create your new branch: +```shell +git checkout -b feature/my-new-feature +# 'git checkout -b' is the same as: +# > git branch feature/my-new-feature +# > git checkout feature/my-new-feature +``` + +Do your work and periodically commit your changes: +```shell +git add . +git commit -m "my message" +git push +``` + +Keep up to date with changes on staging by others: +```shell +git checkout staging +git pull +git checkout feature/my-new-feature +git merge staging +``` + +### Testing the pull request. + +When you are ready to deploy your code to staging, you'll need to create a pull request. First, push your branch to Github: + +```shell +git push +``` + +Then go to the repository on Github, go to your branch, and create a pull-request into the staging branch. + +* https://github.com/CRI-iAtlas/iatlas-app + +GitLab CI/CD will will run the test-suite on the pull-request, and automatically deploy your changes to the testing server. Note: It can take 10-15 minutes to update. + +If the tests pass and the app is able to be deployed then it will be reviewed and deployed to staging. + +* Testing App: https://isb-cgc.shinyapps.io/iatlas-testing +* Staging App: https://isb-cgc.shinyapps.io/iatlas-staging + + + +## Installing and Upgrading Packages + +This project uses [renv](https://rstudio.github.io/renv/reference/install.html) to manage packages. The definitive list of required packages and versions is stored in the `renv.lock` file. + +When adding any new dependencies to the application, they may be added using (where "useful_package" is the name of the package to add): + +```R +# install a package +renv::install("useful_package") + +# update the renv.lock file +renv::snapshot() +``` + +Git works well with renv. Once you validate the package should be kept, `git add renv.lock` to the repo and everyone else will automatically install it when they git-pull and re-open their R session or run renv::restore(). + +If you decide you don't want to include the package, just `git checkout renv.lock` to reset your dependencies to the point before you made changes. + +To remove an installed package, run (where "useful_package" is the name of the package to remove): + +```R +renv::remove("useful_package") +renv::snapshot() +``` + +And git-commit it once you are sure you want to keep the changes. + + +### Upgrading Packages + +You can use renv::upgrade("package-name") to upgrade a package, but it'll always update to the very latest uniless you manually tell it otherwise. + +### Installing Packages and RsConnect + +This application is deployed using rsconnect::deployApp(). As of the current version (0.8.16-9000), rsconnect does not support using the renv.lock file to determin which packages to deploy. Instead, it uses its own till (rsconnect::appDependencies) to detect your app's dependencies from the R source files and the DESCRIPTION file. The good news is it will generally get the correct version, since it'll use the current version you have installed and renv manages that tightly. The bad news is sometimes it won't detect you need a package. Here's how you solve that problem: + +* If a package is missing after you push to the staging branch and check the staging server, add that the package name to the `Imports:` section of the DESCRIPTION file. + + +## Deployment + +Only deploy to branch specific apps, not to testing, staging or the main app. +The first time you deploy, go through the Deployment-Setup instructions. Afterwards, you can deploy with one line. + +### Deployment Setup (First-Time-Only) + +You'll need to set up your credentials for shinyapps.io. You can get your codes from: + +- [https://www.shinyapps.io/admin/#/tokens](https://www.shinyapps.io/admin/#/tokens) + +Paste and evaluate your tokens in the RStudio console. They look like this: + +```R +# shinyapps.io example credentials +rsconnect::setAccountInfo( + name='isb-cgc', + token='xxx', + secret='yyy' +) +``` + +### Deploy +```R +rsconnect::deployApp(appName = "iatlas-branchxxx-app") +``` + +## Methods + +While many of the results presented in tables and plots are taken directly from Immune Response Working Group (IRWG) data (including the main **feature matrix** and various feature and group annotations), we compute some values internally. Unless otherwise noted, the following methods/tools were used to compute summary statistics: + +### Correlation — Spearman's rank-order correlation + +```R +stats::cor(x, y, method = "spearman", use = "pairwise.complete.obs") +``` + +### Concordance Index (CI) + +Concordance indexes for survival endpoints with respect to different immune readouts were computed using a custom package developed by Tai-Hsien Ou Yang at Columbia University. The **concordanceIndex** package includes a single synonymous function that can be used as follows: + +```R +concordanceIndex::concordanceIndex(predictions, observations) +``` + +... where `predictions` and `observations` are numerical vectors of the same length. + +## Common Errors + +When running `shiny::runApp()`for the first time in a session, you may run into the following error: + +```R +Warning in file(con, "r") : + cannot open file '/footer.html': No such file or directory +Warning: Error in file: cannot open the connection + 75: file + 74: readLines + 73: shiny::includeHTML +``` + +Can be resolved by running `devtools::load_all(".")` and then `shiny::runApp()`. diff --git a/apps/iatlas/app/css/bootstrapTable.min.css b/apps/iatlas/app/css/bootstrapTable.min.css new file mode 100644 index 0000000000..2549b6e462 --- /dev/null +++ b/apps/iatlas/app/css/bootstrapTable.min.css @@ -0,0 +1,15 @@ +/*! + * Bootstrap v3.3.7 (http://getbootstrap.com) + * Copyright 2011-2018 Twitter, Inc. 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url('https://fonts.googleapis.com/css?family=Lato'); + +body { + font-family: 'Lato', Open Sans, Helvetica Neue, Helvetica, Arial, sans-serif; +} + +.navbar { + position: relative; + min-height: 50px; + margin-bottom: 0; + border: 2px solid transparent; +} + +.navbar-inverse .navbar-nav>.active>a, .navbar-inverse .navbar-nav>.active>a:focus, .navbar-inverse .navbar-nav>.active>a:hover { + background: rgba(185,144,85, 0.8); +} + +.wrapper { + height: auto; + margin-left: -15px; + margin-right: -15px; + margin-bottom: -30px; +} + +.content-wrapper { + min-height: 100%!important; + background: #F3F3F3!important; +} + +.well { + color: #DDD; + font-size: 13px; + border: 1px solid #333; + background-color: rgba(0, 0, 0, 0.3)!important; + margin-left: 10px; + margin-right: 10px; + padding-left: 10px; + padding-right: 10px; + white-space: normal; +} + +/*sidebar*/ +.main-sidebar { + /* Permalink - use to edit and share this gradient: http://colorzilla.com/gradient-editor/#333333+0,55a89e+100 */ + background: #333333; /* Old browsers */ + background: -moz-linear-gradient(top, #333333 0%, #55a89e 100%); /* FF3.6-15 */ + background: -webkit-linear-gradient(top, #333333 0%,#55a89e 100%); /* Chrome10-25,Safari5.1-6 */ + background: linear-gradient(to bottom, #333333 0%,#55a89e 100%); /* W3C, IE10+, FF16+, Chrome26+, Opera12+, Safari7+ */ + filter: progid:DXImageTransform.Microsoft.gradient( startColorstr='#333333', endColorstr='#55a89e',GradientType=0 ); /* IE6-9 */ + border-left-color: rgba(0, 0, 0, 1)!important; +} + +/*sidebar link*/ +.sidebar a { + color: #FFF!important; +} + +/*sidebar menu link*/ +.sidebar-menu>li>a { + background: rgba(51, 51, 51, 1)!important; + border-left-color: rgba(51, 51, 51, 1)!important; +} + +/*sidebar menu hover*/ +.sidebar-menu>li>a:hover { + background: rgba(34, 34, 34, 1)!important; + border-left-color: rgba(110, 150, 183, 1)!important; +} + +/*sidebar menu link active*/ +.sidebar-menu>li.active>a { + background: rgba(110, 150, 183, 1)!important; + border-left-color: rgba(51, 51, 51, 1)!important; +} + +/*sidebar submenu*/ +.sidebar-menu>li>.treeview-menu { + background: rgba(218, 218, 218, 0.2)!important; +} + +/*sidebar submenu link*/ +.sidebar-menu>li>.treeview-menu>li>a { + color: rgba(218, 218, 218, 1)!important; +} + +/*sidebar submenu link hover*/ +.sidebar-menu>li>.treeview-menu>li>a:hover { + background: rgba(51, 51, 51, 0.5)!important; + color: #FFF!important; +} + +/*sidebar submenu link active*/ +.sidebar-menu>li>.treeview-menu>li.active>a { + background: rgba(110, 150, 183, 1)!important; + border-left-color: rgba(51, 51, 51, 1)!important; + color: #FFF!important; +} + +.info-box-text { + text-transform: none; + white-space: normal; +} + +.box { + border-radius: 0px; +} + +.box.box-solid { + border: 0!important; + border-top: 0 solid #666!important; +} + +.box.box-success { + border-top-color: rgba(185,144,85, 0.8)!important; +} + +.box.box-warning { + border-top-color: rgba(110, 150, 183, 1)!important; +} + +.box.box-danger { + border-top-color: #666!important; +} + +.box.box-solid.box-primary>.box-header { + background-color: rgba(61, 93, 116, 1)!important; +} + +.box.box-solid.box-warning>.box-header { + background-color: rgba(28, 42, 51, 1)!important; +} + +.box.box-solid.bg-yellow { + color: #000!important; + background-color: rgba(0, 0, 0, 0)!important; + border-bottom: 1px solid #888!important; + box-shadow: none; +} + +.bg-black { + background-color: #333!important; +} + +.bg-navy { + background-color: rgba(72, 72, 72, 1)!important; +} + +.bg-green { + background-color: rgba(218, 218, 218, 0.5)!important; + color: #222!important; +} diff --git a/apps/iatlas/app/css/footer.css b/apps/iatlas/app/css/footer.css new file mode 100644 index 0000000000..bb3f28cddb --- /dev/null +++ b/apps/iatlas/app/css/footer.css @@ -0,0 +1,78 @@ +#myFooter { + background-color: #333333; + color: white; + font-size: 12px; + padding-top: 15px; + margin-top: 30px; +} + +#myFooter .footer-copyright { + background-color: #3c3d41; + padding-top: 3px; + padding-bottom: 3px; + text-align: center; +} + +#myFooter .row { + margin-bottom: 20px; +} + +#myFooter .navbar-brand { + margin-top: 45px; + height: 65px; +} + +#myFooter .footer-copyright p { + margin: 10px; + color: #ccc; +} + +#myFooter ul { + list-style-type: none; + padding-left: 0; + line-height: 1.7; +} + +#myFooter h5 { + font-size: 16px; + color: white; + font-weight: bold; + margin-top: 10px; +} + +#myFooter h2 a{ + font-size: 50px; + text-align: center; + color: #fff; +} + +#myFooter a { + color: #d2d1d1; + text-decoration: none; +} + +#myFooter a:hover, +#myFooter a:focus { + text-decoration: none; + color: #6E96B7; +} + +#myFooter .btn { + color: white; + background-color: #B99055; + border-radius: 20px; + border: none; + width: 150px; + display: block; + margin: 0 auto; + margin-top: 10px; + line-height: 25px; +} + +@media screen and (max-width: 767px) { + #myFooter { + text-align: center; + } +} + + diff --git a/apps/iatlas/app/default_app_config.yml b/apps/iatlas/app/default_app_config.yml new file mode 100644 index 0000000000..00096a4db9 --- /dev/null +++ b/apps/iatlas/app/default_app_config.yml @@ -0,0 +1 @@ +app: "live" diff --git a/apps/iatlas/app/iatlas-app.Rproj b/apps/iatlas/app/iatlas-app.Rproj new file mode 100644 index 0000000000..cba1b6b7a0 --- /dev/null +++ b/apps/iatlas/app/iatlas-app.Rproj @@ -0,0 +1,21 @@ +Version: 1.0 + +RestoreWorkspace: No +SaveWorkspace: No +AlwaysSaveHistory: Default + +EnableCodeIndexing: Yes +UseSpacesForTab: Yes +NumSpacesForTab: 2 +Encoding: UTF-8 + +RnwWeave: Sweave +LaTeX: pdfLaTeX + +AutoAppendNewline: Yes +StripTrailingWhitespace: Yes + +BuildType: Package +PackageUseDevtools: Yes +PackageInstallArgs: --no-multiarch --with-keep.source +PackageRoxygenize: rd,collate,namespace diff --git a/apps/iatlas/app/index.html b/apps/iatlas/app/index.html new file mode 100644 index 0000000000..a107d483f6 --- /dev/null +++ b/apps/iatlas/app/index.html @@ -0,0 +1,12 @@ + + + + + +

    Under construction

    + http://chuck.goolsbee.org/images/uc.jpg + \ No newline at end of file diff --git a/apps/iatlas/app/init.R b/apps/iatlas/app/init.R new file mode 100644 index 0000000000..72eabc86f7 --- /dev/null +++ b/apps/iatlas/app/init.R @@ -0,0 +1,8 @@ +devtools::load_all(devtools::as.package(".")$path) + +# load_config(Sys.getenv("R_CONFIG_ACTIVE", unset = "dev")) + +cat(crayon::blue("SUCCESS: iatlas.app is ready to go.\n")) +cat(crayon::blue(paste0("For more info, open README.md\n"))) +cat(crayon::blue(paste0("TEST: ",crayon::bold("devtools::test() or testthat::auto_test_package()\n")))) +cat(crayon::blue(paste0("RUN: ",crayon::bold("shiny::runApp()\n")))) diff --git a/apps/iatlas/app/inst/examples/ebpp_test1_1to20.tsv b/apps/iatlas/app/inst/examples/ebpp_test1_1to20.tsv new file mode 100644 index 0000000000..45a1d722e9 --- /dev/null +++ b/apps/iatlas/app/inst/examples/ebpp_test1_1to20.tsv @@ -0,0 +1,20532 @@ +GeneID XY1 XY2 XY3 XY4 XY5 XY6 XY7 XY8 XY9 XY10 XY11 XY12 XY13 XY14 XY15 XY16 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5.5504 2.2311 6.1022 2.3491 0.431 +ADAMTS9 382.805 435.243 503.629 1159.57 217.954 916.967 937.008000000001 258.725 665.433 141.695 314.249 248.786 533.371 194.227 362.757 258.094 310.576 1123.57 209.067 417.241 +ADAMTSL1 54.755 1305.73 15.9976 452.363 15.648 237.866 168.255 31.6182 16.3848 6.6837 116.412 16.9903 130.09 807.414 13.9729 36.0777 103.525 23.6461 22.5511 429.31 +ADAMTSL2 153.218 272.983 99.5408 91.402 33.5314 180.906 266.059 56.7767 98.3087 67.2831 227.735 139.563 175.905 479.197 55.8914 127.66 324.409 467.582 28.6587 54.7414 +ADAMTSL3 15.8501 162.663 24.2927 6.9713 27.384 27.2764 53.4604 29.2383 40.1691 8.0205 48.9822 46.7233 7.9186 26.6435 17.7348 36.0777 28.5587 69.4127 32.4172 6.8966 +ADAMTSL4 17.7714 34.6262 26.6627 62.7421 406.289 35.2988 320.762 11.2193 22.1987 1063.16 55.3435 928.398 42.4208 51.3563 16.6599 473.635 44.1767 85.431 15.5039 31.8966 +ADAMTSL5 45.6292 52.3419 16.5901 161.115 200.071 102.688 281.392 107.094 94.0803 76.1947 158.397 54.6117 10.7466 53.287 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249.445 1011.62 823.755 191.336 153.336 247.846 190.275 770.413 324.428 168.083 302.036 304.276 203.681 143.386 436.858 433.257 138.595 414.224 +ADCY10 0.4803 0.8053 3.555 32.5329 1.1177 0 0.4144 0.68 4.7569 0 5.7252 3.6408 0.5656 1.1584 3.2245 0.9251 5.801 3.0511 1.8793 3.0172 +ADCY1 15.3698 31.4052 45.6229 108.443 16.2068 78.219 1031.91 70.3759 17.4419 47.2318 29.2621 52.7913 26.5837 17.3762 60.7282 41.6281 79.8751 20.595 39.4644 6.4655 +ADCY2 0 23.7552 4.1475 41.828 0 0 2.0721 0.68 4.7569 0.8912 3.1807 9.1019 0 2.3168 3.7619 17.5763 123.606 0 2.8189 0 +ADCY3 120.639 2660.36 1515.78 380.658 7727.41 1418.86 1587.4 491.054 474.355 1444.01 755.032 522.579 230.537 413.801 140.685 627.16 354.087 524.569 697.627 379.56 +ADCY4 99.4236 143.336 27.2552 79.7831 296.753 103.891 140.903 130.212 67.1247 19.1601 147.583 111.044 89.9321 69.1186 80.6127 225.717 28.5587 89.2449 71.8816 6.8966 +ADCY5 10.0865 31.8078 8.2951 10.8443 1102.07 22.0618 2.0721 19.0389 25.37 0.8912 18.4478 38.835 2.8281 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5707.68 5892.9 4667.43 5248.77 3609.91 +ADD2 2.8818 3.6237 37.3278 39.5043 3.3531 13.6382 486.117 12.5793 30.1268 21.8336 24.8092 15.1699 7.9186 2.703 4.8368 13.876 44.6229 32.0366 16.4435 110.776 +ADD3 414.986 638.572 148.719 561.58 726.514 1123.55 2233.32 662.961 257.928 1821.99 754.453 1518.2 365.385 703.543 426.172 1060.13 827.309 578.947 420.954 997.844999999999 +ADH1A 0.4803 1.2079 0 0 0.5589 0 0.4144 0 0 0 2.5445 48.5437 0.5656 3.4752 1.0748 12.951 0 3.8139 4.6981 0.431 +ADH1B 75.4083 225.07 481.114 2.3238 20.6777 22.864 14.0903 12.9192 40.6977 4.0102 715.013 9826.46 93.3258 500.82 124.144 4541.17 283.802 1507.25 724.924 52.1552 +ADH1C 37.9443 0 0 24.0124 0 0.8022 62.5777 20.0588 17.4419 0 68.7023 78.8835 0 67.188 0.5374 869.565 3.1236 1508.01 2.3491 0.8621 +ADH4 0 0 0.5925 0 0 0 4.5586 2.3799 0 0 0 16.9903 0 0.3861 0.5374 1623.5 0 51.8688 1.4094 0 +ADH5 3030.74 2584.48 1667.31 2083.66 1905.7 1239.07 2778.7 2366.94 6876.32 2109.84 1593.51 3400.49 1361.99 3142 3032.11 5325.62 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509.827 228.761 164.21 239.429 788.237 291.985 799.757 273.19 450.623 190.246 486.587 183.846 680.397 513.037 382.328 +ADM 123.439 97.4366 202.637 387.297 808.107 136.382 1078.33 355.279 1241.54 1149.16 204.198 94.6602 443.439 140.168 506.785 177.613 382.865 180.778 222.222 124.138 +ADM2 11.0471 551.604 20.1452 218.435 3.912 3.6101 24.8653 0.34 9.5137 127.437 1.2723 4.8544 8.4842 13.5148 4.8368 1.8501 70.5042 14.4928 15.9737 46.9828 +ADNP2 361.671 693.732 350.17 329.977 260.427 381.067 447.161 622.164 630.021 266.013 208.015 418.689 366.516 470.702 406.825 336.725 453.369 306.636 460.888 740.086 +ADNP 1452.45 2917.06 1506.15 2087.53 1568.71 1652.63 1094.49 3042.82 1655.39 1147.82 1830.15 1794.3 1338.24 2270.1 2530.16 1654.02 1815.71 1272.31 1206.95 1817.24 +ADO 828.53 896.658 857.947 487.994 527.002 630.967 931.62 1027.76 598.837 594.408 877.863 859.83 735.86 982.72 895.338 637.373 593.039 987.033 909.561000000001 694.828 +ADORA1 11.0471 80.1234 96.5783 69.7134 19.56 136.783 60.5056 43.5175 184.989 11.5852 15.2672 13.3495 141.968 24.7128 16.6599 42.5532 33.9134 6.865 711.299 55.6034 +ADORA2A 53.7944 68.4472 59.843 116.964 155.362 68.9932 159.552 91.1147 97.7801 63.7139 132.315 66.1408 63.3484 51.7424 34.3947 83.2562 58.456 144.928 78.459 39.6552 +ADORA2B 3.8425 14.4947 248.852 26.3362 15.648 151.223 276.419 13.2592 39.1121 303.442 38.1679 39.4417 41.2896 14.2871 11.8232 125.809 25.8813 8.3905 11.2755 4.7414 +ADORA3 267.051 21.742 55.6955 120.062 513.03 73.0044 894.322 25.1585 145.877 460.733 148.855 209.345 415.724 106.188 190.783 133.21 56.6711 536.232 179.469 15.9483 +ADPGK 1058.18 1288.26 1199.23 1227.63 666.079 858.223 1788.53 917.165 1347.01 2410.43 928.009 774.709 681.454 1085.43 980.567000000001 888.418 1071.76 1428.39 1188.09 471.94 +ADPRH 94.6206 123.608 142.794 41.828 305.136 158.845 250.311 73.4357 83.5095 365.824 117.048 234.223 86.5385 120.089 77.9256 198.89 129.406 266.972 120.742 100.431 +ADPRHL1 20.6532 146.155 71.6931 92.1766 64.8274 13.6382 12.0182 6.4596 47.0402 79.3138 12.0865 224.515 63.914 105.029 9.1361 0 21.8652 26.6972 285.177 38.7931 +ADPRHL2 1654.18 801.637 1681.53 1007.75 1222.22 1168.87 1212.6 1085.22 1457.72 1515.87 1316.16 759.709 1444 1178.88 1212.95 1322.85 1409.64 1651.41 1052.85 619.828 +ADRA1A 0 0.4026 0 0 0 0.8022 0.4144 7.8195 0 1.7823 0 1.8204 0 0.3861 0.5374 0 0 0 0 0.8621 +ADRA1B 1.9212 59.1867 72.2856 264.136 22.3543 82.6314 34.397 26.8584 51.797 1.3367 29.2621 16.9903 40.1584 186.118 174.661 64.7549 27.22 9.9161 34.2965 22.8448 +ADRA1D 0.9606 2.4158 4.1475 7.7459 0.5589 1.6045 6.6308 3.0598 15.3277 5.7926 13.3588 1.2136 6.2217 52.1286 0 21.2766 8.0321 1.5256 1.4094 4.3103 +ADRA2A 84.5341 1368.54 8.8876 877.614 19.0011 99.0774 25.6942 1789.66 562.896 5.7926 1573.79 13.9563 192.873 69.8909 438.533 351.526 746.096 633.105 257.928 417.672 +ADRA2B 164.745 103.073 47.4004 1450.81 484.529 91.8572 111.065 178.15 202.96 12.4763 191.476 55.8252 76.3575 38.9999 116.62 50.8788 30.3436 322.654 249.002 11.6379 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3739.74 3542.12 2998.15 5383.31 4758.96 3559.78 2901.29 +ADSL 467.819 854.784 540.364 432.998 613.625 510.229 874.016 456.253 566.596 1625.04 423.028 674.15 1122.74 511.632 683.058 256.244 1402.95 518.688 934.931 1200 +ADSS 1134.01 2108.17 838.393999999999 594.888 1060.71 1170.08 549.523 915.567 543.34 1892.84 635.496 635.922 757.919 1014 1039.9 607.771 667.113 903.127 808.081 1754.74 +ADSSL1 77.3295 72.4735 2639.02 356.313 145.862 106.699 58.8479 73.7757 749.471 968.252 157.761 50.3641 276.018 82.6335 145.103 299.723 1683.18 51.106 526.192 65.9483 +AEBP1 471.182 1758.69 251.815 493.416 163.186 272.363 4480.31 198.548 458.245 482.567 1776.72 121.966 257.353 1121.73 537.418 1329.32 1164.66 1879.48 128.729 284.914 +AEBP2 842.459 1689.44 1224.11 1317.58 1165.78 497.794 610.443 1686.3 948.203 930.823 1440.84 1321 479.072 951.828999999999 965.74 1342.28 984.828 943.554 883.251 1251.29 +AEN 1332.85 205.341 1118.65 151.046 369.404 650.221 518.442 377.038 947.674 741.45 1840.97 612.257 1213.8 933.681 589.01 312.673 2189.65 1909.23 712.239 705.603 +AES 22499 13970.5 16257.1 33804 24401.4 25427.6 7479.49 16941.9 24458.8 5129.55 10434.5 14202.1 26690.6 10350.8 16232.7 21778 9340.92 17070.2 10528.1 17809.1 +AFAP1 328.05 496.608 184.862 383.408 151.45 314.079 2316.62 385.534 203.462 777.529 256.361 173.544 153.846 309.296 278.382 507.854 388.666 263.921 303.5 242.668 +AFAP1L1 172.911 571.332 95.9858 151.82 331.402 296.029 167.841 377.378 64.482 131.001 240.458 218.447 178.733 103.871 123.606 235.893 656.403 117.468 215.175 296.983 +AFAP1L2 36.9837 49.1209 17.7751 41.0534 63.7097 103.49 283.879 220.987 51.797 526.234 93.5115 146.238 15.2715 70.2771 29.0206 246.069 189.201 115.179 123.561 16.3793 +AFARP1 0.4803 1.6105 11.2576 1.5492 1.6766 2.4067 0.4144 1.3599 1.5856 0.8912 2.5445 3.6408 4.5249 3.4752 3.7619 0 1.7849 0.7628 2.8189 0 +AFF1 1428.91 1707.56 1296.99 1020.14 1276.99 1073 822.213 1159.67 1146.41 671.939 1151.4 2711.16 464.932 1828.36 967.889 1815.91 1395.81 1970.25 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0 7.1101 15.4919 6.1474 8.4236 0.4144 5.7797 2.1142 4.4558 4.4529 13.3495 11.3122 15.4455 2.6871 18.5014 8.0321 2.2883 0.9396 4.3103 +ATOH8 285.783 148.973 26.0702 84.4307 241.985 27.6775 155.408 152.651 96.723 986.521000000001 115.776 97.6942 59.9548 176.851 298.804 446.808 64.7033 228.07 214.235 68.1034 +ATOX1 1121.52 598.309 1051.7 1631.29 1598.89 953.47 1685.04 1162.39 1267.44 2130.33 2846.69 1566.75 2088.8 1165.36 1431.14 2278.45 1574.3 1826.85 1669.72 1068.1 +ATP10A 3106.63 1665.28 65.768 144.074 17.8834 14.4404 161.21 3844.16 74.5243 129.665 177.481 23.665 83.1448 51.3563 20.9593 38.8529 1023.65 331.808 16.4435 25 +ATP10B 0 0.8053 29.0327 0 1.1177 0 0 0.34 454.017 0 0 10.9223 0 0.3861 7.5238 0 0 1.5256 46.9814 0 +ATP10D 1248.32 1384.65 546.882 424.477 558.298 5254.31 815.168 2488.66 684.989 299.432 251.272 390.17 1601.24 984.265 1438.67 308.048 1590.36 491.228 1019.03 2411.21 +ATP11A 439.001 1017.85 960.45 1378.78 628.155 332.932 492.333 702.399 837.209 437.117 216.285 578.884 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119.597 1585.16 311.658 2362.51 190.57 1155.64 5.3875 2410.46 706.131 3.5647 824.428 24.8786 1478.51 893.136 536.343 7.4006 130.745 1468.34 1523.14 368.103 +ATP2B3 297.791 1573.08 1659.01 7876.07 2.7943 32.8921 18.649 3489.22 587.738 4.0102 7104.96 1445.39 52.6018 5245.68 58.0411 2432.93 2443.11 12157.9 1752.41 130.172 +ATP2B4 836.215 6843.91 2945.93 8511.23 6047.39 5355.4 1559.88 1678.82 5446.62 1435.22 5477.74 1740.9 3313.35 2576.7 7394.33 2865.86 1601.52 2142.64 2153.63 3250.43 +ATP2C1 3905.62 4647.68 2143.11 2527.79 2317.95 1542.45 1404.62 2337.38 1460.6 2462.33 2778.14 2670.88 1003.86 1448.63 1761.27 2985.41 1575.58 1884.97 1566.87 1819.22 +ATP2C2 5.2834 0.8053 329.433 102.246 109.536 78.6201 4.1442 5.4397 213.002 5.7926 82.0611 4.2476 24.3213 17.3762 103.722 7.4006 142.793 22.8833 63.8948 6.4655 +ATP4A 57.6369 148.973 1806.55 248.644 85.5051 39.7112 1.2433 680.64 1786.47 0 1531.17 4.2476 423.642 2057.34 4963.59 3.7003 401.16 446.224 940.099 693.103 +ATP4B 0.9606 4.0263 0 0.7746 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1253.29 647.715 633.775 515.126 914.207 856.237 624.708 405.852 1018.81 636.878 1658.46 1168.88 604.995 1322.62 342.487 818.886 675.862 +CAMSAP1L1 1701.73 3105.49 859.725 890.008 557.739 767.75 896.394 1400.38 708.774 1332.29 727.099 918.689 1130.09 863.79 932.42 1280.3 749.665 1212.05 740.428 1356.9 +CAMTA1 1176.75 471.077 512.517 1828.81 620.89 991.175 455.035 435.855 766.913 1537.26 902.036 410.801 696.833 481.9 606.745 465.31 622.044 581.236 553.441 579.31 +CAMTA2 1553.31 1513.49 1207.52 1616.58 1161.86 377.858 1079.98 1272.55 936.575 547.622 966.921 1381.07 933.823 837.146 788.929 885.291 622.49 907.704 1072.59 970.259 +CAND1 1496.64 2563.14 2867.13 1733.54 2326.52 3227.44 2206.8 2843.93 3270.08 1179.46 2916.03 2999.39 1976.24 2789.46 3611.98 2277.52 2919.68 1685.74 4742.31 7859.05 +CAND2 309.318 900.282 62.213 405.112 228.572 213.398 48.9018 107.094 227.801 114.96 53.4351 88.5922 68.4389 48.6533 13.9729 58.2794 169.567 78.566 901.104 214.224 +CANT1 473.103 1685.81 1020.29 773.819 1512.27 988.769 2247.41 853.35 1362.05 1259.22 1053.44 1272.45 1049.21 721.691 829.772999999999 776.133 614.012 553.776 1260.04 1356.9 +CANX 13276.7 26432.3 22716 11665.4 13125.3 17929 9013.68 17154.7 8723.57 20622.5 16594.1 12931.4 14075.2 22561.3 13898.7 16005.6 15645.2 15465.3 24910 19455.6 +CAP1 3236.79 3629.31 2897.94 1770.72 4479.8 3511.43 6983.01 3455.9 3175.48 9179.01 3740.46 3033.98 2833.14 2561.64 3265.35 3201.67 2202.14 2930.59 3268.03 3890.95 +CAP2 380.404 860.824 443.194 222.308 578.976 1036.9 2.4865 191.409 383.721 623.816 426.209 162.621 274.887 476.108 172.511 295.097 176.707 315.027 637.068 1281.03 +CAPG 265.13 480.741 146.941 309.063 181.628 133.173 1120.6 64.9362 482.558 6004.23 258.27 460.558 1093.89 120.861 643.826 436.633 174.476 524.028 121.212 60.3448 +CAPN10 688.516 316.713 465.116 726.088 744.956 485.046 488.45 251.245 488.039 560.989 380.407 273.665 808.258 423.257 427.473 243.293 601.972 564.455 476.392 514.362 +CAPN11 47.0701 1.2079 3.555 0.7746 53.6502 4.0112 9.1173 0.68 12.1564 2.6735 10.1781 6.6748 10.181 8.495 8.0613 18.5014 1.7849 6.1022 15.5039 2.1552 +CAPN12 70.4179 71.7729 49.4208 399.822 240.571 95.4513 41.4712 70.1107 139.382 171.674 196.654 64.5024 220.158 78.0461 80.4622 129.75 72.7131 140.252 40.9114 101.19 +CAPN13 0 0 0 0.7746 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1.8793 0 +CAPN14 0 0 4.74 0 0 0 2.0721 1.3599 0.5285 0.4456 0.6361 0.6068 0 0 0.5374 0 0 0 1.8793 0 +CAPN1 2100.86 2133.94 537.402 1316.03 3457.09 1146.01 2780.36 811.193 501.057 3046.01 1467.56 2295.51 768.1 936.77 435.846 3143.39 784.471 1771.93 2058.73 2137.93 +CAPN2 5852.07 5125.48 5602.73 3604.96 4631.8 4072.2 2623.29 1496.59 7706.13 4866.21 3687.02 5318.57 3883.48 2938.89 11554.5 3332.1 1850.51 3694.13 5391.12 4898.71 +CAPN3 360.307 20.1315 55.8554 147.947 144.744 18.0505 68.794 25.0531 118.06 27.3142 222.144 103.762 48.6425 31.2772 57.6542 70.3053 81.66 250.656 123.011 12.5 +CAPN5 510.567 1430.14 1505.55 949.651 316.872 76.2134 946.954 4008.03 295.454 77.5315 2562.98 1093.45 102.376 1579.69 634.153 1598.52 2004.02 2672.77 926.474 781.466 +CAPN6 0 90.1892 8.8876 0 0 0.4011 6256.11 2.7198 82.4524 0 1.2723 1.8204 3.9593 1.9307 14.5103 0 0.8925 3.0511 45.1022 0.8621 +CAPN7 491.835 1617.37 543.919 329.202 858.963 432.812 439.287 483.792 648.52 205.414 326.336 757.888 341.629 577.662 436.383 639.223 516.287 294.432 393.704 749.138 +CAPN8 1.9212 0 39.1053 4.6476 0.5589 1.2034 0.4144 0 144.292 0 0 0.6068 2.8281 0.3861 3.2245 1.8501 4.4623 1.5256 16.9133 9.9138 +CAPN9 0 0.4026 86.5057 0.7746 1.1177 2.0056 0.4144 0 20.0846 0 3.8168 0 0 21.6237 161.225 18.5014 1.3387 1.5256 26.7794 0.8621 +CAPNS1 18033.6 4283.18 12058.7 12247.9 8574.54 8184.52 7142.15 8709.27 9319.77000000001 10890.1 10564.2 8177.18 7107.47 9285.84 11316.9 17842.7 6404.73 9108.31 4229.27 5380.6 +CAPNS2 0.4803 0.8053 0 0.7746 1.6766 0 1.2433 0 2.6427 0 0.6361 0.6068 0.5656 1.5446 0 0.9251 1.3387 0 0.9396 0 +CAPRIN1 3484.63 4441.82 2040.59 1820.29 4128.83 3008.02 3403.23 3473.92 2807.08 6628.94 2795.8 1785.19 3123.87 2406.02 2408.17 3046.25 2659.97 2025.93 2782.71 4851.72 +CAPRIN2 1050.43 579.385 532.662 2324.55 449.88 1458.48 370.908 666.701 447.674 315.473 1010.18 824.636 243.778 791.582 371.893 389.454 479.25 737.605 491.426 778.448 +CAPS2 24.976 37.042 82.3582 77.4593 49.7382 27.2764 34.8114 118.313 44.3975 5.347 74.4275 259.709 17.5339 210.445 24.1838 59.2044 161.089 96.1098 99.1308 95.6897 +CAPS 940.442 258.891 501.852 622.773 257.074 361.813 123.083 675.541 419.133 137.24 514.631 225.728 259.615 308.138 396.077 440.333 499.777 604.882 343.434 209.914 +CAPSL 0 0 1.185 0 0 0 1.2433 1.3599 0.5285 1.3367 0.6361 7.2816 0 0.3861 0 1.8501 0 0 0 0 +CAPZA1 3361.67 1791.71 1568.95 1719.6 1881.67 1529.88 3313.72 2095.3 2127.38 3517.43 2274.17 1255.46 1195.7 1577.37 2183.53 2675.3 1749.22 1847.44 2407.33 2128.02 +CAPZA2 1541.79 3682.46 2194.05 1216.89 2598.68 1625.35 2809.37 2592.69 2044.93 1841.6 1282.44 4107.4 990.949999999999 2500.63 2640.87 1904.72 2252.12 1990.08 5336.15 1526.72 +CAPZA3 0 0 0 1.5492 0 0 0 0.68 0 0.4456 0 0 0 0 0 0 0 0 0 0 +CAPZB 5505.76 2690.78 3640.94 5014.72 4277.49 3508.62 6514.3 4620.67 4599.89 8241.95 5395.04 2933.86 4955.88 3014.58 4315.46 4471.79 2971.44 5035.85 4258.4 3002.59 +CARD10 278.098 111.126 216.857 399.853 766.192 170.076 240.365 111.513 670.19 85.9975 319.338 277.306 88.8009 306.979 70.4017 330.37 575.19 237.224 515.856 532.289 +CARD11 55.2354 14.8973 13.6276 98.3734 40.2377 16.8472 60.92 11.8993 30.6554 153.281 33.715 134.102 1199.66 36.2969 49.9798 104.533 26.7738 187.643 96.312 3.0172 +CARD14 100.865 31.4052 60.4355 154.919 204.542 96.2696 13.6759 25.4985 54.9683 21.8336 152.672 31.5534 137.443 32.4356 198.307 18.5014 40.6069 24.4088 22.5511 53.0172 +CARD16 35.5427 18.521 10.6651 71.2626 123.507 11.2314 360.133 24.1386 191.332 2990.31 81.4249 70.9951 73.5294 19.693 30.0954 95.2821 12.9407 394.356 37.5852 2.1552 +CARD17 0 0 0 0 0 0 0 0 0 56.5891 0 0 0 0 0 0 0 0 0 0 +CARD18 0 0 0 0 0 0 0 0 0 0.4456 0 0 0 0 0 0 0 5.3394 0 0 +CARD6 378.962 196.484 572.952 320.682 254.839 224.629 711.977 192.089 298.626 443.801 703.562 834.345 1140.84 63.7127 48.3676 1555.04 553.771 585.05 1414.61 566.379 +CARD8 372.719 311.636 994.816 1731.22 475.028 1993.18 492.333 940.045 681.29 608.221 751.272 404.733 774.321 493.87 555.69 675.301 430.611 962.623999999999 287.526 909.052000000001 +CARD9 22.0941 9.2605 1.7775 18.5902 22.9131 7.6213 196.85 4.7597 9.5137 70.4021 14.631 70.3883 33.371 10.8119 10.2109 15.7262 16.0643 93.8215 5.6378 1.7241 +CARHSP1 2843.05 891.492 5150.43 3693.08 4161.19 3149.69 1445.54 1173.31 3887.75 2222.11 5042.89 4013.95 4107.68 3174.6 2809.17 5069.73 2463.21 4788.31 2467.91 1818.95 +CARKD 3865.03 2597.77 2332.69 3312.16 2664.63 1164.46 1207.63 4773.66 1934.99 607.33 2270.36 1361.04 1942.87 2930.78 1713.29 866.79 2390 2080.09 5826.17 2623.28 +CARM1 915.466 1000.94 1429.71 2113.09 981.352 1126.75 2014.5 1563.23 1742.6 716.052 1562.34 1026.09 966.629 1338.35 1609.57 1881.59 1223.56 1390.54 473.573 1526.72 +CARNS1 10.0865 12.0789 30.2177 94.5004 19.56 19.2539 9.9461 9.5194 9.5137 31.6364 5.7252 15.1699 6.2217 11.9703 35.4696 19.4265 18.2954 12.9672 9.8661 4.7414 +CARS2 1234.68 792.067 855.014 1074.08 1445.94 276.213 575.814 582.648 897.986 921.239 474.218 566.869 754.604 549.35 583.56 224.792 367.479 726.911 1077.54 540.72 +CARS 569.164 1273.12 780.909 676.22 548.238 659.447 2348.11 753.396 865.222 1420.52 711.832 760.922 546.946 928.661 714.766 570.768 711.29 756.674 658.68 659.914 +CARTPT 1.4409 0 0 1.5492 0 0 0 0 9.5137 0 0.6361 0 4.5249 0 9.1361 0 0 3.0511 0.9396 0 +CASC1 4.3228 57.1735 10.6651 29.4345 18.4423 1.6045 2.901 35.6979 20.6131 4.4558 40.0763 26.0922 20.362 50.9702 49.4424 34.2276 63.3646 86.1937 13.6246 5.1724 +CASC2 29.7791 66.434 87.6907 61.1929 62.0331 64.5808 4.1442 67.996 41.7548 46.3406 100.509 123.18 32.8054 163.336 122.531 71.2303 170.906 144.928 125.91 32.3276 +CASC3 1796.35 2027.24 960.45 649.884 1399.94 515.443 1413.18 1040.68 881.607 1507.41 805.98 1578.28 1135.75 781.543 1101.17 942.646 805.444 971.014 810.9 1665.95 +CASC4 3658.5 3906.72 8754.25999999999 2020.91 5979.77 6901.72 2388.73 3317.87 9176 2566.56 3578.24 3041.87 2084.84 5541.08 3973.67 4122.11 2671.13 5199.85 8021.61 2953.88 +CASC5 5.7637 73.6814 21.9227 24.0124 1.1177 187.726 33.9826 18.019 207.188 159.519 39.4402 6.068 26.0181 7.3366 74.7011 2.7752 53.9938 16.0183 57.7872 154.31 +CASD1 795.389 1152.33 924.9 364.059 1154.6 432.411 418.152 788.754 530.127 498.162 448.473 487.864 141.968 825.176 357.383 420.907 645.694 568.269 1168.43 687.931 +CASK 897.213999999999 1712.39 3311.51 2261.04 439.82 1083.03 1759.22 1723.36 2747.36 955.776 2103.69 891.384 756.787 1814.07 1973.94 1426.46 1103.08 1982.46 2411.56 1489.22 +CASKIN1 18.5447 11.5958 49.1542 558.42 26.5848 9.1617 5.748 103.174 11.2791 5.0485 7.2265 12.6396 22.0475 48.3753 10.5764 23.4228 36.1044 1.9451 6.3472 40.694 +CASKIN2 1244.2 1406.87 1410.29 2570.87 1504.63 1480.73 768.831 2233.29 1428.67 448.462 2508.07 1236.89 1799.26 624.863 2587.9 2232.41 703.521 1438.95 1731.63 697.789 +CASP10 73.9673 194.873 132.721 77.4593 228.572 527.878 300.456 77.5155 154.334 494.152 195.293 121.359 223.416 92.673 57.5037 203.515 36.5908 244.851 219.403 276.724 +CASP12 5.7637 2.8184 4.1475 0 1.6766 3.209 17.8201 11.2193 0 0.4456 4.4529 4.2476 2.2624 2.3168 2.1497 2.7752 0.4462 3.8139 0.4698 0.431 +CASP14 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CASP1 49.952 51.5367 37.3278 68.1642 220.19 20.0562 716.95 47.5972 162.791 3496.05 132.315 148.058 71.267 32.4356 62.3405 210.916 33.9134 463.005 76.1099 6.0345 +CASP2 712.296000000001 916.387 1113.32 941.905 259.868 731.247 1053.05 683.36 1013.21 1084.55 567.43 578.277 434.389 866.879 776.031 785.384 1186.97 749.047 571.294 406.897 +CASP3 861.672 645.819 404.681 1040.28 497.941 967.509 1111.07 876.809 335.624 493.261 841.603 410.801 1188.91 596.969 570.738 750.231 581.883 550.725 771.435 842.241 +CASP4 187.8 437.257 572.36 369.481 960.675 882.07 1555.33 273.684 968.816 2825.44 711.196 561.286 690.045 522.444 305.253 800.185 431.504 1088.48 506.46 510.345 +CASP5 0.4803 0.8053 0 3.0984 1.1177 0 33.5682 0 7.9281 37.8746 0.6361 1.8204 1.1312 0 0 0.9251 0.4462 6.865 0.9396 0 +CASP6 205.572 148.973 237.002 1013.17 220.19 328.119 250.311 86.015 171.776 259.775 209.287 297.33 360.294 184.574 164.987 449.584 66.9344 239.512 325.581 158.19 +CASP7 79.2507 274.191 277.885 346.243 438.144 592.058 920.017 225.067 332.452 787.791 298.982 428.398 503.394 306.979 325.138 309.898 221.776 458.429 159.737 941.379 +CASP8 330.932 450.141 343.06 211.464 623.684 929.001 390.385 235.946 231.501 909.881000000001 340.331 365.291 743.778 490.395 263.872 636.448 132.53 437.834 436.458 759.914 +CASP8AP2 119.116 489.196 211.524 258.714 171.01 250.702 200.166 179.85 349.366 288.292 285.623 137.743 158.371 147.891 162.838 175.763 151.718 178.49 242.424 402.155 +CASP9 981.268 296.336 494.741 524.4 508.001 738.067 336.096 404.916 602.537 511.084 367.048 322.815 791.29 360.266 806.127 301.573 475.234 425.629 397.463 896.983 +CASQ1 3.8425 4.4289 2.37 3.0984 102.83 0 2.901 0 7.9281 0 54.0712 0.6068 0.5656 1.5446 0 0.9251 1.7849 3.0511 3.2887 3.0172 +CASQ2 21.1335 4.0263 0.5925 15.4919 3.912 52.9483 26.9374 59.1566 7.3996 1.7823 8.2697 37.6214 0 0.3861 2.1497 61.9796 7.1397 10.6789 2.3491 3.8793 +CASR 1.4409 0 0.5925 32.5329 101.153 0.4011 1.6577 1.0199 0.5285 0 2.5445 0 2.2624 0.3861 0 0 0 0 1.4094 3.0172 +CASS4 4.8031 14.8973 23.7002 28.66 8.3829 4.8135 51.8027 2.7198 5.814 12.0307 15.2672 40.6553 2.2624 5.4059 7.5238 15.7262 18.2954 22.1205 2.8189 2.5862 +CAST 5939.76 5269.04 7446.99 2811.61 5234.77 3256.02 3299.64 2652.14 6677.23 8421.44 5636.54 5520.51 2282.91 4958.64 5816.26 6175.59 3960.65 4382.23 5168.66 5161.63 +CASZ1 87.8963 131.66 35.5503 84.4307 516.942 359.808 25.2797 77.8555 44.926 255.319 26.0814 26.0922 185.52 60.6236 26.8709 60.1295 369.032 93.0587 63.4249 128.879 +CAT 2259.85 1901.62 1914.98 1006.2 3013.91 2464.5 1438.46 2174.85 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117.293 119.45 94.018 45.1654 90.4126 184.389 111.208 192.933 89.7317 80.3213 83.9054 137.656 293.534 +CEP78 147.935 159.442 125.019 344.694 86.6228 252.306 179.445 160.131 273.784 272.251 129.771 294.903 145.362 338.257 386.403 183.164 532.798 122.044 111.816 240.948 +CEP97 276.657 218.226 116.131 75.9101 31.296 249.499 73.7671 107.094 80.3383 53.47 103.053 114.684 85.9729 81.0889 76.8507 144.311 52.2088 45.0038 65.3042 132.328 +CEPT1 824.207 532.277 489.409 521.301 628.714 536.703 554.496 547.708 525.37 1179.46 518.448 525.485 372.738 503.137 766.895 409.806 607.764 509.535 586.328 450 +CER1 0 0 0 0.7746 0 0 0.4144 0 0 0 0 0 0 0 0 0 0.4462 0 0 0 +CERCAM 138.809 529.862 437.861 4151.05 508.56 897.714 7481.97 838.051 135.307 847.054 92.2392 54.0049 1147.62 240.564 186.484 3148.94 527.443 84.6682 73.7609 754.31 +CERK 256.484 1019.46 1240.11 1051.12 615.86 326.514 1496.89 618.084 1099.37 835.023 322.519 998.18 524.321 979.631 1394.06 395.005 766.176 507.246 1226.69 1219.83 +CERKL 12.9635 14.7725 3.3121 19.7057 9.2267 12.0297 355.193 18.5289 25.7241 146.65 40.5662 35.3398 35.2036 7.8386 7.2444 30.1295 18.4516 84.2258 22.0296 1.1466 +CES1 4.8031 2.8184 139.239 5.4222 17731.4 4.8135 934.107 0 76.1099 124.763 0.6361 2.4272 0.5656 30.5049 106.946 0 11.602 4.5767 253.7 88.7931 +CES2 1288.18 1023.49 8104.87 2397.37 4901.73 2148.42 1037.71 2710.32 5860.47 1697.67 5232.82 8515.17 2140.27 8870.74 33737.5 5650.32 2683.62 2174.68 2297.86 921.121000000001 +CES3 7.6849 1.6105 94.2083 349.342 11.1771 67.3887 22.3788 4.4197 102.537 22.7247 92.2392 56.432 3.9593 14.6732 14.5103 8.3256 6.2472 79.3288 0.4698 3.8793 +CES4 0 0 0.5925 0 177.716 0 6.6308 0 0.5285 0.4456 0 0 0 0 0.5374 0 0.4462 0 301.151 0 +CES7 0 0 55.1029 3.873 0.5589 0 0.4144 0 97.7801 0 17.1756 0 0 2.703 8.0613 0 1.3387 62.5477 555.321 0 +CES8 47.0701 50.3288 11.8501 13.1681 101.153 1.2034 20.7211 0.68 56.0254 60.5993 10.8142 139.563 3.3937 344.821 1.6123 14.8011 3.5698 32.7994 106.648 0 +CETN1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CETN2 1844.38 843.108 2885.5 1978.31 1127.77 4113.12 627.435 1268.47 2737.32 1454.38 2181.93 2016.99 2070.7 2600.64 2377.54 2940.8 2011.6 2694.13 1877.38 1797.84 +CETN3 392.411 225.473 538.587 1193.65 450.997 408.343 226.274 644.263 702.96 492.815 814.885 529.733 350.113 659.523 596.534 892.692 1132.98 775.744 489.547 304.741 +CETN4P 0 2.8184 3.555 0.7746 10.6183 0.8022 4.5586 0.34 1.5856 0.8912 6.9975 11.5291 1.6968 8.1089 9.1361 21.2766 8.4784 4.5767 5.6378 3.4483 +CETP 16.3305 37.8473 43.8454 24.0124 9.5006 76.2134 396.187 39.0977 68.1818 45.4495 45.1654 11.5291 46.9457 20.0792 10.7484 75.8557 7.5859 25.1716 90.6742 3.4483 +CFB 26.4169 115.845 1003.7 29.4345 70.4159 8.8247 691.003 1.6999 19.556 4272.47 188.931 52.7913 10.181 32.4356 21.9051 1888.99 62.4721 531.655 11.7454 2.1552 +CFC1B 0 0 0 0 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 0 0 0 +CFD 41.3064 49.9262 96.5783 263.362 493.471 111.512 1101.12 38.4178 141.649 189.818 232.824 101.942 100.113 91.5146 97.81 333.95 228.469 113.654 66.2438 69.3966 +CFDP1 2221.9 820.561 1714.12 1433.77 882.994 940.232999999999 992.540000000001 1384.74 1989.96 1040.88 2197.84 1255.46 2070.7 859.541999999999 1821.85 2128.58 1933.07 2076.28 1129.9 881.034 +CFH 187.8 1134.61 528.514 62.7421 141.391 83.0325 2942.4 133.952 203.488 3594.52 492.366 138.956 329.185 589.632 812.038 1316.37 585.899 1461.48 275.311 93.5345 +CFHR1 0 0 0 0 0 0 9.1173 0 0 0 1.9084 0 0 0.7723 3.2245 3.7003 0 0 0 0 +CFHR2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CFHR3 0.4803 1.2079 0.5925 0 0 0 2.901 0.34 0 0.8912 0.6361 0 0 0.3861 0.5374 0 0.4462 0.7628 0.9396 0 +CFHR4 0 0.4026 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CFHR5 0 0 0 0 0 0 0.8288 0 0 0 0 0 0 0 0 0 0 0 0 0 +CFI 204.131 1399.14 5557.7 4196.75 328.049 2621.34 1806.46 997.502 356.765 704.913 365.776 1349.51 1774.89 2384.01 953.916 5339.5 731.816 3215.1 2055.91 614.655 +CFL1 8596.06 6839.48 9753.81 9006.2 9089.8 12581.2 20925 7704.63 12912.8 31089.7 12768.4 7445.39 13270.4 9533.35 7976.35 11767.8 9270.42 10186.9 7742.54 14238.4 +CFL2 2346.3 2221.31 2448.23 1271.88 1943.7 1925.39 576.046 2678.7 1763.21 960.677 1625.32 2093.45 2766.4 1087.36 1435.44 4017.58 1369.48 999.999999999999 3861.4 2406.9 +CFLAR 296.35 741.242 751.889 439.969 835.491 1198.96 736.428 440.274 562.896 921.912 391.221 672.33 939.479999999999 617.82 621.255 479.186 517.18 440.122 451.492 792.431 +CFLP1 6.244 3.221 5.3325 0.7746 2.2354 2.4067 1.6577 0.34 6.871 1.3367 2.5445 0.6068 0.5656 2.3168 2.6871 7.4006 2.6774 6.865 2.8189 2.5862 +CFP 31.7003 13.6894 46.2154 679.318 158.156 20.8584 88.2719 33.998 47.5687 30.2997 74.4275 14.5631 15.8371 33.594 25.796 37.9278 50.8701 110.603 50.2701 3.8793 +CFTR 0 1.6105 0.5925 0 0 0 0 0 0 0 0 0 0 0.3861 0 0 0 0.7628 1.4094 0 +CG030 45.6292 13.6894 20.1452 14.7173 7.824 7.6213 27.7663 11.5593 9.5137 36.0922 21.6285 22.4515 4.5249 17.7623 14.5103 12.0259 19.1879 52.6316 12.685 21.1207 +CGA 0 0 0.5925 0 0 0 0 0 7.3996 0 0 0 5.6561 0 0 0 0 0 6.1076 0.431 +CGB 0.4803 0.4026 5.925 68.1642 1.1177 0.4011 0 0.68 16.3848 2.2279 0 0 0.5656 0 0 0 1.7849 0 0 0 +CGB1 0 0 2.37 35.6313 0 0 0 0.34 11.0994 0 0 0 0 0 0 0 2.6774 0 0 0.431 +CGB2 0 0 25.4777 178.156 0.5589 0 0 0 47.0402 2.2279 0 0 0 0 0 0 2.6774 0.7628 0 0.431 +CGB5 0 0 0 0.7746 0.5589 0 0 0.34 0 0 0 0 0 0 0 0 0 0 0 0 +CGB7 0 0.4026 1.185 6.1967 1.1177 0.8022 0.8288 0.34 0.5285 1.7823 2.5445 0.6068 0 0.3861 0 0 0 0.7628 1.9544 2.1552 +CGB8 0 0 0 0 0 0 0 0 0 2.6735 0 0 0 0 0 0 0 0 0 0 +CGGBP1 2430.84 2766.47 1396.53 1498.84 1484.32 1293.22 1778.28 1702.28 1346.19 1382.2 1497.46 2222.09 1192.87 1267.3 1197.9 2285.85 1302.1 1711.67 1617.57 2117.67 +CGN 9.1258 29.392 26.0702 48.7994 465.528 18.4517 12.8471 8.1595 70.8245 5.7926 19.7201 39.4417 4.5249 11.9703 3.2245 14.8011 108.434 19.0694 272.492 18.5345 +CGNL1 2531.22 1032.34 722.263 115.414 798.047 14.8416 588.894 5204.42 23.2558 1.3367 1272.9 179.005 96.1538 2838.11 152.089 516.189 2456.49 1114.42 239.136 1157.33 +CGREF1 8.5639 43.7458 53.9179 185.871 12.6916 58.6643 6.552 90.4823 7.5264 176.032 21.9275 44.8483 5.3281 40.6757 80.0161 32.9232 79.2771 23.6995 4.0357 2.2069 +CGRRF1 195.005 276.607 341.283 195.972 133.567 190.935 231.247 219.967 240.486 139.022 277.354 195.995 230.769 164.881 311.165 191.489 319.054 152.555 567.066 177.586 +CH25H 19.6926 44.2893 4.1475 4.6476 69.2982 14.4404 1585.16 12.5793 21.1416 16.4866 34.9873 242.112 75.2262 6.9505 46.7553 555.042 58.456 26.6972 9.8661 9.0517 +CHAC1 33.1412 33.0157 90.0607 178.931 10.0594 59.7673 28.5951 15.2991 126.85 70.4021 82.6972 16.3835 44.6833 33.9801 48.3676 19.4265 37.4833 308.162 168.194 16.3793 +CHAC2 71.0855 50.7314 111.391 37.9551 79.9165 211.793 52.2172 36.3779 89.852 139.913 62.341 34.5874 119.344 69.5048 104.259 49.0287 106.203 102.975 125.441 171.983 +CHAD 97.5024 23.3526 12.4426 5.4222 141.95 6.8191 2.0721 6.4596 4.7569 0.4456 31.8066 24.2718 501.131 6.5643 6.9864 6.4755 70.5042 22.1205 28.1889 32.3276 +CHADL 11.5274 99.4497 2.37 28.66 13.9714 8.4236 27.3518 7.1396 2.1142 53.0244 10.1781 11.5352 6.2217 2.703 6.9864 9.2599 6.2472 12.9672 2.8189 4.3103 +CHAF1A 323.247 453.362 482.299 897.754 285.576 1206.58 681.724 693.9 1126.32 479.893 611.323 483.01 905.543 427.841 794.841 233.118 1001.34 345.538 296.923 968.103 +CHAF1B 38.9049 114.347 93.6158 157.242 51.4148 294.023 172.399 89.7548 133.192 479.893 124.682 57.0388 292.986 43.2474 255.811 145.236 462.74 81.6171 53.089 185.776 +CHAT 0 0 0 3.0984 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4.2283 0 +CHCHD10 824.688 738.827 1048.14 2213.79 997 606.498 222.13 376.698 798.626000000001 1241.39 404.58 1495.75 1041.29 788.107 881.365 366.327 972.78 375.286 945.736 430.172 +CHCHD1 1513.93 997.316 677.233 2096.05 921.555 1817.09 867.385 1159.33 811.311 1318.93 2068.07 1866.5 1605.2 930.206 855.032 1815.91 702.811 1783.37 969.697 1040.09 +CHCHD2 8379.44000000001 5310.29 14643.8 8724.24000000001 8470.03 17168.9 9284.29 5719.83 18108.4 4763.28 9637.4 10037 16069.6 18342.7 24711.5 8555.04000000001 9000 9532.42000000001 17268 11488.8 +CHCHD3 431.796 1183.73 1017.33 473.276 918.202 1231.45 1337.75 1013.82 1243.13 1235.16 696.565 1847.09 620.475 1125.59 1488.65 508.788 1469.88 705.568 1761.33 753.448 +CHCHD4 164.265 474.299 293.29 150.271 424.731 235.86 224.617 219.287 339.324 286.956 367.685 922.33 295.249 278.019 322.451 354.302 325.301 279.176 450.082 361.638 +CHCHD5 601.345 248.826 300.4 368.706 827.108 451.665 463.324 319.921 366.279 509.747 468.829 544.903 661.199 313.544 597.071 598.52 374.386 495.042 400.282 515.086 +CHCHD6 247.839 308.817 300.992 175.058 142.508 235.86 144.633 220.307 277.484 122.981 407.761 526.092 265.837 159.861 317.614 380.204 219.545 196.034 289.875 195.69 +CHCHD7 366.955 346.262 446.749 491.092 585.123 264.741 610.029 184.949 385.307 346.218 508.27 633.495 219.457 364.128 489.587 282.146 414.101 443.936 391.825 504.31 +CHCHD8 2024.5 738.827 946.23 1037.96 1740.28 2535.9 839.204 857.77 1601.48 1979.28 1470.74 1425.36 3584.84 673.81 1341.39 1125.81 1021.87 1254 1329.57 936.637999999999 +CHD1 680.115 81.734 757.221 1044.93 447.085 463.698 453.377 571.847 616.279 863.54 848.601 404.126 320.136 696.592 550.316 547.641 720.66 428.68 694.386 510.345 +CHD1L 467.339 839.082 380.388 536.793 286.135 371.039 595.524 250.905 354.123 1805.5 358.142 434.466 269.796 295.781 242.913 150.786 288.264 442.41 290.345 640.948 +CHD2 1839.1 1708.76 1487.78 2851.28 1141.74 987.164 1556.57 1292.26 1623.15 1444.13 1704.83 1081.31 936.652 1457.28 1111.38 1212.77 1316.82 2416.48 1650.93 1082.33 +CHD3 2539.39 2272.04 2316.1 3760.65 2399.17 2562.37 2582.26 3847.22 1417.02 1157.62 3229.01 3637.14 1270.93 1494.74 2344.75 1677.15 1683.62 1900.84 1976.98 1796.55 +CHD4 4156.63 7746.04 7472.64 5743.08 4624.65 3412.93 5411.95 5927.34 7447.86 4441.81 6267.7 6656.35 4880.79 3533.9 5727.93 7563.08 4471.35 5471.12 9331.94000000001 4236 +CHD5 45.1489 130.855 4.74 158.017 0.5589 1.6045 3.7298 91.7947 13.2135 0.8912 4.4529 1.8204 36.1991 9.2673 19.8845 2.7752 5.801 6.1022 0.9396 2.5862 +CHD6 731.508 2051 1023.85 1278.85 553.268 598.075 526.73 1662.16 705.074 643.422 1247.46 1142.6 588.235 1588.96 838.909 1381.13 1309.68 849.733 708.48 1338.79 +CHD7 126.321 153 81.7657 381.1 545.444 28.4797 107.75 112.873 125.793 920.129 398.855 144.417 13.009 67.188 75.7759 101.758 93.2619 188.406 83.1572 11.2069 +CHD8 1021.61 1548.11 1954.08 1604.96 635.42 792.619 1073.77 2761.32 1476.74 1400.47 1447.2 720.874 1529.98 763.008 1106.54 1072.16 1484.16 704.043 1617.1 1979.74 +CHD9 817.963 1723.26 1537.55 1934.16 475.587 613.317 624.534 1311.64 798.626000000001 706.695 933.841999999999 820.995 501.131 1566.56 735.725 1029.6 1150.83 938.215 674.654 987.5 +CHDH 15.8501 130.855 20.1452 66.615 17.3246 0.4011 12.8471 0.68 19.556 12.0307 10.1781 1401.09 1.1312 42.8613 1.6123 12.951 32.1285 2.2883 55.4381 0.8621 +CHEK1 85.4947 125.218 73.4706 118.513 120.713 462.094 196.022 47.9372 252.114 470.981 122.773 89.8058 328.054 97.3067 93.5107 135.06 224.9 104.5 65.774 408.621 +CHEK2 196.926 99.8523 879.277 230.829 177.158 601.685 582.677 57.4567 533.298 622.034 109.415 52.1845 735.86 403.9 1880.42 131.36 484.159 269.26 209.537 314.224 +CHERP 1506.96 1238.41 2446.44 2390.43 1419.45 1775.66 1371.79 2878.17 2349.2 1031.31 2114.52 1328.62 1608.17 2165.58 2516.26 1768.91 2663.03 1813.84 1246.26 1757.18 +CHFR 585.495 839.082 409.421 1208.37 510.236 637.385 1250.73 698.319 447.674 509.747 800.891 544.296 500.566 291.148 749.698 458.834 465.417 594.966 432.229 481.897 +CHGA 27.3775 25.3657 24.2927 7.7459 1.1177 0 0 0.34 13.7421 0 4.4529 16.9903 9.0498 3.4752 3.2245 0.9251 20.5266 2.2883 8.9265 2.1552 +CHGB 10147.9 793.182 10926.4 2635.94 1083.06 3492.18 122.254 8120.77 2288.58 783.781 45320.6 7646.84 47420.2 7704.6 905.011 23415.4 1895.14 50627 880.902 51.2931 +CHI3L1 1.9212 64.0182 0.5925 0 0.5589 0.4011 1048.07 1.0199 18.4989 914.337 1.2723 7.8883 3.3937 2.3168 3.7619 862.165 5.3548 24.4088 9.8661 1.7241 +CHI3L2 0.4803 0.4026 338.32 3.0984 4.4709 0 211.355 1.0199 23.2558 228.584 0.6361 323.422 1.6968 0.7723 39.7689 179.464 2.2311 2.2883 29.5983 0.431 +CHIA 0 0 0 0 0 2.0056 0 0.68 0 0 0.6361 0.6068 0.5656 0 0 0 0 0.7628 9.3963 0 +CHIC1 618.156 713.461 828.914 506.584 287.252 255.515 299.213 890.748 389.006 184.917 900.127 907.766999999999 188.914 909.354 377.805 1252.54 481.481 1138.06 1531.6 351.724 +CHIC2 146.494 196.081 129.759 245.546 268.251 281.588 361.79 265.865 258.457 181.352 170.483 117.112 248.869 406.989 244.525 226.642 428.826 214.34 138.595 347.845 +CHID1 1811.72 2373.91 2703.6 1780.79 4346.79 4944.65 3671.36 2031.72 1546.51 2204.75 2311.7 1666.87 2434.39 2618.4 1582.7 3007.4 1433.73 2558.35 1729.86 2071.12 +CHIT1 43.2277 107.1 34.9578 0 5.0297 1.6045 90.344 0 49.1543 7.5749 15.2672 10.9223 4.5249 1.9307 9.1361 1.8501 6.6934 0.7628 12.2152 0.431 +CHKA 1184.92 793.585 449.711 2564.68 1039.47 1889.69 688.769 1267.79 1162.79 716.498 859.415 683.252 2464.93 699.681 604.058 450.509 691.655 1073.23 881.842 991.810000000001 +CHKB 410.336 353.993 193.915 276.53 397.459 129.543 259.78 89.7072 137.019 781.326 129.173 98.5498 322.2 96.7082 110.262 114.44 185.404 303.013 358.276 459.172 +CHKB-CPT1B 472.142 141.919 237.885 992.006 351.426 118.227 237.319 103.028 203.816 474.332 157.602 190.182 29.0441 234.208 107.526 113.941 374.056 766.201 68.7996 222.06 +CHL1 1031.22 107.502 4.1475 6.9713 0.5589 0 5.3875 1425.88 2.6427 558.761 0.6361 0 30.543 678.83 3.2245 53.654 3348.51 7.6278 4.2283 8163.36 +CHM 147.454 1100.79 698.563 411.309 239.191 469.314 376.709 368.539 872.622 290.52 410.305 695.995 209.276 623.999 480.451 523.589 524.319 459.192 944.797 779.31 +CHML 364.073 1892.36 161.161 173.509 63.7097 95.8684 24.4509 317.541 85.6237 411.273 229.644 535.194 468.891 284.197 452.506 293.247 403.391 836.766 170.073 972.845 +CHMP1A 2520.17 2278.08 3402.16 4473.28 2096.83 1898.52 3765.44 2970.41 3109.94 3064.28 3129.77 3062.5 2533.37 3064.77 3659.28 3700.28 4112 2348.59 1575.29 2012.07 +CHMP1B 1052.35 1460.74 1628.8 1619.67 997.558999999999 847.974 2900.95 3386.88 1449.79 1242.29 1174.3 1780.34 815.611 2428.81 1259.71 1805.74 1444 1826.09 1611.93 2033.19 +CHMP2A 4234.87 1964.84 5154.79 7587.14 4631.25 4148.82 2151.26 4977.99 4644.82 1458.39 6454.83 4604.37 5358.6 4586.16 4870.62 7852.91 4361.45 7318.84 2805.26 2654.74 +CHMP2B 706.532 1366.93 654.125 381.875 621.449 403.129 679.652 689.82 487.315 249.527 631.043 1765.17 390.837 664.157 740.562 987.049 516.287 444.699 1157.62 590.948 +CHMP4A 999.433 788.636 1415.68 1226.82 1041.07 725.696 1007.29 1833.05 1794.2 1433.82 1355.89 942.136 1954.24 632.432 2150.79 815.513 1260.67 842.136000000001 1607.58 978.345 +CHMP4B 4434.2 4427.32 3153.31 2432.22 5919.41 2707.18 4938.25 6087.69 3421.78 4283.84 6068.7 5287.01 5977.38 5881.65 4371.36 7443.11 5381.97 6518.69 3540.99 5713.36 +CHMP4C 266.571 521.809 21.9227 70.488 388.964 239.069 2.4865 246.826 105.708 130.11 360.051 280.34 141.403 515.88 11.8232 253.469 42.838 183.066 270.143 307.759 +CHMP5 1418.52 1347.93 1119.13 1015.3 2070.95 1896.39 1410.17 743.85 2236.84 1921.21 1079.54 3025.98 1343.72 1878.27 3078.37 1787.03 1057.66 959.207 1703.39 1143.9 +CHMP6 650.817 464.635 519.627 787.761 928.261000000001 559.567 1363.03 675.201 665.962 477.665 541.349 1049.76 954.186 543.682 361.682 858.464 481.928 329.519 567.066 621.121 +CHMP7 1466.38 853.173999999999 1218.78 1100.7 1062.95 1518.65 1525.9 2384.28 755.285 687.98 1389.31 1979.37 1537.33 1333.72 888.889 1167.44 741.187 1775.74 1377.03 1379.31 +CHN1 2028.82 1290.83 290.327 124.71 977.439999999999 1311.27 1312.89 540.569 235.729 521.332 297.074 397.452 907.805 1034.46 586.86 751.156 2028.11 598.78 389.006 1865.95 +CHN2 29.2988 9.6631 68.1381 21.6886 649.95 173.285 64.2354 68.676 104.651 29.8541 57.2519 89.8058 91.629 160.633 212.817 62.9047 440.428 149.504 870.566 126.724 +CHODL 12.0077 0.4026 3.555 16.2665 3.912 18.4517 2.0721 4.4197 2.6427 0 3.1807 6.6748 1.1312 3.0891 6.9864 27.7521 1.3387 9.9161 11.2755 2.5862 +CHORDC1 750.24 278.218 357.28 458.559 328.608 289.611 230.004 192.089 263.214 1300.66 725.191 157.16 120.475 298.484 261.722 440.333 376.618 1282.99 475.452 368.966 +CHP 3839.58 2294.59 4036.74 1917.12 3059.74 7658.64 1859.51 3203.63 5998.94 3289.29 4162.85 2804.61 5230.2 4095.38 5208.11 2883.44 2194.56 3634.63 5983.09 4133.62 +CHP2 1.9212 8.8579 0.5925 62.7421 11.736 53.3494 0 6.7996 15.3277 0 0.6361 38.835 1.1312 0 1.6123 0 0 0 41.3437 0 +CHPF2 2322.77 5831.3 4542.73 10708 2909.97 2706.78 5646.91 4720.97 5241.01 2382.09 2718.83 2295.51 2218.33 6016.02 2784.9 3066.61 2726.91 4688.02 4581.63 1210.78 +CHPF 6483.67 3736.81 6077.32 5930.29 4750.84 3776.92 9423.12 3326.03 18757.9 3021.05 5722.65 1962.38 4860.86 5556.13 5934.7 12398.7 4691.66 9670.48 4581.63 4039.22 +CHPT1 1433.24 2303.05 1545.85 767.947 7326.05 2391.9 936.888 1971.55 1464.06 981.446000000001 2090.33 3187.62 2573.53 2653.15 2660.67 7124.88 1900.04 1641.49 3453.14 4303.88 +CHRAC1 1417.39 574.554 536.217 1350.12 512.472 345.768 924.161 1182.45 715.645 2421.74 928.753 771.845 416.855 892.364 453.043 734.505 1228.02 913.806 477.332 884.052 +CHRD 1627.76 290.699 137.461 52.6723 21.7954 44.1235 61.3344 341 63.9535 9.8028 31.1705 46.1165 47.5113 120.475 11.2858 91.5819 756.805 88.4821 17.8529 179.741 +CHRDL1 0 27.3789 0.5925 2.3238 0 6.418 1.2433 0 1.5856 1.3367 98.6005 7.2816 0.5656 2.3168 10.7484 34.2276 22.7577 30.5111 3.2887 2.5862 +CHRDL2 0 2.0132 22.5152 10.8443 0 0 209.283 0.34 4.2283 402.362 0 0 4.5249 1.9307 0 0 0 3.8139 0.4698 0.8621 +CHRFAM7A 37.9443 38.5599 90.0607 127.839 9.5006 1726.84 9.6643 137.352 72.4101 12.0307 4.4529 61.2864 1511.16 62.5543 2542.11 102.683 406.796 7.4523 148.931 2080.6 +CHRM1 0 0.8053 2.37 0 0 0 0.4144 0 0 0 0 0.6068 1.1312 0 0.5374 0.9251 0 0 0.4698 0 +CHRM2 0 0.4026 9.4801 5.4222 0 0 0 1.3599 3.6998 0 3.8168 0.6068 0 2.3168 0 0 22.7577 0.7628 21.1416 0 +CHRM3 6.7243 12.8842 4.74 3.0984 0 18.8528 71.2806 18.019 4.2283 0.4456 22.9008 14.5631 15.8371 3.0891 20.9593 12.0259 4.9085 5.3394 7.9868 3.0172 +CHRM4 0 2.4158 1.185 3.0984 0.5589 0 10.3605 2.3799 4.2283 7.1293 2.5445 10.9223 32.2398 1.1584 1.6123 0.9251 7.5859 1.5256 1.4094 2.1552 +CHRM5 0.4803 0.4026 0.5925 0.7746 2.2354 1.6045 1.2433 0 0.5285 0.8912 0.6361 3.6408 0 0.7723 1.6123 0 2.6774 0.7628 0.9396 0.8621 +CHRNA10 12.9683 0.8053 7.7026 45.701 2.7943 14.0393 14.0903 3.7398 15.8562 12.9219 27.3537 6.068 19.7964 10.8119 4.2993 12.0259 22.7577 28.2227 9.3963 16.3793 +CHRNA1 0.4803 0.8053 0 0 1.1177 1.2034 534.604 0 0 2.6735 0 0.6068 1.1312 0.3861 0.5374 0 0 0 1.4094 0 +CHRNA2 3.8425 4.4289 215.672 1.5492 13.4126 0 0.8288 1.0199 82.981 0 3.8168 1.2136 46.9457 4.6337 3.2245 0 2.2311 9.9161 31.9474 18.9655 +CHRNA3 193.564 4.0263 48.5854 60.4183 1.1177 2.0056 65.0642 78.1955 11.0994 5.347 32.4427 2.4272 10.7466 6.5643 3.2245 5.5504 226.685 6.865 15.5039 13.3621 +CHRNA4 144.572 1464.77 13.6276 177.382 1.1177 43.3213 18.649 1078.42 2.1142 0 6.9975 2.4272 95.5882 32.4356 6.9864 0 1124.94 6.865 160.677 9.0517 +CHRNA5 93.1796 6.4421 16.5901 29.4345 15.0891 20.8584 105.678 25.4985 39.1121 233.04 78.2443 3.6408 148.756 18.5346 9.1361 24.0518 88.7996 67.8871 55.9079 165.948 +CHRNA6 0 2.8184 1.7775 0.7746 8.9417 0 1.2433 0 10.0423 0.4456 61.0687 2.4272 0 1.9307 0 0 0 8.3905 20.202 1.2931 +CHRNA7 4.8031 1.6105 26.0702 17.8156 0 730.846 0 33.658 18.4989 0.4456 0 4.8544 289.593 12.7425 866.855 8.3256 107.987 1.5256 51.2098 653.017 +CHRNA9 0 0 0 0 0 0 2.4865 0 0 524.451 2.5445 0 0 0 0 0 0 0.7628 0 0 +CHRNB1 411.143 747.781 828.322 480.248 1043.26 868.432 247.41 413.076 353.065 119.862 380.407 1242.15 513.009 791.551 358.995 795.56 281.125 444.699 507.4 890.073 +CHRNB2 1.4409 9.2605 4.1475 6.1967 1.1177 0.8022 2.0721 0.68 4.7569 8.4661 1.2723 13.3495 3.9593 10.0396 7.5238 14.8011 8.9246 303.585 1.8793 3.8793 +CHRNB3 0 0.4026 0 0 2.7943 0 0 0 0 0 0 0 0 0.3861 0.5374 0 0 0 0 0 +CHRNB4 68.2037 34.6262 7.1101 6.9713 105.624 15.2427 0 92.8146 9.5137 0.8912 60.4326 3.034 20.362 17.3762 0 1.8501 47.3003 25.9344 9.3963 28.8793 +CHRND 0.9606 3.221 4.1475 0.7746 0 0 0 1.6999 1.5856 0 0 0.6068 0 2.3168 0.5374 0 1.3387 0 50.2701 0 +CHRNE 9.6206 4.9886 7.7677 31.2936 10.5903 2.2583 34.0696 2.679 8.9958 5.5297 2.1565 10.1274 34.3665 1.7646 5.0732 13.58 4.199 13.3028 5.8398 6.7586 +CHRNG 0 0 0.5925 2.3238 0 0.4011 0 0 1.0571 0 0 1.8204 0 0 1.6123 0 0.4462 0 0 0.431 +CHST10 388.088 415.112 228.707 326.878 210.13 917.77 445.918 535.809 80.8668 445.138 308.524 353.155 2179.3 602.375 330.512 602.22 620.259 333.333 261.687 662.5 +CHST11 296.83 1228.83 321.138 714.175 338.108 313.678 335.682 470.193 708.245 395.232 1050.25 201.456 342.76 327.445 264.947 298.797 150.826 528.604 495.654 164.224 +CHST12 663.785 412.696 411.198 703.331 506.883 290.814 1432.66 447.414 637.421 569.455 445.929 583.738 433.258 745.632 372.43 1262.72 665.328 768.116 568.945 469.397 +CHST13 2.4015 9.2605 40.2903 6.9713 77.1222 1.2034 24.8653 2.0399 8.4567 22.2792 5.7252 23.0583 9.6154 7.7228 4.2993 18.5014 2.2311 4.5767 86.4459 2.1552 +CHST14 1177.71 585.425 169.456 493.416 273.281 317.288 946.54 513.37 466.702 1240.06 356.234 325.243 776.584 359.494 123.069 1472.71 423.472 791.762 333.568 348.276 +CHST15 88.8569 309.22 85.9132 199.071 228.572 241.075 1138.83 206.028 58.6681 3018.83 201.018 173.544 88.8009 98.4651 113.395 229.417 89.2459 216.629 168.194 19.3966 +CHST1 45.6292 217.018 1107.39 142.525 35.7668 61.3718 379.61 2353 94.0803 20.4968 60.4326 72.2087 88.8009 271.841 59.6534 48.1036 884.427 584.287 32.4172 21.1207 +CHST2 153.218 147.765 168.864 198.296 162.627 161.251 8507.66999999999 661.601 240.486 779.77 300.255 169.903 256.222 147.118 114.47 258.094 277.108 191.457 132.958 47.8448 +CHST3 939.001 3610.79 1270.92 1194.42 4022.65 2667.47 1259.84 907.067 876.85 711.151 936.387 982.403 552.602 1046.43 1927.72 790.934 479.25 732.265 1488.37 1745.69 +CHST4 0.9606 20.5341 229.892 51.8978 2.2354 1.2034 2.4865 1.3599 8.4567 1.7823 55.3435 71.6019 29.4118 124.336 7.5238 72.1554 0.8925 48.8177 232.558 2.5862 +CHST5 3.3622 0.8173 45.7888 113.323 3.3531 8.8488 9.5524 39.4785 56.7178 0.8912 84.0903 17.6456 7.3756 61.4654 31.7775 48.1684 39.0228 82.5324 8.4614 5.6207 +CHST6 10.0865 106.697 31.4028 321.456 78.7988 6.8191 199.751 3.7398 202.431 480.339 166.03 720.874 1.6968 31.6633 46.2179 24.9769 84.3373 239.512 55.9079 0.8621 +CHST7 97.0221 70.0577 71.6931 123.16 70.4159 66.1853 403.647 117.633 229.387 137.685 147.583 155.34 49.7738 87.2671 60.7282 209.066 88.3534 86.9565 66.2438 15.0862 +CHST8 4.3228 0.8053 998.371 328.428 3.3531 1.6045 0 20.0588 441.332 0.8912 1.9084 1.2136 6.7873 138.237 3272.87 51.8039 144.578 0.7628 140.005 0 +CHST9 20.1729 1.6105 37.9203 3.873 0 6.8191 0 31.2782 58.6681 0 3.1807 0 6.2217 73.7523 42.456 11.1008 141.901 10.6789 15.5039 0 +CHSY1 1560.04 6609.98 2121.76 4498.06 1828.02 2364.62 1689.6 3791.8 4724.63 2319.26 2558.52 409.587 1465.5 1642.24 2924.09 1116.56 3503.79 1432.49 1424.48 3307.33 +CHSY3 5.7637 9.6631 15.4051 11.6189 10.6183 14.4404 62.1633 13.9392 26.9556 10.2484 6.9975 33.3738 7.9186 26.6435 100.497 22.2017 24.5426 16.0183 17.8529 3.4483 +CHTF18 446.206 206.952 360.243 2209.91 107.3 579.222 385.412 418.856 990.486 328.84 706.107 176.578 423.077 424.365 543.329 155.412 747.434 562.166 122.622 498.707 +CHTF8 496.158 1630.65 1336.1 800.155 1940.91 1453.67 1742.64 1316.91 2175.48 2221.22 1338.42 1812.5 1619.91 1795.15 2064.76 1015.73 2004.46 1218.92 2099.13 1618.53 +CHUK 470.221 1234.06 443.194 433.772 677.334 1253.51 487.36 472.233 481.501 488.359 400.127 634.709 550.905 484.603 429.397 379.278 323.516 486.651 544.045 1196.55 +CHURC1 806.374 1505.62 3540.9 1789.31 753.808 549.687 836.668 1862.75 1956.06 1077.53 800.21 896.135 1535.21 1079.54 1541.49 1039.87 2269.42 661.205 1747.74 758.091 +CIAO1 4353.99 2432.29 3378.46 3381.87 2724.99 4766.95 2157.89 3731.28 2363.11 2535.37 3091.6 2091.63 4248.3 2740.42 3318.55 2754.86 2769.3 3172.39 2859.29 2895.26 +CIAPIN1 690.682 750.1 2034.66 1089.85 1392.11 1213.8 1153.75 1278.67 1726.22 1319.37 1369.59 1906.55 3386.31 2093.25 2849.93 1386.68 2535.92 1799.39 1358.7 1260.78 +CIB1 6140.25 1818.28 4269 2529.82 4118.77 3633.77 2265.64 3662.95 7330.87 6488.58 5576.34 3381.67 2912.9 3714.64 4905.01 3395.93 9142.35 10939.7 6614.52 1735.34 +CIB2 17.2911 64.8235 216.857 267.235 376.669 186.522 13.6759 36.3779 468.816 260.666 551.527 40.6553 40.724 36.6831 61.803 157.262 40.6069 345.538 1331.92 59.4828 +CIB3 0 0 0 0 0 0 0.8288 0 0 0 0 0 0 0 0.5374 0 0 0 0 0 +CIB4 8.6455 29.7946 74.0631 59.6437 6.1474 213.799 0 10.5394 4.7569 0 3.1807 5.4612 63.3484 59.8513 36.007 7.4006 26.3275 68.6499 19.7322 174.569 +CIC 2544.19 2962.55 4234.04 2979.86 952.291999999999 2893.7 1460.84 3552.45 2189.75 1345.66 2012.72 1471.48 2854.07 1748.82 2397.42 1331.17 2267.74 1808.54 1299.98 2983.19 +CIDEA 0.4803 0.4026 50.9554 12.3935 0 34.0955 0.8288 2.3799 9.5137 0 0 0 64.4796 11.198 23.109 0 141.008 0.7628 5.6378 48.7069 +CIDEB 1264.5 404.43 1321.58 232.432 699.325 1488.93 203.514 1120.92 710.433 187.51 149.523 95.9405 3961.91 215.175 1155.02 128.233 1138.73 544.63 1197.57 1453.29 +CIDEC 7.2046 2.8184 26.0702 39.5043 14.5973 0.8022 7.4596 1.7271 5.2854 0.4456 6.7621 2.4272 5.181 3.537 5.3742 14.2646 0 3.3257 2.3491 0.4871 +CIDECP 187.32 253.255 123.241 218.435 153.619 99.4785 245.752 94.1473 130.55 93.1269 121.737 359.83 161.109 124.661 197.232 231.804 95.9393 111.091 116.984 141.754 +CIITA 71.0855 57.9788 32.5878 74.361 120.154 42.9202 414.836 27.5384 26.4271 827.448 66.1578 246.359 84.276 28.5742 35.4696 103.608 84.7836 414.188 32.4172 1.2931 +CILP2 3.3622 485.17 7.7026 432.998 0 22.4629 422.71 1425.54 38.5835 24.0615 27.9898 9.1019 194.005 314.316 42.9934 0.9251 492.191 9.1533 20.6718 3224.14 +CILP 5.2834 4.0263 24.8852 61.1929 12.8537 13.2371 67300.0000000001 38.7577 61.3108 1.7823 29.8982 3.6408 44.6833 7.7228 5.3742 7.4006 7.1397 28.2227 14.5642 4.7414 +CINP 832.853 380.888 673.086 1130.91 429.202 856.398 746.374 478.692 798.626000000001 901.86 639.313 515.17 908.371 340.573 875.991 876.966 680.053 565.98 1261.92 278.017 +CIR1 701.249 411.086 668.938 821.069 1086.42 790.614 661.417 739.457 763.742 983.402 1104.33 657.767 774.321 827.879 884.052 1186.86 666.667 819.222 612.168 489.655 +CIRBP 11915 5839.35 14016.9 17905.5 8947.85 7111.11 3143.39 11749 10217.8 2005.12 14079.5 8199.03 12822.4 8983.49 10517.8 12253.5 10768.4 8550.72 8105.71 8992.67 +CIRH1A 633.525 620.856 1180.86 611.929 695.218 440.834 891.007 787.054 991.015 1813.97 668.575 886.529 691.177 1082.73 1260.78 549.491 1230.25 900.839 587.738 963.792999999999 +CISD1 585.975 609.985 853.207 268.784 1083.06 910.951 518.856 714.638 464.059 664.365 734.733 2729.98 1165.72 557.583 598.683 594.82 635.431 599.542 778.013 745.259 +CISD2 296.83 529.862 699.748 704.105 828.226 1023.67 835.06 753.736 1001.59 966.915 744.911 962.378999999999 1172.51 1088.14 671.772 862.165 686.301 1331.05 2317.59 806.897 +CISD3 1622.66 615.976 607.424 806.073 1087.52 1054.56 1309.83 1000.77 932.437 1799.18 1228.58 2602.23 1808.17 846.391 814.725 1320.12 895.898999999999 1156.45 1273.74 894.138 +CISH 55.7157 90.5918 17.7751 120.837 402.377 12.0337 368.421 16.3191 349.366 175.114 858.143 1475.12 26.0181 86.4948 20.4219 1078.63 104.864 367.658 412.967 25.431 +CIT 152.738 1758.29 4149.31 3610.38 871.816 3778.98 555.325 1011.44 2259.51 913.446 725.191 191.748 2225.68 3078.29 6004.03 610.546 1707.27 636.918 2607 3455.17 +CITED1 26.8972 10.871 154.644 92.1766 7.824 41.3157 41.4422 62.8963 63.4249 3.1191 34.3511 11.5291 35.0679 93.4453 139.729 7.4006 107.541 32.7994 61.0759 12.5 +CITED2 561.479 155.818 1067.1 194.423 7972.65 1959.49 3155.82 369.899 1798.63 262.894 1162.85 2318.57 1295.25 1012.07 1524.12 2180.39 273.092 905.416 1877.85 2248.28 +CITED4 310.279 240.773 148.719 4104.57 175.481 164.059 48.4874 295.443 280.127 271.806 318.702 14.5631 427.036 367.989 63.9527 49.0287 122.267 1183.83 66.2438 173.276 +CIZ1 1155.62 2665.41 1581.4 1704.11 1349.08 2459.29 2940.32 2175.19 2531.71 1882.14 1122.14 2518.81 2315.61 2089 2841.33 1274.75 2673.36 1116.7 811.37 1331.9 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36.7353 43.3772 82.7108 39.7112 230.419 121.033 27.4841 16.041 47.0738 20.0243 61.6516 61.3959 47.8302 98.0574 22.7577 83.1426 49.3305 9.0517 +CLEC1B 0 0 0 0 0 0.4011 0.4144 0 0 0 0 0 0 0 0 0 0 0.7628 0 0 +CLEC2A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.7628 0 0 +CLEC2B 93.6599 53.1472 49.7704 65.0658 110.095 53.3494 1689.18 639.163 530.655 1238.72 97.3282 808.252 219.457 289.989 94.5855 404.255 174.476 243.326 131.078 46.5517 +CLEC2D 210.855 234.331 411.791 577.072 213.483 296.029 672.192 447.074 333.51 714.715 595.42 359.223 257.353 476.494 633.078 529.14 476.573 556.827 235.847 218.535 +CLEC2L 0 1.6105 0 13.9427 0.5589 0 0.4144 0 0.5285 0 2.5445 9.1019 6.7873 0.7723 0.5374 0.9251 5.3548 3.0511 1.8793 0 +CLEC3A 0 0 0 0 0 0 0 0 0 0 0 0 0 1.1584 0 0 0 0 0 0 +CLEC3B 511.527 95.4234 61.028 236.251 692.982 237.465 1009.53 351.88 211.417 72.6301 794.529 323.422 287.33 505.454 203.144 1075.86 122.713 504.958 322.293 73.2759 +CLEC4A 28.3381 15.3 12.4426 41.828 58.68 8.4236 96.5603 22.7787 26.4271 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97.9827 0.8053 15.4051 10.0697 6.1474 18.0505 15.3336 0.34 37.5264 57.9258 10.8142 112.257 214.932 55.6038 77.9256 27.7521 3.5698 17.5439 1.4094 12.069 +CLEC6A 0 0 0 0 0 0 0 0.34 0 0.4456 0 0 0 0 0 0 0 0 0.4698 0 +CLEC7A 69.1643 32.2104 5.925 17.0411 21.7954 6.0168 204.31 12.2393 19.556 94.9092 33.715 191.748 31.1086 14.2871 41.3812 20.3515 15.1718 145.69 19.7322 2.5862 +CLEC9A 28.3381 0.8053 0 0 0.5589 0 1.6577 1.6999 0 0.8912 6.3613 13.9563 0 1.5446 0 3.7003 0.4462 87.7193 0 0 +CLECL1 12.488 0.4026 0 1.5492 1.6766 0.4011 42.6855 0.34 0 22.2792 5.7252 19.4175 5.0905 0 2.1497 2.7752 0 11.4416 2.8189 0 +CLGN 6.244 1373.37 644.053 802.479 12.8537 3.209 5.3875 144.492 60.7822 117.188 468.193 1460.56 54.8643 3727.39 505.71 1716.93 99.0629 950.419 622.504 862.931 +CLIC1 4456.29 3530.26 3529.55 2788.54 6016.09 12521.9 9861.58 4210.32 8933.4 10797.4 7227.1 3966.63 12908.9 3159.38 5940.08 5714.15 681.838 3494.28 7351.66 20113.8 +CLIC2 128.242 118.776 162.939 199.845 217.954 61.3718 858.682 62.2164 179.175 87.3343 121.501 143.811 77.4887 156.772 133.28 271.045 114.681 431.731 1917.31 21.1207 +CLIC3 2.8818 2.0132 1.7775 0.7746 2.2354 0 21.1355 1.6999 0.5285 20.0512 8.9059 0.6068 1.1312 0.3861 0.5374 20.3515 2.2311 14.4928 2.8189 0.8621 +CLIC4 1333.33 3761.37 1225.89 1088.3 1064.06 1536.3 8601.74 751.696 2894.82 4261.56 1617.05 1439.93 727.941 1814.85 1064.09 2570.77 915.663 1881.77 1506.69 948.276 +CLIC5 15.8501 18.521 2205.3 1.5492 166.539 236.262 22.3788 11.8993 475.687 13.3675 25.4453 72.8155 19.2308 14.6732 22.0341 93.432 35.2521 94.5843 877.613 21.1207 +CLIC6 2.4015 14.0921 4.74 794.733 8.9417 2.0056 18.649 3.0598 2.1142 30.2997 24.173 2.4272 6.2217 27.8019 2.6871 31.4524 84.7836 16.7811 2.8189 50.8621 +CLINT1 1005.76 1554.96 2492.08 651.433 1636.89 1566.79 1577.7 1575.13 1844.61 1288.63 2097.33 1966.63 847.851 2474.37 3328.23 2258.09 1725.57 1668.19 3841.67 1741.81 +CLIP1 2294.91 5093.27 3544.96 2398.14 1123.86 2446.45 1602.98 2773.22 2733.09 1818.42 2204.2 3384.1 841.063 3198.76 2996.1 2777.06 3418.12 1930.59 3307.49 1500.43 +CLIP2 426.513 2315.12 1463.49 1398.14 1811.25 2750.5 3639.04 1535.01 1529.07 1180.8 334.606 777.913 282.24 2265.08 2186.22 540.24 1082.11 562.929 327.93 1047.41 +CLIP3 434.198 326.533 177.159 790.86 68.1805 133.975 1217.99 1840.31 119.45 71.2933 109.415 228.762 90.4977 77.2275 98.3474 1210.92 183.4 112.128 33.3568 25.431 +CLIP4 200.288 1399.54 111.983 275.755 661.686 788.608 1315.38 225.747 233.615 774.869 195.929 558.252 184.955 285.742 66.6398 267.345 234.717 409.611 574.113 574.138 +CLK1 2553.31 734.398 1554.14 5468.63 1265.25 1508.62 1239.54 1167.15 1346.72 1748.47 1912.21 1425.97 802.602 1836.47 1335.48 1109.16 1057.56 1992.37 584.449 1622.41 +CLK2 2535.06 1146.69 681.38 1876.07 662.245 1500.6 587.236 967.584000000001 686.047 2190.49 828.243999999999 316.748 1002.83 474.949 737.337 406.106 810.352 896.262 291.755 1180.6 +CLK2P 40.8261 20.9368 12.4426 51.1232 15.0891 33.6943 12.8471 13.2592 16.3848 37.429 17.8117 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0 0 206.448 0 0.5374 0 2.2311 0 0 0.8621 +CNPY2 2073.49 2228.16 2303.07 3278.08 2054.92 3078.22 2102.36 3439.58 3309.2 3074.08 2867.68 2108.01 2772.62 2419.15 4216.04 3761.33 2958.95 4138.83 1643.88 1748.28 +CNPY3 1907.3 914.373999999999 637.535 1993.03 2210.28 2533.09 3089.93 1258.27 2114.69 2029.63 1496.18 938.107 2780.54 571.87 949.08 1609.62 873.271 1491.99 1221.52 2308.62 +CNPY4 475.024 880.553 688.491 577.847 633.185 390.293 1195.6 974.723 188.161 304.779 269.72 469.053 282.24 878.463 586.323 1538.39 859.883999999999 965.675 191.684 412.069 +CNR1 12.9683 199.705 661.235 3638.26 30.1783 26.073 8.7029 17.339 323.467 19.6057 427.481 7.8883 199.661 252.148 35.4696 88.8067 2006.25 302.06 72.8212 61.2069 +CNR2 0 0.4026 0.5925 3.0984 1.1177 2.0056 0.8288 0 0 0.4456 0.6361 0 0 0 0 0 0.4462 3.8139 1.4094 0 +CNRIP1 268.972 78.1103 125.611 187.452 736.014 186.121 1833.4 256.345 81.3953 92.6813 185.114 274.272 80.8824 296.168 261.722 434.783 183.846 112.128 97.2516 99.1379 +CNST 922.670000000001 1772.38 1430.9 1122.39 1301.58 503.409 404.476 879.869 949.789 295.422 638.677 424.151 561.086 1007.43 1493.48 592.97 1036.59 788.711 937.75 1068.53 +CNTD1 28.05 8.576 24.2097 45.9799 36.4486 11.1953 27.9776 17.3152 19.667 26.4721 30.07 37.5667 19.4287 22.8671 16.2676 47.16 23.0834 25.759 13.1031 41.6983 +CNTD2 3.3622 26.5736 10.0726 27.8854 8.3829 42.9202 2.901 4.4197 5.814 1.3367 3.8168 2.4272 37.3303 6.5643 4.8368 2.7752 1.7849 0.7628 0.9396 3.4483 +CNTF 2.8818 8.1049 2.37 6.9713 5.0297 12.0337 4.1442 4.9739 2.6427 4.0102 1.2723 8.9563 3.3937 6.5643 2.6871 6.4755 4.0161 3.0511 8.4567 13.8879 +CNTFR 4.8031 35.0288 5.925 1117.74 0 10.0281 15.3336 29.5783 1.0571 5.347 34.3511 1.2136 4.5249 29.3465 5.9116 8.3256 24.9888 2.2883 218.934 3.8793 +CNTLN 192.603 260.904 218.042 209.14 258.192 225.03 247.824 49.9771 198.732 318.146 90.3308 139.563 187.783 178.01 285.906 146.161 184.293 104.5 145.173 74.1379 +CNTN1 0.4803 7.2473 10.0726 51.8978 0 0 130.129 14.9591 2.6427 0 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126.321 12.0789 42.6603 112.316 16.2068 187.726 2.0721 65.9562 10.5708 40.9937 8.9059 14.5631 75.2262 27.0296 210.13 24.0518 128.514 13.73 6.1076 70.2586 +CNTNAP4 0 0 0.5925 37.9551 0 0 2.901 0 0.5285 0 1.9084 0.6068 0 0 0 18.5014 0 0.7628 0 0 +CNTNAP5 0 2.0132 0 0 0 0 0 0 1.0571 0 0 0 0 0.3861 0 0 0 0 0 0 +CNTROB 871.277999999999 512.548 601.985 927.188 373.875 784.998 960.63 524.25 876.321 482.567 391.858 632.282 550.339 282.653 636.84 452.359 479.697 368.421 357.059 593.966 +COASY 2340.54 1583.14 2325.58 2733.54 2553.42 1152.83 1850.39 2418.62 1563.42 2328.17 1887.4 2784.59 4824.1 2224.93 3242.24 1975.02 3023.65 2116.7 1709.18 2938.79 +COBL 12.0077 32.6131 5.3325 45.701 13.4126 0.8022 5.8019 4.7597 5.2854 688.872 5.7252 19.4175 5.0905 5.0198 5.9116 27.7521 6.6934 4.5767 1.8793 0 +COBLL1 1040.83 179.976 2149.01 749.806 3435.85 589.25 60.92 68.676 831.924 76.6403 306.616 871.358999999999 435.52 1248.77 1959.96 349.676 171.352 408.085 1034.06 1032.33 +COBRA1 1566.28 1634.68 1378.76 2202.17 1406.08 2630.16 2719.85 2288.41 2865.75 2291.19 994.275 1997.57 3337.1 2451.2 2992.34 1045.33 4421.69 1019.07 1275.55 2014.66 +COCH 5.1249 6.8447 0 57.103 3.912 5.4192 40.1575 41.9842 1.834 128.774 1.2723 22.2876 7.1493 14.3527 0 37.9278 83.8911 5.3394 2.8189 331.5 +COG1 1616.98 973.77 1740.65 1155.79 1056.01 978.781 492.205 969.001 1155.17 839.831 1174.26 1159.6 1189.28 1363.58 1346.75 1011.4 1414.25 1028.12 1166.94 1457.33 +COG2 677.233 1485.71 1046.36 475.6 1390.99 1259.93 536.676 898.908 878.964 523.56 715.649 828.884 1934.39 1063.81 1681.58 710.453 850.959 1150.27 1172.19 1228.88 +COG3 540.346 1167.63 929.64 656.081 826.549 316.887 499.378 467.133 725.687 352.456 502.545 373.786 309.389 949.126 1394.06 217.391 643.463 605.644 1436.69 819.397 +COG4 2281.46 1184.94 1799.44 1871.42 1593.3 1162.05 1450.48 1497.95 1743.66 2174.45 1945.29 1700.24 2834.84 1337.58 2207.17 1305.27 1930.83 1973.3 1081.04 1555.17 +COG5 817.661 1653.27 975.091000000001 338.962 494.029 773.618 1136.49 733.086 748.647 591.984 438.651 651.371 259.921 1083.14 1009.51 482.572 1045.62 621.48 957.125 570.823 +COG6 388.088 554.422 559.917 243.997 409.083 224.629 382.097 410.356 529.598 134.566 384.86 399.272 161.199 526.692 967.352 210.916 221.33 294.432 1131.31 539.655 +COG7 646.974 623.674 1148.27 882.262 489.558 548.736 405.719 823.771999999999 915.962 365.378 843.511 1132.89 473.416 1180.04 1326.35 925.994 920.125 904.653 481.56 330.603 +COG8 638.881 495.578 787.575 215.515 658.909 610.874 398.55 541.796 507.579 323.034 534.078 765.182 718.665 778.021 837.721 666.568 638.072 750 450.101 583.513 +COIL 296.83 295.531 196.119 253.292 386.729 239.47 409.034 254.305 288.584 552.077 516.539 432.646 302.036 233.613 180.035 354.302 221.33 285.278 280.009 394.828 +COL10A1 1.4409 4.0263 1.185 0 0.5589 0 138.417 0.34 0.5285 2.2279 1.9084 3.034 0 0.7723 1.0748 18.5014 4.9085 1.5256 0 2.5862 +COL11A1 963.016 336.599 82.3582 25.5616 0 0.4011 127.228 1256.91 1.5856 1.3367 0 407.767 3330.32 2.3168 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158.187 311.914 315.027 101.48 149.138 +COL17A1 6.244 5.2342 295.067 34.0821 0.5589 0.4011 2.0721 5.7797 8.9852 12.0307 3.8168 2.4272 11.3122 50.9702 10.7484 13.876 111.111 2.2883 34.2965 9.4828 +COL18A1 1615.75 3175.14 8434.31 10834.2 2518.77 4742.48 12119.4 6790.09 3946.09 2385.65 2345.42 1135.32 3402.71 10906.8 2638.72 2874.19 21618.9 1924.49 1645.29 2454.31 +COL19A1 1.4409 0.8053 7.7026 0 0 3.6101 0.4144 3.7398 0.5285 0 1.2723 13.9563 1.1312 6.9505 3.2245 8.3256 3.1236 0.7628 0.4698 3.4483 +COL1A1 485.591 4269.09 1164.86 1531.37 376.111 3798.64 256708 1142.67 5988.9 3584.27 5316.79 324.636 3580.32 4991.99 6823.59 6393.15 3494.42 2560.64 607.94 3743.97 +COL1A2 784.822 4204.27 1209.3 809.45 1569.83 3147.61 246765 1727.44 3860.47 8270.91 4138.04 862.864 2834.84 3470.22 3748.49 4609.62 3345.38 3235.7 982.382 2253.88 +COL20A1 0 33.821 1.7775 22.4632 0 8.0225 0.8288 0 2.1142 0 0.6361 0 5.0905 0.7723 11.8232 0 12.4944 0 5.168 0.8621 +COL21A1 12.0077 7.65 1.7775 3.0984 4.4709 117.529 313.717 63.5763 23.2558 74.858 66.7939 63.1068 34.5023 73.3662 66.1024 82.3312 24.5426 15.2555 26.7794 13.7931 +COL22A1 15.8501 2.4158 9.4801 21.6886 1.1177 1.6045 4.1442 0.68 15.3277 61.4905 6.9975 12.1359 4.5249 5.0198 2.6871 0 73.1816 7.6278 164.905 0.8621 +COL23A1 2.8818 5.2342 0.5925 104.57 24.5897 1.6045 8.2884 2.3799 5.2854 334.187 7.6336 2.4272 9.6154 1.9307 0.5374 703.978 4.9085 2.2883 0.9396 0.431 +COL24A1 16.8108 37.8473 4.74 16.2665 1.1177 0 221.716 10.1994 6.3425 20.0512 0 3.034 0.5656 0 2.6871 1.8501 0.8925 215.103 39.4644 0.8621 +COL25A1 1.9212 4.4289 9.4801 3.873 1.1177 2.4067 16.5769 18.6989 2.1142 0.4456 2.5445 23.0583 6.7873 1.5446 3.7619 73.0805 8.9246 0.7628 1.4094 7.7586 +COL27A1 93.6599 614.011 1755.59 1790.09 6.7063 20.4573 135.516 556.548 986.258 35.2011 1617.68 219.053 12.4434 681.919 503.56 158.187 1081.66 964.149 107.118 8.6207 +COL28A1 55.2354 1.2079 58.0655 27.8854 3.912 3.6101 4.5586 3.7398 11.0994 1.3367 10.8142 3.6408 1.1312 19.3069 13.9729 8.3256 4.4623 17.5439 3.2887 1.7241 +COL29A1 3.8425 0 0 0 0 0 1.6577 0 1.5856 0 0 0.6068 0.5656 0 0 4.6253 0 0 1.8793 0 +COL2A1 1.9212 74.4866 78.8031 150.271 1.6766 2.0056 23.2076 9.1795 0.5285 3.5647 1.9084 4.2476 52.0362 8.495 24.7212 7.4006 49.9777 3.0511 78.9288 4547.41 +COL3A1 325.648 13903.6 1450.45 749.032 415.231 4035.7 238883 1856.29 3479.39 2000.22 4655.22 1188.71 3492.65 2651.99 4148.86 5841.81 2890.23 2521.74 1375.62 2761.64 +COL4A1 2097.5 8189.5 3467.93 4412.08 2603.71 14222.2 17045.6 8636.52 10066.1 3936.28 5129.77 2574.03 8605.77 4539.05 12085.4 6318.22 1827.31 3240.27 3477.1 9649.13999999999 +COL4A2 3393.85 12876.1 3781.96 5747.48 4483.71 18208.6 32067.6 7705.65 11366.8 4663.03 5636.13 2807.65 20857.5 4683.85 12264.9 4869.57 2572.07 3109.84 3937.98 21803.4 +COL4A3 734.87 33.821 98.3558 270.333 1.6766 3.6101 0 9.1795 16.3848 4.4558 737.913 568.568 1.1312 61.3959 6.9864 299.723 406.069 443.936 3.7585 3.0172 +COL4A3BP 831.892 2938.8 1672.05 1275.76 3614.69 3457.28 604.227 3205.67 2057.61 584.159 3162.85 1356.19 1611.43 2334.59 3711.41 1052.73 2390 1581.24 2556.26 2194.4 +COL4A4 1785.78 68.0445 47.4004 89.0782 8.3829 14.8416 6.6308 26.1785 19.0275 14.7042 444.656 257.888 7.9186 47.8811 6.449 283.996 151.718 321.892 15.5039 12.931 +COL4A5 178.194 179.573 187.232 2123.93 10.6183 399.519 37.7124 451.494 305.497 3070.07 679.389 333.738 36.7647 1123.66 242.913 489.362 203.927 874.142 331.219 1280.17 +COL4A6 11.0471 7.65 12.4426 20.1394 1.1177 5.2146 2.0721 10.1994 26.4271 1834.47 13.3588 13.9563 1.1312 125.495 3.2245 5.5504 2.6774 25.9344 9.3963 380.172 +COL5A1 382.325 1420.88 1292.25 6329.98 114.566 615.724 37218.8 1093.72 2530.13 5805.95 1583.33 284.587 2177.6 1434.5 1725.65 1586.49 1051.76 649.123 242.894 1619.83 +COL5A2 311.239 2396.05 163.531 175.058 200.071 478.54 17081.2 273.004 524.313 328.84 325.7 509.102 199.661 401.583 319.226 1457.91 189.201 409.611 149.871 3882.76 +COL5A3 48.0307 293.92 487.632 190.55 51.9737 318.091 3380.44 185.289 637.421 159.519 368.321 148.665 192.308 160.633 7487.84 248.844 113.788 234.935 86.4459 452.155 +COL6A1 3476.95 4396.32 5677.97 7171.96 1915.2 1506.22 45990.9 5542.02 1930.23 7722.85 2882.95 2863.47 1962.67 2586.35 912.535 19812.2 2396.25 4710.91 2009.87 797.414 +COL6A2 1215.66 8977.85 1359.8 6260.26 1839.76 2803.45 54591 2953.75 3237.32 12611.8 3461.2 1794.9 3928.73 2509.51 1835.28 12457 2329.32 1940.5 1056.14 1272.41 +COL6A3 106.628 1489.73 717.523 104.57 150.332 837.144 109149 360.039 761.628 8858.64 2097.96 663.228000000001 686.086 549.088 699.18 3510.64 978.580999999999 692.601 671.835 482.759 +COL6A4P2 0.4803 0.8053 1.7775 3.873 9.5006 129.563 8.2884 0.34 3.1712 0 0.6361 10.9223 3.9593 0 0 4.6253 1.3387 2.2883 0.4698 0 +COL6A6 1.9212 1.2079 1.7775 0 0.5589 0 225.031 1.3599 1.0571 0 4.4529 2.4272 0 0.3861 0 2.7752 0 1.5256 0 1.7241 +COL7A1 106.628 31.4052 87.6907 371.03 223.543 46.1292 278.491 21.7587 43.8689 1840.7 174.936 3.034 39.0271 15.4455 39.2315 4.6253 24.9888 9.9161 2.3491 111.207 +COL8A1 39.8655 59.1867 13.6276 0 12.2948 61.3718 341.898 41.8176 13.7421 716.498 28.626 6.068 117.647 29.3465 46.7553 33.3025 36.1446 46.5294 16.9133 97.8448 +COL8A2 32.1806 38.6525 10.6651 264.911 2.7943 5.2146 181.931 8.8395 13.2135 76.1947 28.626 63.7136 28.2805 19.3069 7.5238 377.428 31.2361 62.5477 5.6378 3.8793 +COL9A1 0.4803 1.6105 1.185 46.4756 1.1177 0.4011 0 32.9781 15.3277 0 3.1807 24.8786 5.0905 0.3861 12.898 7.4006 10.7095 0.7628 30.5379 0.431 +COL9A2 44.1883 83.7471 119.094 414.407 10182.4 11.6326 9.1173 147.211 354.651 24.0615 9217.56 52.7913 1226.24 10.0396 174.661 1032.38 33.4672 77.0404 149.401 980.171999999999 +COL9A3 6.244 302.778 16.5901 89.0782 5.5886 186.522 107.335 9.8594 2.1142 4.9014 36.8957 3.034 80.8824 13.901 3.2245 1.8501 129.406 4.5767 28.1889 258.621 +COLEC10 0.4803 0.8053 0 0 1.6766 0 0 0.68 1.5856 0.8912 5.0891 0.6068 0.5656 10.4257 0 0.9251 0.8925 2.2883 6.5774 0.431 +COLEC11 377.041 310.428 301.585 51.1232 452.115 182.11 16.5769 149.931 415.433 12.4763 498.728 87.3786 200.226 387.296 152.089 717.854 152.61 725.4 991.308 91.8103 +COLEC12 15.3698 28.1841 25.4777 271.108 344.815 4.8135 4048.9 8.4995 25.8985 87.7799 83.3333 250.607 10.181 1.5446 20.4219 694.727 43.2842 9.9161 31.9474 3.0172 +COLQ 75.4083 5.6368 91.2457 202.944 22.3543 22.0618 36.8835 59.8365 52.3256 14.2587 142.494 66.7476 20.9276 37.0692 37.6192 173.913 35.6983 38.1388 33.3568 20.6638 +COMMD10 722.381999999999 323.715 896.460000000001 975.988 469.44 470.116 267.302 741.157 704.017 491.924 1093.51 745.752 473.982 798.533 1175.87 975.023 659.973 601.068 1956.78 476.293 +COMMD1 395.293 146.155 149.311 249.419 329.167 456.478 356.817 224.387 219.345 331.959 298.982 198.422 498.303 128.584 224.103 491.212 170.013 280.702 280.479 338.362 +COMMD2 520.653 1141.05 403.496 295.12 268.81 435.219 898.467 654.802 377.378 729.865 336.514 836.165 537.33 371.078 497.649 670.675 584.561 313.501 372.563 765.948 +COMMD3 919.904 899.669 674.875 625.957 1186.22 1214.38 498.235 561.817 785.798 509.604 1096.26 1267.71 803.937 972.955 912.895000000001 1046.63 800.094 1430 825.102 631.966 +COMMD4 2234.39 1110.05 1417.27 2757.55 3494.53 1987.16 1881.06 1342.58 1988.9 3071.85 2361.96 1245.75 4020.93 1281.59 1746.61 1828.86 1697.46 3585.81 2892.65 1033.62 +COMMD5 926.196 414.303 629.59 1365.65 717.231 556.907 775.433 1441.19 639.133 1112.87 1351.9 1105.78 817.33 1218.99 498.224 1268.25 949.076 1305.35 518.116 853.228000000001 +COMMD6 1401.06 1457.52 1564.81 1079.01 2688.1 534.296 1490.26 1116.84 1902.22 1125.54 1386.13 1764.56 1863.69 1275.8 1879.35 867.715 1356.98 1157.13 2600.89 1381.9 +COMMD7 1179.15 1471.61 734.706 1175.06 1235.63 813.879 588.479 1223.93 875.793 1080.54 1680.03 1571.6 823.529 1495.12 1613.33 1931.54 1319.05 1510.3 852.243000000001 1478.88 +COMMD8 426.513 291.102 235.224 190.55 386.729 563.979 335.682 424.635 469.345 257.101 312.977 572.209 391.403 339.801 619.643 270.12 479.697 331.045 1092.32 528.017 +COMMD9 1357.83 828.613 648.2 865.221 1284.81 718.01 1097.8 935.626 817.125 1157.18 919.847 980.582 917.986 769.572 569.663 1214.62 532.352 819.222 884.191 929.741000000001 +COMP 0.9606 1.6105 2.9625 50.3486 0 7.6213 58.0191 0 1.5856 1.7823 0 1.2136 1.6968 0.3861 35.4696 15.7262 6.6934 25.9344 0 34.4828 +COMT 4281.46 3437.66 3978.08 4026.34 5997.65 1704.37 3041.44 4005.65 4508.99 2094.24 2807.25 2725.12 5615.38 3561.73 4312.24 6399.63 5701.47 8281.46 6679.82 9911.21 +COMTD1 911.622999999999 357.536 305.733 1307.51 502.412 351.785 91.1728 318.901 242.6 417.066 694.02 910.801 195.136 484.603 71.4766 552.266 618.92 615.561 318.534 575.431 +COPA 3548.99 8489.6 4174.2 2833.46 3007.77 3517.05 4394.28 3347.79 4608.88 6464.52 2949.75 2229.72 3399.89 3732.02 6086.79 2648.47 2618.47 3850.5 2515.39 4883.19 +COPB1 2308.82 2970.25 2227.82 1736.64 2185.13 2618.63 3587.56 2419.2 2178.92 3042.8 1697.2 1504.72 2220.52 2799.75 2390.72 1562.44 1763.37 1696.28 1784.53 4251.49 +COPB2 2060.04 5264.39 3700.19 1874.52 1794.49 4128.76 2894.32 2734.46 3590.91 5325.16 2726.46 2625.61 3084.28 3779.9 4680.91 2762.26 2464.08 2105.26 2678.88 3632.33 +COPE 9665.71 2282.37 7922.94 9329.96 4278.05 8354.69 5150.41 7002.52 10183.4 2740.34 9733.52000000001 6507.89 7095.59 6367.8 10569.9 7859.39 6747.43 7405.01 3990.6 5569.59 +COPG2 1285.3 585.022 610.872 633.617 406.289 293.622 509.325 444.354 688.689 417.066 564.885 573.422 226.81 502.751 498.724 776.133 507.809 775.744 469.345 292.241 +COPG 4385.69 9350.29 5839.73 4209.14 2785.34 7064.98 4736.43 3730.26 5128.96 6063.94 4005.09 4727.55 3656.67 4874.99 5715.97 4686.4 3288.26 3973.3 3333.8 4900.43 +COPS2 1629.2 1393.91 1424.38 1448.49 1788.9 1595.67 1051.8 1718.94 2599.89 2262.67 2192.75 1154.13 1325.79 1609.42 2491.47 1777.06 1252.12 1926.77 3239.37 1099.14 +COPS3 894.332 1180.51 1049.33 562.355 779.046000000001 963.899 1474.1 711.579 1104.12 1008.35 1115.14 1196.6 1110.29 970.75 1332.8 769.658 1414.55 774.981 1504.82 1004.31 +COPS4 678.674 971.144 803.437 626.646 1230.6 762.936 609.615 1470.41 1474.63 404.589 1384.86 1670.51 1295.81 1571.58 1233.37 978.723 2122.27 950.419 2408.27 775 +COPS5 1753.6 952.221 1570.14 1429.9 2280.14 1166.47 1031.5 2289.09 1336.68 1514.09 3091.6 2376.21 1670.81 2998.36 1204.89 1068.46 2918.34 2107.55 1717.64 2033.62 +COPS6 3037.46 2690.78 3635.61 2659.95 2716.04 3475.73 3905.93 2603.91 3067.65 4147.04 2533.08 3523.06 2958.71 3370.98 2862.29 3222.02 3527.89 3840.58 2803.38 1578.45 +COPS7A 3128.24 3238.76 2710.71 1973.66 3044.65 1637.38 3992.54 3658.53 3174.95 2546.95 3016.54 3641.38 2190.05 2688.68 3380.89 2745.61 3298.53 3215.87 2848.48 2140.95 +COPS7B 1164.27 739.229 591.912 1137.88 616.978 2472.12 1091.17 941.745 727.801 1190.6 708.651 519.418 1244.91 868.424 1024.32 558.742 662.651 893.211 582.57 849.138 +COPS8 1223.32 1168.81 1670.26 1406.66 1455.79 1603.66 3305.15 1477.2 1667.01 1893.28 1300.88 1380.45 2606.9 1377.33 2588.72 2066.59 1665.77 999.999999999999 2320.41 2133.61 +COPZ1 2144.09 4740.97 3501.7 4254.07 3291.67 3968.31 5342.73 3585.77 4960.89 3629.27 4496.18 3751.21 3755.66 4807.8 5542.93 3845.51 4824.19 4669.72 4125.91 2436.64 +COPZ2 182.997 153 8.2951 219.21 614.183 8.0225 1037.3 5.7797 22.7273 98.0283 102.417 1024.88 35.0679 17.7623 10.2109 1316.37 35.2521 130.435 66.7136 3.8793 +COQ10A 534.102 596.296 532.069 435.322 273.281 4074.61 159.967 391.317 471.987 273.588 583.333 2099.51 612.557 1081.96 191.858 449.584 925.926 1424.1 1625.09 313.793 +COQ10B 1229.11 1110.86 845.504 765.298 1462.53 3083.43 895.151 1642.78 895.349 825.666 1348.6 1080.1 1622.17 1402.84 1550.45 1476.41 890.674 1401.22 1758.52 1763.36 +COQ2 256.004 167.092 539.772 803.253 420.26 375.451 243.266 543.628 643.763 362.259 599.873 566.141 372.738 779.998 667.473 480.111 1432.84 508.772 1565.89 265.948 +COQ3 47.5504 212.992 222.782 318.358 203.983 281.99 205.968 119.333 372.622 145.706 398.219 535.801 450.792 268.752 284.294 277.521 220.437 244.089 697.674 312.931 +COQ4 2390.97 390.954 1638.87 3529.05 1132.24 1097.87 635.309 1267.11 1723.04 1398.69 1355.6 1749.39 3221.15 2326.48 3539.97 1341.35 4135.65 964.911999999999 1232.32 719.397 +COQ5 1326.61 1281.17 702.711 370.256 1023.83 764.541 1006.22 913.527 843.552 675.95 834.606000000001 1927.18 1288.46 857.226 1195.22 1148.94 944.668 789.474 1335.68 1018.53 +COQ6 1173.53 801.295 1866.87 2040.97 833.596 737.678 298.666 854.428 965.1 413.875 981.781 738.125 1173.77 856.681 1383.03 877.9 1385.29 926.208999999999 2379.92 369.375 +COQ7 518.732 469.467 718.116 638.265 328.608 503.409 362.205 335.56 762.685 221.009 584.606 973.301000000001 411.199 977.314 774.956 881.591 690.763 717.773 638.478 612.5 +COQ9 1055.24 801.235 1883.57 1684.74 2114.71 1939.43 1180.27 2396.52 2345.14 1420.96 2102.42 8648.06 4240.95 2813.01 3460.43 2346.9 2354.75 3185.35 2243.36 1156.47 +CORIN 26.8972 36.6394 8.2951 60.4183 10.0594 38.1067 12.0182 45.2174 8.9852 4.0102 9.542 15.1699 25.4525 31.2772 12.898 5.5504 26.3275 10.6789 17.3831 35.3448 +CORO1A 604.227 104.684 75.2481 266.46 444.85 96.6707 2532.53 115.253 136.892 1875.91 320.611 959.951999999999 547.511 155.227 237.001 680.851 241.856 1847.44 149.871 32.7586 +CORO1B 2597.02 3141.72 2048.88 1927.96 2338.82 5349.38 2630.75 2271.75 1768.5 2734.1 2050.89 1554 3415.16 1319.82 1554.75 2407.03 1418.12 2642.26 2018.32 2396.55 +CORO1C 3246.88 5270.43 1475.34 1246.32 1264.13 1565.58 2750.1 2290.79 1300.74 3843.6 2494.91 4113.47 783.371 3063.23 2123.87 4224.79 2071.84 2112.13 788.349 11915.5 +CORO2A 6.244 163.871 171.826 45.701 278.311 6.418 31.4961 28.8983 21.1416 675.058 205.471 54.6117 6.7873 41.3167 10.7484 913.043 508.255 207.475 174.771 1.2931 +CORO2B 8.1652 42.6788 23.7002 44.1518 10.6183 23.6663 1368.01 13.5992 34.3552 87.3343 66.1578 13.9563 27.7149 18.5346 15.0477 48.1036 21.419 41.9527 77.0496 4.3103 +CORO6 127.281 14.4947 207.377 529.822 9.5006 30.0842 32.7393 10.5394 10.0423 46.7862 16.5394 51.5777 5.6561 94.2176 3.7619 20.3515 45.0692 19.8322 9.3963 106.034 +CORO7 710.975 826.975 1003.62 1076.13 870.229 573.875 2419.74 582.6 1424.72 671.587 859.198 658.847 633.705 1012.12 339.933 492.377 1161.01 1368.92 1446.95 2992.75 +CORT 8.732 1.6105 4.8052 27.3431 8.9417 6.2856 17.3933 11.8449 23.3245 12.766 8.2697 6.0862 7.3473 6.2438 10.0927 5.1434 20.6783 8.8482 5.7035 5.4828 +COTL1 1687.32 2351.76 1402.46 3579.4 539.297 450.862 5348.11 1134.51 1249.47 3983.07 1710.56 1194.17 1689.48 1392.8 1731.56 1838.11 4684.96 2388.25 1302.8 943.103 +COX10 239.193 539.525 133.314 123.935 241.426 263.137 380.025 386.217 152.22 166.202 199.109 940.534 193.439 228.594 145.64 303.423 153.503 153.318 279.54 283.19 +COX11 1033.64 705.183 738.492 642.432 968.448 780.092 726.308 791.678 796.417 792.724 790.509 2331.26 700.594 759.579 918.893 1009.52 806.626 508.406 1204.86 1049.2 +COX15 1267.08 2734.52 1635.68 1341.17 1719.3 1514.1 837.551 1606.1 1031.09 928.15 1125.87 2403.07 1225.61 1681.02 1316.56 1269.7 1176.03 1585.99 1812.19 1115.33 +COX16 1240.15 437.257 1488.96 1646.79 698.571 647.413 946.954 608.565 1082.98 1168.76 1371.5 821.602 1507.92 773.434 1426.31 1507.86 1609.1 861.174999999999 2125.44 459.914 +COX17 2982.71 1363.31 922.53 1829.59 1054 1191.74 499.378 811.193 1262.16 1000.78 2455.47 3326.46 1832.58 1047.98 888.889 2354.3 1125.39 1861.94 2234.91 1140.95 +COX18 1195 520.601 697.971 990.705000000001 804.195 548.335 308.744 782.975 831.924 135.457 984.733 1666.26 430.995 1679.7 719.065 1767.81 1908.97 1570.56 2202.02 359.483 +COX19 717.243 713.288 608.793 1511.21 3138.54 802.984 727.949 869.669 1283.25 337.079 490.223 358.21 512.698 912.548 1413.55 468.492 787.912 759.115 1323.87 368.685 +COX4I1 11593.2 3839.48 10078.5 21950.4 6703.49 6091.86 7851.64 9482.05 11692.9 11338.3 11283.7 21088 16497.2 10056.6 19214.8 14614.2 11773.3 13624 6776.6 4920.26 +COX4I2 22.5744 10.0658 16.5901 83.6561 20.1188 70.5977 176.544 159.791 60.7822 30.7452 24.8092 55.8252 44.6833 14.6732 13.4354 229.417 16.9567 16.0183 92.5534 7.7586 +COX4NB 565.802 506.509 862.687 741.286 357.668 455.275 815.168 800.313 933.404 890.721 566.794 762.743 1029.98 867.265 1246.81 673.451 1377.96 658.276 488.607 680.603 +COX5A 1531.7 736.411 1323.06 1106.12 1784.99 1693.14 1179.86 962.143999999999 2249.47 3267.02 2871.5 3323.42 3535.63 1314.03 1803.04 1223.87 1610.89 2504.2 3480.39 1141.81 +COX5B 4021.13 1600.86 2242.04 7101.47 5624.89 3160.05 2196.02 3236.27 3630.02 2631.61 5804.71 6536.41 5494.91 2015.25 3316.4 5189.64 3036.14 3469.11 2474.04 3132.33 +COX6A1 9831.41 3210.57 3730.41 10839.7 3747.13 4166.47 3629.92 5619.19 4753.7 3864.99 10007 9785.19 6854.64 5249.54 6304.98 6523.59 5372.16 7930.59 6759.69 3572.41 +COX6A2 0 13.2868 0 6.1967 1.6766 0 0 0 0 0.4456 0 0 0.5656 0.7723 0 0 1.3387 27.46 0.4698 0.431 +COX6B1 4281.94 1703.53 4515.48 10806.4 4218.25 5575.21 3835.89 5221.08 5996.83 6532.25 9484.10000000001 9220.26999999999 6053.73 4175.69 6088.41 7859.39 4571.62 6875.67 3416.49 2793.97 +COX6B2 0 0.4026 4.1475 336.173 11.1771 10.4292 2.0721 3.0598 6.3425 2.2279 0 0 1.6968 0 1.0748 0 7.5859 3.8139 0 59.4828 +COX6C 3115.27 1331.1 1706.41 5123.16 3038.5 2527.08 2052.22 3346.09 2213 2689.54 5994.91 8767.6 2335.41 4121.63 2027.14 3481.96 5278.89 5755.91 2946.68 2666.38 +COX7A1 4900.1 907.126 88.8757 290.473 807.548 44.1235 105.678 1757.02 69.7674 35.2011 141.221 2944.78 198.529 647.167 347.709 3156.34 188.755 1920.67 834.39 434.914 +COX7A2 3329.01 1401.96 1837.95 2904.72 3734.28 3088.25 2294.24 2004.86 4400.63 1490.03 4682.57 4705.7 7143.1 2019.89 2923.01 3152.64 2213.3 2502.67 6684.05 3800.86 +COX7A2L 4270.41 4135.01 3387.35 1685.52 10554 6560.77 3242.85 2476.76 3325.58 2193.16 2907.12 3390.78 8187.78 2463.56 9166.2 3691.95 2564.48 2864.99 4524.78 4116.81 +COX7B 2704.13 954.234 2274.63 4360.19 1486.56 1928.2 1825.94 1376.92 3378.96 3209.98 5217.56 9408.37 1852.94 2829.62 2356.04 3540.24 3047.75 4017.54 5623.21 1117.24 +COX7B2 45.6292 2.4158 0 0 0 0 0.4144 0 0 0 18.4478 0 0 0 0 0 0 59.4966 0 0 +COX7C 4266.57 2977.45 6447.64 9804.8 6007.15 5987.97 2702.03 4888.58 7731.5 4826.56 14553.4 18998.8 7243.78 5817.16 10129.2 10608.7 5837.57 7861.17 12737.6 3553.02 +COX8A 3783.38 3603.94 2864.76 6024.79 4528.97 5649.02 4125.98 2874.53 5482.56 3669.82 7783.08 4876.21 12121 2858.96 3187.96 3312.67 3722 4097.64 6076.58 4909.05 +COX8C 0 0.4026 1.185 0 0 0.8022 0 0 0 0.4456 0 0 1.6968 0 0 0 0 0 0 0 +CP110 139.769 275.802 365.575 323.005 125.184 294.825 263.572 160.471 340.38 417.957 226.463 269.418 198.529 351.385 309.015 187.789 504.239 345.538 167.724 368.966 +CP 6.7915 0.4469 24.5949 0 25.3386 0.4894 2.8429 0.34 44.186 17000.4 12.6018 19.5692 0.5656 18.6852 18.6699 55.2636 1.4145 38.36 2.2034 0.9741 +CPA1 0 2.4158 1.7775 0 105.065 0.4011 1.2433 0 16.9133 0 1.2723 0.6068 0 0 0 0 0 0.7628 2.3491 0 +CPA2 0 0 2.9625 3.0984 1.6766 0 9.5317 0 0.5285 0 0.6361 0.6068 2.2624 0 0 0 0.8925 1.5256 0 0 +CPA3 8.1652 47.913 243.519 17.0411 0 0.4011 67.9652 3.0598 379.493 18.2689 79.5165 52.7913 7.3529 12.3564 13.4354 13.876 97.278 23.6461 23.9605 4.7414 +CPA4 0.4803 1.6105 886.386999999999 37.9551 0 1.6045 54.7037 0 25.8985 0.4456 5.7252 30.3398 6.2217 1.9307 38.1567 181.314 4.9085 3.0511 9.3963 2.5862 +CPA5 0 0.8053 1.268 1.5492 0 0.8022 0 0 4.0486 0 0 0.6068 0 0 0 5.5504 0 19.55 8.4567 0 +CPA6 0 0 0.5925 0 1.1177 0 18.2346 0.34 0 0 0 2.4272 1.1312 0.3861 0 1.8501 0 0.7628 0.9396 0 +CPAMD8 40.8261 46.3025 75.8406 429.125 143.067 86.2415 55.1181 55.7568 286.469 3.1191 111.959 77.0631 33.371 529.781 55.8914 187.789 167.782 71.701 70.4722 196.983 +CPB1 2720.46 15277.4 29347.4 192.099 466.645 230.245 48.0729 387.917 5667.02 11.5852 15153.3 4788.23 3350.11 8636.35 4480.45 2333.95 16336 18230.4 1792.81 4445.26 +CPB2 0 0 0 0 0 0 0 0 1.0571 0.4456 0 0 0 0 0 0 0 0 1.4094 2.1552 +CPD 1333.81 1908.47 1050.51 659.179 2917.79 959.487 2115.62 1080.46 1085.62 3293.31 771.629 2438.11 688.348 1239.89 679.296 2175.76 638.554 688.024 1427.3 2272.41 +CPE 719.5 413.099 321.73 1040.28 6127.86 571.199 8522.59 1123.29 729.915 5989.08 847.964 1835.56 424.208 1253.02 849.12 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3727.1 2666.67 3795.58 14181.3 11806.9 +CXCR5 3.8425 20.9368 1.7775 4.6476 1.1177 0 1.2433 0.34 0.5285 7.1293 3.8232 0.6068 1.1312 1.1584 0.5374 3.7003 1.7894 23.6461 10.8198 4.3103 +CXCR6 2.4015 21.3394 0.5925 0.7746 25.1486 0 210.112 2.0399 2.6427 104.712 4.4529 98.301 0 0.3861 1.6123 61.0546 31.2361 199.847 4.6981 0 +CXCR7 216.138 631.727 904.755 201.394 66.5039 584.837 1671.78 876.469 245.772 1732.43 251.908 61.2864 775.452 466.84 317.614 100.833 1072.29 199.847 185.577 1309.48 +CXorf1 0 0 0 0 0 0 0 0 0 0 0.6361 0.6068 0 0 0 0 0 0 0 0 +CXorf21 14.8895 7.65 1.7775 2.3238 10.6183 2.4067 44.7576 4.0798 6.3425 21.8336 8.2697 57.6456 6.2217 5.0198 9.6735 10.1758 2.6774 38.9016 7.517 0.431 +CXorf22 0.4803 0 1.185 0.7746 0 0 0 0.34 2.6427 0 0.6361 6.6748 0 1.1584 0 0 2.6774 0 0 0 +CXorf23 109.03 139.31 186.047 130.132 57.5622 81.428 113.137 86.015 156.448 97.1371 151.399 145.024 55.4299 129.742 68.252 116.559 74.9665 127.384 145.643 136.638 +CXorf26 912.104 473.493 485.261 642.138 499.059 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824.994 288.362 +CYB5R1 1078.29 2284.12 1030.96 718.048 2695.92 2347.37 616.66 1139.61 1285.94 1200.4 1158.4 1308.86 2992.08 1015.54 1041.52 983.349 435.966 1145.69 2263.57 1249.14 +CYB5R2 600.865 96.2287 33.7728 116.189 568.916 14.4404 9.9461 71.3958 63.9535 20.4968 217.557 1.2136 2.8281 70.6632 1.0748 18.5014 283.802 32.7994 17.8529 2.5862 +CYB5R3 3543.71 5524.09 17785.8 5731.99 25400.6 3994.38 4489.85 4062.76 14833.5 9135.79 3593.51 3118.33 4287.9 6175.11 11972.1 4520.81 13394.9 5245.61 7230.91 9365.09 +CYB5R4 144.572 153.805 120.278 56.5453 339.226 92.6594 363.448 157.071 242.072 154.172 302.799 291.262 123.303 169.128 171.974 171.138 120.036 192.22 713.178 262.931 +CYB5RL 16.3305 78.1103 33.7728 27.1108 35.7668 44.9258 32.7393 23.7986 33.8266 36.0922 12.7226 69.1748 9.6154 48.6533 72.5514 18.5014 23.2039 30.5111 74.2307 16.3793 +CYBA 452.45 224.265 270.182 393.493 665.039 300.842 3582.26 226.767 283.298 5919.57 412.214 611.65 1027.71 165.653 265.484 737.28 300.759 1635.39 321.353 787.069 +CYBASC3 1285.3 1308.95 2461.26 1701.01 8323.61 1861.61 1831.33 1407.52 2641.12 3019.27 2746.18 8067.96 2539.03 2438.85 1084.51 2138.76 1545.74 2736.84 4856 1242.67 +CYBB 328.53 135.686 31.9953 54.2215 719.807 49.3381 3464.98 54.0569 103.594 1089.45 157.125 1035.19 234.728 69.1186 161.763 278.446 58.9023 459.954 219.873 21.5517 +CYBRD1 1402.5 2516.04 244.112 1086.75 2102.98 1471.32 8970.58 921.006 151.163 3494.71 1134.86 1708.74 1043.55 874.216 240.226 5377.43 1253.46 1703.28 452.901 2451.72 +CYC1 4594.14 2693.6 2151.98 2757.55 4746.93 3754.91 2128.06 7090.97 2291.23 6099.14 6015.9 11606.2 10011.9 6004.83 4740.02 2986.12 6657.74 5652.94 3949.26 4600.86 +CYCS 3278.58 2149.64 6348.69 4723.47 2448.91 6050.54 3130.13 2125.56 5937.1 4157.74 2433.21 8720.87 4338.8 5856.94 8262.8 2668.83 7426.15 4388.25 7147.29 5665.95 +CYCSP52 0 0 0.5925 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CYFIP1 1748.32 2072.34 1228.26 1446.17 1790.58 1446.85 2350.19 1246.03 2252.64 2284.95 1689.57 1499.39 1872.74 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1189 0 0 62.9921 0 1.0571 10.694 679.389 0 0 0.7723 6.9864 522.664 7.5859 68.6499 0 0 +CYP11A1 15002.4 9199.3 46384.8 23606.5 130247 47821.1 45.172 19228.3 68377.4 228.584 111913 7706.31 99661.7999999999 29863.1 109979 7447.73 10520.3 60611 247238 17952.6 +CYP11B1 3094.14 17.7157 31469.7 1068.16 201267 53464.1 13.2615 36.7179 7012.16 9.8028 223.919 23313.1 56709.3 7737.43 25011.4 8179.46 302.99 7081.62 2658.21 8787.5 +CYP11B2 1534.1 71.2656 5342.02 5.4222 151.45 30.0842 0 311.422 215.116 0.4456 55.3435 35.801 2.2624 124.722 2.6871 9.2507 376.618 2204.42 462.767 206.035 +CYP17A1 17216.6 4164.04 292826 226417 508721.999999999 591545 87.385 1687.22 318228 298.095 377126 585.388 344471 176621 180698 2995.32 27471.2 252717 194560 360178 +CYP19A1 297.31 1.6105 177.751 958.947 11.736 10.0281 889.349 7.8195 229.915 9.8028 3987.91 3.6408 21.4932 133.99 392.315 7.4006 146.81 26.6972 2114.63 11.2069 +CYP1A1 0.9606 5.6368 4.74 11.6189 5.0297 30.4854 32.3249 4.0798 26.9556 0 3.1807 1.2136 24.3213 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41.6281 640.785 9.9161 3.2887 559.483 +CYP26C1 0 5.6368 0 1.5492 0 0 0 0.68 0 0 0.6361 0 0 0 0.5374 0 0.4462 0 0 0 +CYP27A1 1415.95 1852.1 56.288 108.443 6292.17 1284 1348.11 1296.68 99.3658 826.557 3430.66 2477.55 1727.94 472.632 136.504 7057.35 572.958 5017.54 1470.99 676.293 +CYP27B1 74.928 229.499 80.5807 158.792 32.9725 230.245 13.2615 50.6571 74.5243 21.8336 43.257 84.9515 189.48 121.247 264.409 35.1526 152.164 44.241 27.7191 231.465 +CYP27C1 0 0.4026 0 7.7459 0 0 30.2528 0 0 19.1601 0.6361 3.6408 0.5656 0.3861 0.5374 0 2.6774 0 0 0 +CYP2A13 0 0 0.5925 0 2.7943 0 0 0 0.5285 0 0 0 0 0 0 0 0 0 0 0 +CYP2A6 5.7637 0 7.7026 71.2626 91.6525 0 0 0.34 5.814 0 28.626 1.2136 2.8281 1.9307 1.0748 12.0259 26.7738 3.8139 17.8529 0 +CYP2A7 0.4803 0 0 8.5205 0.5589 0 0 0 1.5856 0 0.6361 0 0 0.3861 0 0 0.4462 0 1.8793 0 +CYP2B6 0 0 0 0.7746 0 0.4011 0 0 0.5285 0 0 0 0 0 0 0 0.4462 0 0 0 +CYP2B7P1 0 0.8053 23.7002 102.246 7.824 10.8303 1.2433 36.7179 127.907 0 27.3537 7.2816 1.6968 3.8614 10.7484 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1663.54 7114.42 3550.39 5232.33 +DLGAP1 4.3228 5.2342 2.37 1.5492 56.4445 1.2034 48.9018 4.7597 0.5285 0.4456 0 6.6748 2.8281 1.5446 3.2245 0.9251 1.7849 0.7628 54.4985 2.5862 +DLGAP2 1.4409 1.2079 0 37.1805 39.12 0.8022 1.2433 16.3191 4.2283 0 1.9084 0.6068 0 0.7723 1.0748 2.7752 0.8925 0 0 0 +DLGAP3 109.03 383.304 45.0304 316.809 123.507 52.5471 18.2346 231.187 49.1543 19.6057 192.748 15.1699 61.086 121.633 145.64 16.6512 153.949 56.4455 98.1912 216.81 +DLGAP4 3709.41 3673.6 1846.84 1742.84 1540.77 1249.9 2549.94 2890.85 1390.59 1390.22 2741.73 3280.34 2392.53 3737.43 2774.15 3458.83 3011.6 2932.11 1766.03 1635.78 +DLGAP5 16.3305 59.1867 75.2481 278.079 1.6766 566.787 179.03 43.5175 492.072 846.162 135.496 8.4951 316.742 10.0396 370.281 12.0259 366.8 43.4783 169.603 470.69 +DLK1 10376.6 277539 416719 352042 127869 396476 2948.61 170802 170288 368.943 592976 464.199 405359 88423.2 171218 164524 60971.9 13920.7 363518 276582 +DLK2 3.3622 26.9762 1.7775 141.751 78.7988 5.2146 3.7298 46.5773 4.2283 137.24 33.715 3.034 186.086 1.5446 0.5374 12.951 37.037 2.2883 11.2755 10.7759 +DLL1 466.859 126.426 32.5878 707.978 157.039 216.205 228.761 450.134 160.677 1329.62 413.486 89.8058 107.466 125.495 192.395 204.44 241.41 51.106 155.978 259.914 +DLL3 12.9683 23.7552 6.5176 202.169 4.4709 18.8528 0 135.312 2.1142 16.041 12.7226 0.6068 21.4932 95.7621 7.5238 24.9769 71.8429 3.8139 0 9.0517 +DLL4 500 805.663 350.17 426.026 435.908 567.589 852.051 1650.26 309.725 240.169 625.954 459.952 459.276 458.345 648.663 506.013 469.88 806.255 404.98 146.983 +DLST 1472.14 1614.55 5511.48 2848.18 3177.1 2151.22 1786.16 2433.92 2280.66 2059.49 2627.23 2456.92 4495.48 2538.08 5143.09 2200.74 4193.66 1267.73 5160.44 1320.26 +DLX1 438.04 5.6368 1.7775 111.541 1.6766 34.4966 159.967 59.4965 2.6427 0.4456 9.542 3.6408 126.697 9.2673 3.7619 17.5763 47.7465 0 1.8793 44.8276 +DLX2 17.7714 3.6237 2.37 17.8156 0.5589 7.6213 20.3067 8.1595 2.6427 0.8912 4.4529 0 15.2715 7.3366 3.7619 2.7752 9.817 0.7628 0.4698 9.0517 +DLX3 235.351 8.0526 41.4753 45.701 3.3531 0.4011 9.5317 3.3998 0 3.1191 80.7888 3.034 0 54.0593 5.9116 9.2507 15.618 19.0694 19.7322 0.8621 +DLX4 28.8184 4.4289 12.4426 60.4183 3.3531 0.4011 4.1442 46.2373 11.6279 12.9219 13.9949 0 33.371 11.198 0 0 8.0321 3.0511 6.5774 123.276 +DLX5 294.909 13.2868 241.149 697.134 12.8537 371.44 122.254 673.501 26.4271 6.2382 124.046 25.4854 39.0271 162.178 431.009 135.06 231.593 47.2921 28.6587 9.9138 +DLX6 340.538 5.2342 15.9976 95.275 3.3531 159.246 2.0721 412.736 23.7844 0 73.1552 1.8204 67.3077 193.069 142.953 6.4755 270.861 15.2555 7.9868 75 +DLX6AS 10.0865 4.8316 3.555 32.5329 0 37.7056 0.8288 70.0359 5.2854 0 6.3613 0.6068 11.3122 20.0792 12.3606 0 60.6872 0.7628 2.3491 11.6379 +DMAP1 2269.45 1296.07 4977.63 3002.32 1022.71 2663.46 979.693 1759.4 2065.01 1474.43 5234.73 805.218 7474.55 2412.59 2126.56 1197.96 4004.91 3046.53 2296.92 1369.83 +DMBT1 0.9606 0 2.37 0.7746 0 0.4011 9.5317 0 0.5285 1015.93 1.9084 6.6748 1.1312 1.1584 0 1.8501 4.0161 0.7628 8.9265 0.8621 +DMBX1 1.9212 1.2079 2.37 276.53 0 6.0168 3.7298 3.7398 13.7421 3.1191 85.2417 0 11.3122 0.7723 37.6192 0 39.2682 1.5256 0.4698 22.4138 +DMC1 2.4015 0.4026 1.185 7.7459 1.6766 4.0112 1.6577 0 2.1142 51.6876 1.2723 0.6068 1.1312 0.3861 3.2245 0 12.4944 1.5256 0.9396 3.4483 +DMD 1303.55 428.801 500.667 147.947 220.748 263.137 150.85 623.184 179.704 21.388 372.137 193.568 166.855 1058.02 73.6262 285.846 549.308 1007.63 161.146 743.534 +DMGDH 1.9212 220.239 113.761 80.5577 148.097 66.9876 24.8653 3.0598 15.3277 5.7926 15.2672 70.9951 0 420.89 53.7418 126.734 80.3213 66.3616 65.3042 1.7241 +DMKN 289.145 48.7183 451.489 649.109 6.1474 556.358 27.3518 44.1974 540.169 344.881 402.672 1.2136 701.357 8.1089 152.627 2.7752 195.002 0.7628 155.039 211.207 +DMP1 0 0 0 6.9713 0.5589 0.4011 3.7298 1.3599 0.5285 0 1.9084 1.8204 0 0 0.5374 1.8501 0 0.7628 3.7585 0 +DMPK 382.325 1072.2 3460.23 2303.64 6069.18 9947.05 1670.53 1358.56 2493.66 824.329 2961.83 8420.51 9916.86000000001 1616.76 4757.22 8901.02 1355.2 1434.78 2588.21 5856.47 +DMRT1 0 2.4158 2.37 0.7746 0 0 0 0 3.1712 0 0 0 0.5656 23.5544 9.1361 0 0 0 0.9396 0 +DMRT2 0 0 1.185 63.5167 0 0.4011 1.2433 0.68 5.814 0 0 0.6068 1.6968 0.7723 1.0748 0 4.0161 1.5256 0.4698 0 +DMRT3 0 0.4026 0.5925 3.873 0 0.4011 13.2615 0 1.5856 1.7823 0 0 0 0 0 0 0.4462 0 0 0 +DMRTA1 26.8972 1.6105 34.3653 60.4183 40.7965 4.0112 24.8653 3.7398 145.349 60.1537 31.8066 46.7233 137.443 122.792 102.109 12.0259 11.602 3.0511 51.6796 40.9483 +DMRTA2 36.0231 4.0263 1.7775 19.3648 0.5589 0 0 1.0199 0 7.1293 1.2723 1.8204 2.2624 0.3861 0.5374 0.9251 3.5698 0.7628 0.4698 1.7241 +DMRTB1 0 0 0 0 0.5589 0 0.4144 0 0 0 0 0 0 0 0 0 0 0 0 0 +DMRTC1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +DMRTC1B 4.8031 0 5.3325 46.4756 0 0 0 18.6989 2.1142 0 0 0.6068 0 11.9703 0 0 4.4623 1.5256 8.4567 0 +DMRTC2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +DMTF1 1077.36 1138.77 978.818 1890.57 604.169 509.049 680.895 816.017 917.082 865.799 743.67 838.877 197.964 909.767 597.098 533.802 944.221 1244.29 608.927 540.138 +DMWD 298.751 790.766 736.484 429.125 562.21 570.798 571.488 1259.63 689.218 551.186 760.814 674.757 638.575 796.602 712.078 792.784 670.236 553.776 337.797 720.69 +DMXL1 640.73 801.235 1148.27 1507.36 810.342 731.247 264.816 839.071 924.419 399.688 1179.39 1007.28 334.276 928.661 1024.86 768.733 888.889 777.269 1227.16 533.621 +DMXL2 435.159 883.371 398.163 551.51 279.428 288.006 574.389 335.221 557.082 502.618 483.461 433.252 166.855 383.821 389.628 246.994 302.543 681.922 772.375 229.741 +DNA2 34.1018 77.7077 30.2177 162.665 17.8834 168.873 47.6585 48.9572 66.0677 215.217 65.5216 38.835 50.905 20.8514 39.2315 26.827 75.4128 79.3288 32.887 250 +DNAH10 1.9212 18.521 11.2576 110.767 2.7943 7.2202 242.851 4.0798 82.4524 2.2279 4.4529 3.034 12.4434 5.0198 5.3742 4.6253 70.058 16.7811 28.6587 5.1724 +DNAH11 2.9875 282.353 2820.65 655.995 323.243 1059.96 5.1927 155.697 1250.86 33.6861 9.2748 116.098 105.085 988.296 4193.32 151.277 71.9545 14.0198 1021.11 458.935 +DNAH12 7.6849 0.8053 17.1826 21.6886 3.3531 33.2932 2.0721 0.34 82.4524 0 42.6209 5.4612 16.9683 13.5148 5.9116 5.5504 2.2311 78.566 4.6981 15.5172 +DNAH1 201.249 549.591 227.522 621.224 182.187 316.085 178.201 176.11 153.805 41.4392 450.382 333.738 40.1584 159.475 81.1501 208.141 42.838 449.275 21.6115 125 +DNAH14 74.928 164.273 38.5128 235.476 8.3829 56.9595 1.2433 62.5564 9.5137 133.675 102.417 69.1748 62.2172 77.2275 0 49.0287 46.4079 49.5805 59.6664 77.1552 +DNAH17 31.7003 33.0157 15.9976 120.062 216.395 22.4629 86.5935 19.7189 21.0624 37.986 23.5369 16.9903 33.2183 15.8316 29.558 14.8011 16.9567 28.9855 7.517 37.7931 +DNAH2 5.2834 0.8053 6.5176 6.9713 8.9417 1.2034 2.0721 1.6999 0.5285 5.7926 154.58 1.8204 1.6968 3.0891 1.6123 0.9251 6.2472 0.7628 2.3491 3.4483 +DNAH3 10.0865 0 0 2.3238 0 0 0.8288 0.34 3.1712 17.8233 0 0.6068 0 0.3861 1.0748 0 3.1236 0.7628 1.4094 0.431 +DNAH5 0 0 46.8079 11.6189 45.8262 99.8797 7.874 7.4796 7.9281 2.2279 8.9059 4.2476 24.3213 69.5048 11.2858 4.6253 70.9505 0.7628 31.4776 1.2931 +DNAH6 0.4803 4.4289 2.9625 0 10.6183 4.4124 2.4865 2.0399 6.871 3.5647 9.542 3.6408 0.5656 6.9505 3.7619 12.951 4.0161 0.7628 0 2.1552 +DNAH7 24.976 4.0263 10.0726 17.8156 7.2651 6.0168 5.3875 18.019 26.4271 9.8028 50.8906 55.8252 1.1312 71.4355 22.5715 20.3515 161.089 19.8322 7.9868 1.7241 +DNAH8 0.4803 0.8053 1.185 3.873 0 2.0056 0.4144 0 2.6427 0 0 0 1.1312 0.3861 16.6599 0.9251 2.2311 0.7628 2.3491 40.9483 +DNAH9 32.6609 2.0132 57.473 13.1681 9.5006 3.209 0.4144 33.998 93.5518 0 13.9949 72.2087 0.5656 61.3959 15.0477 13.876 10.7095 11.4416 98.1912 0 +DNAI1 0 0.8053 0.5925 0.7746 0 0.8022 0.8288 1.0199 0 0.8912 1.2723 27.9126 0.5656 4.6337 0 14.8011 3.1236 0 0 0 +DNAI2 0 0 0 0 0 0 0.4144 0.4794 0.5285 0 0 0 0 0 0 0 0 0 1.8793 0 +DNAJA1 2885.69 2058.25 2062.51 1807.9 4242.84 4081.43 2452.13 1723.7 2882.14 8975.83 3440.84 2828.88 3234.73 4880.01 5669.76 2814.06 2790.72 3599.54 3510.92 2305.6 +DNAJA2 2644.57 1747.82 2660.35 2756 1721.28 1602.09 1171.57 3363.42 2408.03 892.058 3533.72 3030.95 2128.39 4054.45 2680.64 3912.12 3688.53 1767.35 2111.82 1900.86 +DNAJA3 905.86 2420.61 4101.32 1452.36 2368.43 1884.48 1302.94 2921.11 2350.95 1342.54 2110.69 4727.55 2335.41 3964.09 6802.63 2116.56 3646.14 2520.98 3490.72 1930.17 +DNAJA4 811.72 434.841 386.906 435.322 1092.56 690.333 95.7315 653.102 34.8837 777.988 396.947 277.913 643.665 545.612 58.0411 145.236 551.986 1772.69 761.569 381.466 +DNAJB11 1122.48 1520.33 1080.73 1174.28 625.361 1861.21 1395.36 830.912 1204.02 4544.06 1110.05 1211.77 1765.84 776.523 952.304 1109.16 958.947 1099.92 1027.48 1803.45 +DNAJB12 1948.61 2308.68 1134.65 2766.85 1534.06 2809.87 1947.37 2553.93 2390.06 2423.97 2398.86 2441.75 1549.21 1794.77 1153.3 2308.05 1368.59 2021.36 1766.03 1462.93 +DNAJB1 3759.85 5877.2 5834.39 3675.45 9505.03 7739.67 2430.17 7434.35 4323.47 1461.96 9164.12 4006.07 6711.54 6702.19 8248.29 7563.37 4066.93 11690.3 3809.73 8696.55 +DNAJB13 0.4803 0.8053 1.185 8.5205 1.6766 12.4348 7.0452 0.34 5.814 0.8912 1.2723 6.068 0.5656 1.5446 1.0748 0.9251 1.3387 0 2.8189 1.2931 +DNAJB14 221.422 327.339 257.74 240.899 201.188 184.115 115.209 391.317 400.106 178.679 315.522 326.456 132.353 301.96 197.77 478.261 121.821 352.403 630.491 224.569 +DNAJB2 6866.47 1699.91 2953.04 1969.79 5707.6 3225.03 2367.18 2628.73 4811.31 1789.02 3413.49 1925.97 2880.09 1764.26 2542.52 3324.7 2308.79 3291.38 2563.78 1914.66 +DNAJB3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1.5256 0 0 +DNAJB4 470.221 995.302 487.632 145.624 585.123 726.033 394.53 477.672 665.433 428.205 263.359 274.272 317.308 544.454 649.738 318.224 259.705 907.704 700.493 696.121 +DNAJB5 419.308 201.315 534.439 1342.37 56.4445 357 121.011 128.512 706.131 430.433 293.257 305.825 272.059 262.188 691.657 276.596 201.696 280.702 286.587 242.241 +DNAJB6 2164.27 1202.66 2076.73 2577.85 2128.13 1610.91 1365.52 2332.6 1753.7 2262.23 1300.25 1159.59 656.109 2322.23 2748.89 1261.79 2979.03 3343.25 3941.27 912.5 +DNAJB7 4.5053 3.6116 1.2798 2.409 1.196 2.154 2.184 0.7242 1.7019 3.2661 0.6616 0 0.5826 5.4021 0 0.9251 4.2347 1.5942 1.0148 0.9224 +DNAJB8 0 0.4026 0 0 0 0 0.8288 0 0 0 0 0 0 0 0 0 0 0 0 0 +DNAJB9 1204.61 2141.99 3750.56 688.614 1515.62 1943.44 806.879 2016.42 1429.7 605.993 1440.84 1501.21 804.299 6307.56 1419.86 1760.41 1722.89 2509.53 3052.85 1129.31 +DNAJC10 1092.22 1907.26 1199.23 1048.02 938.879 1130.77 1980.52 1025.72 729.387 1641.97 700.382 809.466 517.534 1078.48 1237.14 1209.99 656.85 829.901 897.815 1659.91 +DNAJC11 1181.02 748.429 1381.79 1053.37 1762.57 1286.69 1122.62 736.724 1513.29 1614.35 915.452 955.534 1057.26 1292.24 1962.07 549.528 1212.27 839.909 1390.05 921.302 +DNAJC12 533.141 25.7683 1000.74 374.903 663.363 688.728 304.6 1006.68 159.619 131.447 641.221 487.864 223.416 742.157 45.1431 490.287 217.76 1419.53 86.4459 430.603 +DNAJC13 475.024 2912.23 682.566 491.092 813.136 928.199 1227.52 853.35 644.292 950.875 730.28 1899.27 588.801 717.444 765.82 853.839 531.459 658.276 805.732 1315.09 +DNAJC14 1822.13 2269.37 812.68 1015.07 989.226999999999 1177.67 1273.44 1460.35 1221.5 853.015 1385.93 1282.54 619.242 1290.23 1083.12 1275.52 1398.35 1284.32 1837.12 914.004 +DNAJC15 1401.06 542.746 1055.84 1203.72 950.615 493.382 246.167 629.643 969.345 1511.86 1527.35 669.903 57.6923 1128.29 903.937 960.222 23.6502 336.384 2432.23 825.431 +DNAJC16 656.1 572.138 600.207 401.239 398.465 589.25 415.665 477.672 613.108 528.907 326.336 395.631 566.177 524.761 589.547 329.325 496.207 354.691 387.597 385.776 +DNAJC1 1124.88 1536.44 1090.8 1398.14 3912 2178.5 719.022 1106.98 1992.6 1420.07 2510.18 1972.69 636.312 2709.14 1842.27 2166.51 1236.06 2334.1 1034.53 1104.31 +DNAJC17 371.758 113.542 205.599 426.026 403.495 189.33 241.194 277.424 544.398 530.244 578.88 172.937 432.692 178.396 309.015 291.397 306.56 487.414 386.188 177.586 +DNAJC18 107.589 208.562 245.889 147.173 127.419 111.913 176.129 321.961 151.691 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298.974 497.33 1256.28 18.5345 +ENPP5 15.8501 95.4234 1067.69 157.242 298.988 676.294 1.6577 88.7348 272.199 0 634.224 496.966 58.8235 233.227 38.6941 644.773 416.332 221.205 1337.56 9.9138 +ENPP6 11.5274 607.167 28.4402 590.24 5.0297 1759.33 101.948 8.1595 348.309 0.8912 489.822 16.3835 553.167 0.7723 46.2179 54.5791 267.291 19.0694 231.149 194.397 +ENPP7 0 1.2079 0 0.7746 24.0308 2.4067 0 0.34 0 0 0 1.2136 70.7014 1.9307 0 0 7.5859 0.7628 0.4698 0.431 +ENSA 4137.37 4216.35 1926.23 2839.66 3390.58 6172.88 3121.43 2305.41 3715.64 8524.45 2969.47 2628.64 4071.83 2168.16 2950.42 2193.34 1976.35 3700.23 2827.34 4794.4 +ENTHD1 0.4803 0.4026 0 0 0 0 4.9731 0 2.6427 0.8912 0 0 0 0 0.5374 0 0.8925 0.7628 0 0 +ENTPD1 2180.6 1424.91 724.041 914.794999999999 486.205 2362.53 1261.09 2963.95 683.932 1017.27 1769.72 1211.13 1045.25 1480.84 694.881 1249.77 836.68 2453.09 1095.14 1231.44 +ENTPD2 3.8425 2.0132 11.8501 123.935 2.7943 20.8584 1.2433 5.0997 6.3425 1.3367 12.7226 3.6408 10.7466 1.1584 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480.521 790.86 699.689 466.907 513.469 1010.08 666.49 1229.36 1269.08 1224.51 759.05 1080.8 662.099 925.994 1318.16 926.774 656.801 1145.26 +EOMES 1.9212 6.4421 30.8103 0 3.3531 1.2034 22.3788 0.34 8.4567 37.429 78.8804 34.5874 0 60.2375 22.0341 183.164 8.9246 84.6682 28.6587 6.4655 +EP300 971.662 2743.12 1479.48 1141.75 742.162 1567.59 685.454 825.132 932.874999999999 1458.84 550.891 781.553 334.276 1051.45 747.011 722.478999999999 1295.4 833.715 1169.84 1506.47 +EP400 2356.87 4064.55 2966.67 4419.83 1012.65 3109.51 1794.45 2139.5 1165.96 1098.81 1760.18 988.470999999999 2579.19 851.820000000001 2775.76 968.548000000001 3927.71 1456.14 1665.96 2459.05 +EP400NL 226.225 234.733 172.419 369.481 48.6205 231.849 244.923 149.251 103.594 184.917 101.781 131.068 142.534 96.5344 188.634 88.8067 156.626 138.825 41.8135 121.552 +EPAS1 1505.76 4121.73 2199.97 1402.01 5576.83 3012.84 5871.53 5695.01 2065.54 5010.58 2250.64 3567.35 1786.76 2201.76 4173.05 6339.5 1165.1 2170.1 3558.37 1232.76 +EPB41 1279.9 1040.79 533.521 559.032 713.034 495.824 567.737 242.817 916.036 374.767 354.154 804.988 106.889 515.316 322.499 554.459 256.738 845.919 1272.84 312.496 +EPB41L1 12352.5 9573.75 6795.44 8542.99 3181.57 9651.42 1253.63 12362.7 7747.36 191.155 22135.5 1942.96 13310 11213.4 12500.9 1049.03 12313.7 11138.8 17747.7 12214.2 +EPB41L2 1297.79 1411.62 196.119 243.997 1155.72 361.011 2907.58 695.939 590.909 447.365 1012.09 692.961 418.552 335.94 183.797 862.165 477.912 859.649 944.797 865.948 +EPB41L3 2861.67 310.025 1599.76 661.503 804.195 1390.69 2060.92 1105.28 717.759 348.892 418.575 1521.24 1375.57 2051.55 3083.17 1454.21 810.352 1193.75 1443.74 3264.22 +EPB41L4A 995.197 385.317 190.194 356.313 126.302 675.09 125.984 487.532 88.2664 175.56 745.547 330.704 299.208 889.275 113.933 527.289 390.005 380.625 451.962 359.483 +EPB41L4B 657.061 1418.06 597.837 981.41 3290.55 2044.12 4.5586 1195.03 2200.32 11.1396 519.084 419.296 2322.96 1471.96 2504.37 389.454 746.096 672.006 828.283 970.259 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1248.3 4907.42 2511.89 2277.52 2035.7 2392.07 1143.53 855.603 +EPGN 0 0 0 1.5492 0 0 0 0 0 0.4456 0 0 0 0 0 0 0 0 0 0 +EPHA10 6.244 18.1184 53.3254 142.525 7.2651 144.404 3.7298 5.0997 105.18 4.4558 99.2366 80.0971 14.7059 146.732 19.8845 25.9019 14.2793 44.241 88.3251 28.0172 +EPHA1 5.2834 3.6237 0.5925 1.5492 0 0 24.8653 0.34 0.5285 5.347 0 15.7767 1.1312 0.7723 0.5374 15.7262 3.1236 13.73 1.4094 0 +EPHA2 53.3141 229.499 120.871 190.55 127.978 204.974 159.967 107.434 122.622 4806.51 157.761 231.189 108.032 145.188 75.7759 382.054 39.7144 183.829 175.241 80.1724 +EPHA3 76.8492 274.191 72.2856 20.1394 0 58.564 269.789 28.5583 45.9831 2.6735 26.7176 3.6408 48.6425 57.5345 65.565 67.5301 200.357 143.402 16.9133 34.0517 +EPHA4 94.1402 41.0683 128.573 872.967 38.5611 475.331 36.4691 741.837 237.844 4.4558 198.473 54.6117 435.52 142.099 282.682 418.131 454.712 49.5805 258.398 784.052 +EPHA5 2.8818 0.4026 0.5925 1.5492 0 0 14.0903 0 5.2854 0 1.9084 8.4951 15.2715 0.7723 3.7619 0 3.5698 0 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27514.9 5295.39 13305.3 7666.15 35928.3 16668.3 304.186 10777.7 12905.9 1142.92 17739.8 8786.41 45707.6 16211.2 14427 5382.05 14251.7 13554.5 21751.5 17221.1 +FECH 402.017 983.223 721.671 223.857 639.332 457.682 721.923 449.794 664.905 219.673 182.57 712.379 403.846 581.909 720.677 295.097 494.868 176.964 873.855 773.276000000001 +FEM1A 1171.47 1271.91 1997.33 1840.43 796.371 2162.45 716.535 2302.01 2084.57 518.213 1358.78 1754.85 1622.17 2379.38 2061 1181.31 2000 1321.89 1381.25 1915.95 +FEM1B 1495.68 2011.94 1039.25 877.614 1268.6 766.546 1213.01 1542.15 1826.11 1568.45 1395.67 1241.5 820.136 1190.46 924.359 1355.23 844.712 1726.16 2807.14 1231.9 +FEM1C 522.094 411.488 1020.29 679.318 723.161 521.059 606.714 639.503 1023.78 372.953 1008.27 793.082 386.312 714.741 637.915 799.26 626.06 668.955 675.593 513.362 +FEN1 460.135 349.483 695.008 618.125 172.687 1919.37 995.441 652.762 1688.16 2221.23 618.957 384.709 3062.22 742.543 740.024 265.495 1552.43 450.801 603.242 2680.6 +FER1L4 61.9597 87.3708 14.8126 21.6886 117.36 56.1572 245.752 35.6979 24.3129 110.505 15.2672 19.4175 313.348 11.5841 5.3742 48.1036 44.1767 374.523 1.4094 390.948 +FER1L5 10.0865 5.6368 8.8876 6.9713 18.4423 20.4573 2.0721 13.9392 5.814 0 4.4529 4.8544 11.3122 0.3861 0.5374 0.9251 4.4623 0.7628 89.7346 14.6552 +FER1L6 0 1.6105 0 0.7746 0.5589 0.4011 2.901 0 0 1.3367 0 0 0 0.3861 0 0.9251 1.3387 0 0 0 +FER 25.9366 71.2656 30.2177 20.914 20.1188 48.1348 25.2797 47.9372 58.6681 65.9463 64.2494 27.3058 14.1403 32.0494 26.8709 33.3025 14.2793 9.1533 60.1362 51.7241 +FERD3L 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +FERMT1 0.9606 135.284 62.213 27.8854 277.752 194.545 86.6142 208.068 9.5137 59.2626 238.55 413.228 103.507 773.434 442.295 1891.77 13.8331 542.334 53.5588 84.0517 +FERMT2 171.47 1039.19 405.273 448.49 692.423 351.785 1376.71 552.468 615.222 1313.58 460.56 605.582 230.204 272.227 348.784 854.764 308.791 256.293 546.394 871.121 +FERMT3 175.792 219.836 212.117 278.854 546.003 69.3943 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352.988 218.815 124.433 383.192 75.7491 236.005 468.447 183.823 430.543 344.485 296.022 141.455 92.296 276.721 185.776 +FGD5 135.927 487.988 96.5783 105.345 329.167 303.249 274.762 478.692 112.579 133.229 248.092 259.709 367.647 187.663 175.198 501.388 139.67 228.07 244.773 58.1897 +FGD6 654.179 973.56 374.463 164.214 267.692 580.826 358.06 304.962 70.8245 420.63 540.076 287.621 140.272 415.87 143.49 616.096 202.142 323.417 267.324 314.224 +FGF10 0 0 6.5176 0 0 0 13.2615 0 3.1712 0 0 2.4272 0 0 0 0.9251 0 0.7628 0 1.2931 +FGF11 946.206 783.825 433.121 184.353 246.579 18.8528 29.424 20.3988 121.036 309.235 36.2595 6665.01 105.769 49.0704 23.109 92.5069 1178.05 28.9855 305.379 47.8578 +FGF12 1459.17 1429.74 749.519 345.469 10.6183 161.251 8.7029 1134.51 10.0423 4.0102 126.59 217.233 411.199 782.701 371.356 863.09 460.062 0.7628 22.0813 965.517 +FGF1 4.8031 21.3394 49.1779 5.4222 2.2354 4.4124 122.254 20.0588 22.7273 5.347 1.2723 30.3398 5.6561 18.1485 2.1497 54.5791 7.5859 4.5767 4.2283 1.2931 +FGF13 158.501 679.237 13.6276 27.1108 73.2102 20.8584 152.922 26.8584 179.175 2.2279 33.715 37.0146 1.6968 12.3564 46.7553 36.0777 1750.11 22.1205 163.965 2.1552 +FGF14 13.4486 34.2236 4.1475 22.4632 2.7943 1.2034 113.552 5.0997 21.1416 0 32.4427 23.0583 5.6561 33.594 13.9729 38.8529 24.9888 46.5294 1.4094 5.6034 +FGF16 0 0 0 0 0 0 0 0 1.0571 0 0 0 0 0 0 0 0.4462 0 0 0 +FGF17 17.2911 4.4289 19.5527 37.9551 17.3246 7.6213 52.6316 27.1984 5.814 0.8912 5.0891 1.8204 3.9593 6.1782 1.6123 1.8501 0.8925 12.2044 0 6.4655 +FGF18 3.8425 1.2079 11.8501 24.787 0 1.2034 39.7845 1.6999 0.5285 0.4456 7.6336 5.4612 1.1312 6.9505 0 22.2017 3.1236 8.3905 0.4698 5.1724 +FGF19 0 0.4026 0 0.7746 0 0 0 0 0 0 0 0 0 0.3861 0.5374 0 0.4462 0.7628 0 0 +FGF20 16.3305 4.0263 0 1.5492 1.1177 1.6045 0 0.68 0.5285 0 1.9084 8.4951 1.1312 6.9505 0.5374 9.2507 15.1718 4.5767 2.8189 17.2414 +FGF21 0 162.663 1.185 2.3238 0 0 1.6577 0 1.5856 0 0 0 0.5656 0 0 0 0.8925 0 0 0.431 +FGF2 47.5408 47.4379 19.5053 68.9388 24.3494 13.2852 729.507 40.4101 15.1057 593.526 132.71 283.465 36.6572 374.801 23.985 277.9 261.16 269.268 44.6981 23.1552 +FGF22 0.9606 0.8053 0 2.3238 0 0 0 2.0399 1.5856 0 0.6361 1.2136 0 0.3861 0 0 0.8925 0.7628 0 0.8621 +FGF23 0 0 0 0 0 0 0.8288 0 0 0 0 0 0 0 0 0 1.3387 0 0.4698 0 +FGF3 0 0.4026 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +FGF4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +FGF5 0 0.4026 0 0 0 0 26.1086 0.68 1.0571 36.5378 0 0 0 0.3861 0 0 0 0 0 0 +FGF6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +FGF7 10.0865 84.955 52.7329 63.5167 26.2663 12.0337 150.021 3.7398 41.2262 6.2382 33.715 73.4223 10.181 66.8018 52.6669 82.3312 40.1606 141.114 117.454 21.9828 +FGF8 0 0 1.185 9.2951 0 0.4011 1.6577 0 0 0.8912 5.0891 0 1.6968 0.7723 0 0 0.8925 1.5256 0 0.431 +FGF9 381.364 794.39 243.519 144.074 186.658 490.173 0 349.84 263.214 0.4456 193.384 408.981 339.932 1627.57 709.391 183.164 224.453 243.326 488.607 662.5 +FGFBP1 0 0 0.5925 0 0 0 0 0 0 15.1498 0 0.6068 0 0 0 0 0 0 0 0.431 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18.7926 1.7241 +GCKR 101.825 4.4289 80.5807 85.9799 108.977 0.4011 0 3.3998 32.241 0 12.7226 10.9223 49.2081 20.0792 53.7418 4.6253 29.0049 12.9672 35.2361 59.4828 +GCLC 950.048 591.061 862.095 378.776 994.765 752.506999999999 1167.84 1293.62 1379.49 387.657 438.295 939.32 582.579 763.394 1229.61 775.208 609.995 633.105 2885.6 915.948 +GCLM 138.328 599.517 237.594 89.0782 468.881 563.979 544.965 99.9542 338.795 659.463 143.766 629.854 139.14 348.296 428.322 207.215 144.578 92.296 668.546 397.414 +GCM1 0.4803 1.2079 0 6.9713 6.1474 0 4.1442 0 16.3848 0 1.9084 0 1.1312 0.3861 0 0 0.8925 3.0511 6.1076 2.1552 +GCM2 0 0 0 0 0 0 0 0 0.5285 0 0 0 0 0.3861 0 0.9251 0 0 0.9396 0 +GCN1L1 1731.51 4048.45 2093.32 1858.25 2633.89 1511.43 3936.59 2257.47 2815.54 2483.68 1795.17 2299.15 2382.92 2313.35 4918.45 1092.51 2570.73 1981.69 2967.35 2312.5 +GCNT1 19.6926 14.0921 286.772 140.976 56.4445 58.1629 347.286 13.2592 511.099 600.201 38.8041 74.0291 22.0588 67.188 75.2385 524.514 281.125 82.3799 54.4985 23.2759 +GCNT2 15.8501 55.9656 18.9602 6.1967 22.3543 15.6438 39.3701 92.4746 19.0275 94.9092 31.1705 59.466 88.8009 33.594 29.558 78.6309 7.5859 41.1899 40.8739 4.7414 +GCNT3 4.8031 0.8053 59.2505 0.7746 3.912 81.8291 21.1355 0 49.1543 20.4968 0.6361 240.291 8.4842 5.4059 90.2862 49.0287 0.4462 1.5256 75.1703 0.431 +GCNT4 1.4409 24.1578 32.5878 12.3935 11.1771 77.0156 1.2433 19.7189 2.6427 15.1498 17.1756 32.767 32.2398 24.7128 19.347 24.9769 29.4511 16.7811 12.2152 32.3276 +GCNT7 0.4803 0 0.5925 0 0 0.4011 0.4144 0.34 0 0.4456 0 0 0.5656 1.9307 0 1.8501 0.8925 0 0 0 +GCOM1 287.233 115.245 194.987 44.1518 3427.18 888.889 44.8031 7.8195 483.71 104.623 579.714 528.331 2330.04 638.432 95.4991 91.2488 239.17 385.728 894.888 704.466 +GCSH 8.1652 12.8842 40.2903 18.5902 11.736 46.9314 8.2884 49.6371 19.0275 5.7926 13.3588 53.3981 16.9683 35.1385 7.5238 6.4755 38.3757 8.3905 6.5774 68.1034 +GDA 0.9606 1.6105 13.0351 13.1681 0 2.4067 2.901 0.68 3.6998 4.9014 0 3.6408 73.5294 1.9307 4.2993 0 10.7095 0 3.2887 1.2931 +GDAP1 340.538 170.313 732.336 185.128 120.713 76.6145 105.678 1139.27 140.063 239.278 432.57 293.689 1373.87 342.504 275.695 353.377 967.871 231.121 414.846 360.776 +GDAP1L1 24.976 10.0658 16.5901 102.246 5.0297 0.8022 1.6577 155.031 2.6427 0.8912 62.341 113.471 23.7557 89.9701 60.7282 20.3515 9.3708 74.7521 2.8189 6.0345 +GDAP2 356.868 340.223 300.992 49.574 287.811 369.033 257.356 283.543 369.45 196.057 211.196 173.544 184.955 217.009 331.049 217.391 241.856 303.585 349.072 278.017 +GDE1 1568.68 1232.45 2262.18 1627.42 1992.32 2427.6 2463.32 964.184 2990.49 1061.82 1447.84 2217.84 1803.73 2187.47 2488.78 1543.94 1704.6 1620.9 2833.92 2026.29 +GDEP 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +GDF10 79.731 267.749 46.2154 221.534 0 2.8079 5.8019 115.593 5.814 0 22.9008 0.6068 3.9593 12.7425 18.8096 4.6253 128.96 189.931 1.8793 265.086 +GDF11 342.421 397.428 283.277 689.21 70.7904 194.962 653.506 608.68 246.295 90.6405 1166.45 272.919 1061.25 174.754 83.4663 426.448 629.415 667.811 673.784 565.961 +GDF1 10.5668 22.9902 6.8494 73.6019 1.6766 5.6598 40.373 294.154 27.2516 0.4456 8.6132 54.3083 16.4932 3.2667 14.3437 10.074 112.615 33.3867 4.7075 0.5905 +GDF15 94.1402 4253.39 2625.39 325.329 172.687 27.6775 844.592 9.8594 3512.68 2436.89 157.761 9608.01 61.086 23542 202.607 74.9306 152.164 2259.34 91.144 40.5172 +GDF2 0 1.6105 5.925 4.6476 0 0 0 0 0.5285 0 0 0 10.181 0.7723 0 0 0 0 0.9396 0 +GDF3 4.3228 4.0263 0.5925 0 5.0297 1.6045 1.2433 6.7996 0 0 12.7226 0.6068 0.5656 3.4752 1.6123 9.2507 0 7.6278 1.8793 0.431 +GDF5 0 1.2079 1.185 0 1.6766 0.4011 226.146 0 1.0571 45.6455 0.6361 1.8204 0 0.3861 0 8.3256 30.3436 2.2883 0 0 +GDF6 147.935 98.2418 50.9554 37.1805 0.5589 2.4067 6.6308 404.577 3.6998 1.3367 40.0763 7.2816 9.0498 60.6236 11.8232 8.3256 33.021 18.3066 32.4172 3.4483 +GDF7 0 3.221 0 0.7746 0 5.2146 0 7.1396 0 0 0.6361 0 2.2624 0 0 0 0 0 0 0.8621 +GDF9 262.248 18.1184 38.5128 50.3486 67.6217 26.4741 4.5586 19.7189 37.5264 6.2382 43.8931 43.6893 23.7557 64.0989 76.8507 23.1267 45.0692 57.2082 16.9133 21.1207 +GDI1 5188.28 3659.1 7494.59 9899.3 2906.61 3094.67 3851.64 4136.88 5937.1 4297.2 4349.87 3951.46 4167.42 5049.14 4883.51 6206.29 5846.05 5387.49 3668.31 2365.52 +GDI2 4624.4 8953.29 3952.6 2838.11 3876.79 11380.3 3491.09 3702.38 5065.01 5804.61 5153.94 4865.9 4603.51 3865.62 4369.74 3450.51 4224.9 4120.52 4402.63 5916.81 +GDNF 0.4803 0 0 0 0 0 0 1.3599 0 0 0.6361 0 1.1312 0.7723 0 0 2.2311 0 0 1.2931 +GDPD1 2.4015 7.2473 21.9227 0 35.208 43.3213 23.2076 9.5194 13.2135 6.2382 14.631 39.4417 6.7873 23.1683 9.1361 28.6772 4.0161 9.1533 15.0341 16.8103 +GDPD2 0 0 0 0 0 2.0056 0.4144 0 1.0571 0.8912 0 0.6068 0.5656 0 0 0 0.4462 0 0 0.431 +GDPD3 15.4371 334.01 211.785 103.811 50.6939 4.5648 29.1463 12.3583 13.9006 17.5337 20.3562 6.068 13.5747 5.2553 10.2109 163.561 52.1508 43.791 10.3359 40.0474 +GDPD4 1.4409 0.4026 4.74 0 1.1177 4.0112 1.6577 0.68 1.5856 0 0 1.2136 0 0.7723 3.2245 0 0.4462 11.4416 2.3491 0.431 +GDPD5 82.1326 138.907 162.939 285.05 84.3874 923.786999999999 370.493 80.2353 84.0381 169.322 197.837 92.8398 2165.72 227.435 110.171 91.5819 146.363 121.281 332.629 591.379 +GEFT 428.434 194.257 29.489 1300.33 80.9113 162.696 611.72 539.596 60.2537 40.5481 164.644 64.7937 108.02 124.765 18.8096 236.762 254.605 121.945 26.2908 740.905 +GEM 166.186 291.907 97.1708 134.005 34.6491 110.71 2864.9 312.102 200.846 234.377 299.618 819.782 53.733 93.8315 229.477 256.244 238.286 569.031 93.4931 102.586 +GEMIN4 511.527 385.317 388.091 370.256 357.109 263.137 666.39 367.859 454.546 297.649 381.043 842.233 638.575 392.316 395.539 401.48 724.23 359.268 374.442 178.448 +GEMIN5 437.56 479.533 974.67 206.816 470.557 556.759 450.477 599.045 709.302 578.812 649.491 500.607 446.833 588.86 976.488 599.445 640.339 479.786 867.277 408.19 +GEMIN6 376.561 103.476 201.452 320.682 226.896 301.243 296.726 195.829 218.287 362.705 283.715 238.471 472.851 345.207 200.994 341.351 210.62 299.771 155.978 304.741 +GEMIN7 141.21 208.562 601.392 602.634 396.788 701.564 486.117 540.229 645.877 494.597 874.682 462.379 933.823 410.851 491.737 560.592 409.639 526.316 379.61 411.207 +GEMIN8 235.831 211.381 767.294 383.424 282.781 133.975 299.213 297.823 606.765 289.183 610.687 725.121 213.801 937.542 313.852 741.906 482.82 906.941 560.958 236.638 +GEMIN8P4 27.3775 10.871 10.6651 17.8156 45.2674 27.6775 18.649 38.0778 43.8689 71.7389 19.084 17.5971 39.5928 35.9108 27.9457 20.3515 49.9777 48.8177 30.5379 26.2931 +GEN1 160.903 124.01 155.236 505.81 167.657 411.151 229.175 196.849 286.998 333.296 277.99 100.728 207.579 235.544 162.838 172.988 175.368 196.796 286.587 522.414 +GET4 3548.59 4114.62 2579.14 4691.71 4242.84 4338.55 1191.89 3490.24 3663.39 755.709 1751.91 1884.71 2374.43 5495.22 2594.65 1143.39 4370.39 3064.07 4759.69 2750.52 +GFAP 24.976 39.8604 45.0304 108.443 3.3531 0.4011 4.1442 86.015 7.3996 82.4329 30.5344 183.859 9.0498 368.762 27.9457 1.8501 173.137 25.9344 43.6927 18.5345 +GFER 416.907 252.852 653.533 945.004 328.049 369.434 669.291 568.447 613.636 526.679 489.186 712.985 625.566 625.157 1199.52 781.684 806.783 498.093 295.983 450.862 +GFI1 4.3228 4.0263 6.5176 19.3648 7.2651 3.209 41.0278 4.4197 14.7992 253.537 9.542 13.3495 11.3122 3.0891 3.7619 12.951 6.2472 30.5111 3.2887 12.931 +GFI1B 0 0 0 0.7746 5.0297 2.4067 2.4865 0.68 13.7421 0.4456 0 0.6068 0 0.3861 0.5374 0.9251 1.7849 22.8833 13.1548 0 +GFM1 1269.93 3428.4 1786.99 444.617 1470.91 1928.2 539.992 1208.29 1150.63 1223.13 661.578 1910.8 1084.28 1079.64 1905.15 915.819 1366.35 701.754 3090.91 1099.14 +GFM2 677.714 1657.63 1256.11 937.258 1620.68 1361.01 357.232 1552.01 1265.33 843.489 1780.53 1319.17 1514.14 1459.99 2650.54 841.813 1962.96 1404.27 2270.61 1198.71 +GFOD1 13.4486 13.6894 4.1475 6.1967 12.8537 26.073 25.2797 25.1585 17.9704 19.1601 5.7252 9.1019 13.5747 15.4455 32.7825 24.0518 9.817 22.8833 25.8398 12.931 +GFOD2 556.196 388.136 1283.96 784.663 1484.32 574.809 476.171 850.63 606.237 642.531 658.397 670.51 513.575 935.998 2428.05 806.66 749.665 876.43 459.948 320.259 +GFPT1 1923.15 4662.46 1716.49 844.307 1682.16 1714 3571.9 1303.14 1510.57 1821.99 938.931 1068.57 1031.67 1896.71 2234.58 1469.01 862.115 1763.54 926.474 1971.12 +GFPT2 57.1566 968.729 489.409 910.147 57.0034 14.4404 2607.96 117.633 201.903 2765.73 75.6997 1057.04 99.5475 206.97 511.084 136.91 77.1977 95.3471 177.12 64.2241 +GFRA1 143.612 14.8973 3.555 216.886 3.3531 1.6045 4.9731 6.7996 4.2283 0 45.1654 134.709 0 11.9703 11.8232 148.011 10.7095 18.3066 3.2887 9.4828 +GFRA2 7.6849 372.433 95.3933 423.703 62.5919 160.048 25.6942 370.918 10.5708 3.1191 54.0712 4.2476 595.588 32.0494 16.1225 17.5763 683.623 9.1533 54.0287 10.7759 +GFRA3 18.732 49.9262 1.185 13.1681 7.824 10.8303 6.6308 12.9192 12.1564 2.6735 9.542 0.6068 2.8281 8.8812 2.6871 0 425.703 5.3394 48.8607 2.5862 +GFRA4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +GFRAL 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +GGA1 1280.02 966.313 1275.07 1745.16 1251.84 631.368 1501.45 672.821 1538.58 1152.28 721.374 1218.45 1353.51 1042.57 1302.7 565.217 2628.29 1353.93 1431.05 1331.47 +GGA2 4798.27 3047.91 4248.85 5956.62 5670.16 7121.14 1885.62 2698.08 5333.51 863.095 4114.5 3405.34 4895.36 4663.77 7595.32 1871.42 3283.36 4012.97 2771.44 2501.72 +GGA3 603.266 715.474 727.596 901.627 974.646 599.679 994.198 502.831 795.455 627.827 583.97 841.626 609.729 435.949 334.811 430.157 432.396 490.465 706.601 551.293 +GGCT 466.859 386.123 798.104 646.011 791.9 1351.79 966.432 326.381 1395.35 1235.6 575.7 966.626000000001 786.765 822.859 1145.77 526.365 1297.19 445.462 1284.47 939.655 +GGCX 310.759 608.777 573.545 299.768 801.959 577.216 1017.41 485.492 457.188 1297.98 440.84 259.102 664.593 485.375 544.404 496.762 282.909 444.699 739.488 900.430999999999 +GGH 509.126 518.991 330.618 840.434 270.487 901.725 62.5777 746.257 593.552 1646.43 1102.42 667.476 1342.19 583.454 499.261 797.41 1561.36 1054.16 307.728 4186.64 +GGN 1.4409 2.8184 8.8876 86.7545 0.5589 6.8191 4.5586 48.6172 5.2854 2.6735 30.5344 12.7427 3.3937 19.693 10.7484 14.8011 24.5426 12.9672 2.3491 3.8793 +GGNBP1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +GGNBP2 975.504 1021.07 1131.09 908.598 1200.42 1174.49 1015.75 1386.78 1147.46 1046.67 1237.91 1649.27 1321.83 1224.83 1329.57 1157.26 1349.84 1089.24 1118.16 1802.16 +GGPS1 1457.25 916.789 630.425 604.957 882.994 2083.03 771.654 778.895 663.319 961.568 629.771 583.131 1567.31 813.206 862.018 826.087 700.58 1019.07 1307.96 1738.36 +GGT1 28.3381 12.4815 58.658 87.529 1.6766 3.209 36.4691 5.0997 17.9704 50.3509 14.631 16.3835 10.181 7.3366 10.2109 3.7003 21.419 19.0694 12.2152 31.8966 +GGT3P 28.8184 1.2079 5.3325 67.3896 1.1177 2.8079 2.0721 4.0798 10.0423 2.2279 1.2723 1.2136 4.5249 1.5446 3.2245 1.8501 15.1718 1.5256 14.5642 0.431 +GGT5 499.52 1108.04 401.126 264.136 126.302 196.149 1290.1 355.619 274.841 4641.19 1589.06 149.272 1020.93 969.592 381.567 981.499 5523.43 1881.77 348.132 107.759 +GGT6 22.0941 134.478 247.075 20.914 74.3279 0 0 0.34 19.556 0 17.8117 16.9903 0 54.4454 0.5374 0 24.5426 6.865 1064.6 1.2931 +GGT7 756.004 615.622 80.5807 223.083 702.483 464.099 411.521 466.453 58.1395 425.978 178.753 419.296 2057.69 195 36.007 72.1554 257.474 497.33 409.208 1959.05 +GGT8P 0 0.4026 0 6.1967 0 0.4011 0 0 2.6427 0 0 0 0 0.7723 1.0748 0 0.4462 0 3.7585 0 +GGTA1 166.667 122.4 34.9578 60.4183 585.123 36.5022 1305.84 133.612 43.3404 213.88 173.664 300.971 65.0452 67.9602 52.1295 335.8 70.058 342.487 154.099 5.1724 +GGTLC1 0 0.4026 0.5925 1.5492 0 0.4011 1.6577 0 1.0571 0.4456 0 0 1.1312 0 0 0 1.3387 0 0 0 +GGTLC2 5.7637 4.8316 5.3325 29.4345 0 0.8022 10.775 3.0598 7.3996 13.8131 3.8168 1.2136 7.9186 0.7723 2.1497 2.7752 6.2472 12.9672 4.2283 3.0172 +GH1 9.6061 0 0 0 0 0.8022 0.4144 0 0 0.8912 0.6361 0 0.5656 0.3861 0 0 0 0 0 0 +GH2 0 0.4026 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +GHDC 2186.36 1240.5 1006.67 728.891999999999 3061.98 628.159 496.892 1133.15 921.776000000001 636.738 806.616 4991.5 2640.84 1477.75 2243.18 1672.53 1166.89 1324.94 1783.42 1583.19 +GHITM 5134.01 13858.1 7015.85 5532.15 11127.4 9367.03 3328.22 6591.2 6237.31 4677.29 6638.68 17902.3 5521.49 8860.7 7963.99 5312.67 5564.93 7339.44 14652.6 9989.66 +GHR 242.075 49.5235 1440.38 467.854 313.519 1034.1 75.8392 528.669 545.455 4.0102 1326.34 442.961 1104.07 1032.92 1388.69 887.141 327.532 404.272 876.673999999999 262.5 +GHRH 0 0 0 0 1.6766 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +GHRHR 0 0 0 0 0 0 0 0 0 0 0 0 0.5656 0 0 0 0 0 0 0 +GHRL 14.4092 1.6105 2.37 10.8443 2.7943 0 4.5586 0.68 1.5856 1.7823 5.7252 3.034 1.6968 1.9307 0 4.6253 0.8925 10.6789 0.9396 0.8621 +GHRLOS 4.3228 5.2342 14.2201 80.5577 3.912 9.2258 11.6038 23.7986 8.9852 19.6057 7.6336 7.2816 6.7873 11.198 4.8368 12.0259 16.9567 22.1205 4.6981 10.7759 +GHSR 0 0.4026 0 3.0984 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 0.7628 0 0.431 +GIF 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.9251 0 0 0 0 +GIGYF1 2433.72 2600.99 2624.2 5500.39 2403.08 2287.61 2278.49 1511.89 2099.89 1497.61 2018.45 2157.16 1006.22 1990.93 2280.26 1693.8 2132.98 2681.92 1784.36 806.466 +GIGYF2 1536.5 2152.86 1263.81 668.474 1841.43 1853.99 871.944 1409.56 966.701999999999 1213.77 972.646000000001 957.524 1614.25 1030.99 1151.15 1064.75 871.04 800.153 1407.09 1474.57 +GIMAP1 97.5024 55.563 32.5878 35.6313 228.572 61.3718 389.971 98.5943 52.8541 147.934 125.318 94.0534 98.9819 77.9998 56.4289 162.812 51.3164 308.925 78.9288 12.5 +GIMAP2 91.2584 46.3025 30.2177 227.73 128.537 290.814 367.178 161.151 261.099 209.87 219.466 94.6602 155.543 97.6928 43.5308 223.867 358.322 372.235 412.027 39.2241 +GIMAP4 417.867 320.494 267.812 262.587 570.593 393.903 1339 447.074 201.374 750.808 613.232 413.228 442.873 356.019 371.356 732.655 297.189 1400.46 679.822 116.81 +GIMAP5 280.98 239.162 130.351 237.8 772.34 203.369 1535.02 510.31 148.52 674.167 419.847 304.005 270.362 223.96 235.926 513.413 232.039 964.149 613.108 62.5 +GIMAP6 181.556 311.636 91.8382 104.57 347.609 231.448 614.588 277.424 83.5095 262.003 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559.796 598.301 572.398 547.157 1115.14 777.058 1044.18 677.346 398.403 967.672 +GINS4 143.132 51.1341 66.3605 203.718 37.4434 430.004 210.112 204.328 289.112 95.8004 223.919 118.932 207.579 114.683 216.042 91.5819 143.686 112.891 64.3646 758.621 +GIP 0 0 1.185 0 0 0 1.6577 0 0.5285 0.4456 0 0 0 4.6337 0 0.9251 0 0 0.4698 4.7414 +GIPC1 2082.13 3058.78 3191.23 3509.68 2906.05 4630.16 2021.55 3067.64 2904.86 1138.02 4003.82 2101.94 5583.71 2319.91 3619.51 2707.68 2314.15 3164 2404.04 4237.5 +GIPC2 21.1335 996.108 13.6276 3.873 965.145 8.4236 63.821 20.0588 7.3996 14.7042 24.8092 146.238 516.968 327.445 16.6599 51.8039 5.3548 262.395 448.203 1200.43 +GIPC3 93.1796 171.923 56.8805 129.357 97.7999 223.827 136.345 184.269 78.7526 356.912 160.941 71.6019 127.828 123.564 135.967 255.319 77.6439 115.179 132.958 115.948 +GIPR 1.9212 0 1.185 24.0124 23.472 12.0337 3.7298 1.6999 17.9704 1.7823 1.9084 0 1.6968 1.1584 0.5374 1.8501 2.2311 2.2883 1.8793 11.2069 +GIT1 1167.63 1780.43 1203.38 1259.49 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4376.56 5044.96 10503.9 5632.07 2800.99 4292.02 2682.55 5022.19 4664.9 6206.08 3644.4 3053.4 3968.89 4873.44 12398.8 4383.9 4944.67 4316.55 9232.79 4272.41 +HIF1AN 1707.97 2550.26 917.79 1109.22 1486 1930.2 1338.17 1458.18 797.569 1175.89 1472.01 1162.62 1950.79 782.315 943.168 793.71 720.214 1400.46 1802.21 1951.29 +HIF3A 36.5034 318.883 35.5503 10.0697 1758.16 32.491 139.246 14.9591 45.9831 4.4558 43.8931 601.335 98.4163 30.891 15.5851 38.8529 20.9728 344.012 42.2833 14.6552 +HIGD1A 1552.35 3394.98 1510.29 724.245 2433.82 2097.47 1031.5 1785.92 1640.06 909.435 1248.73 5136.53 2736.99 1632.59 1485.96 1560.59 1843.37 1276.13 3033.59 4282.33 +HIGD1B 11.0471 1.228 10.8606 54.9961 35.208 42.0257 117.145 96.9216 77.6956 30.215 26.6158 74.6359 60.5204 18.4419 7.5238 30.2128 8.9246 19.8322 43.6927 9.0517 +HIGD1C 0 0 0 0 0.5589 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +HIGD2A 3065.32 1183.73 2298.33 6240.12 2296.9 2539.11 1661.42 2770.84 2673.89 2758.16 7568.7 3799.15 3778.28 2719.18 3647.99 5492.14 2487.28 3779.56 3115.34 1717.24 +HIGD2B 0 0.4026 0 0 0 0 0.4144 0 2.1142 0 0 2.4272 0 0 1.0748 0 0 0.7628 0.4698 0 +HILS1 0.4803 0 0 0 0 0 3.7298 0 0 0 0 0 0 0 0 0 0 0 0 0 +HINFP 352.546 205.341 300.992 408.211 216.278 549.539 330.709 266.204 372.622 413.056 242.366 290.048 288.462 274.93 286.981 151.711 275.77 244.851 211.417 279.741 +HINT1 2962.06 3046.3 5858.69 3290.47 6387.17 7991.18 2585.99 2751.46 5221.46 5125.54 9342.24 8976.33 5832.01 5775.85 6061.53 4600.37 5341.81 6179.25 7172.19 3497.41 +HINT2 1482.23 471.883 853.799 1069.71 961.792 2391.9 411.521 205.008 1164.9 929.932 571.247 2351.94 2086.54 1163.05 1262.93 866.79 1000.89 770.404 716.937 751.293 +HINT3 585.014 1378.2 897.645 381.875 1478.73 777.377 413.179 856.75 1239.96 225.465 786.26 1028.52 451.923 752.582 817.412 723.404 390.005 515.637 2638.48 906.034 +HIP1 151.297 2261.17 511.332 426.026 715.895 2360.21 788.645 729.258 543.34 207.642 447.201 882.281999999999 210.973 898.156 804.514 812.211 719.768 590.389 1563.07 1203.02 +HIP1R 2384.25 636.559 1189.16 1211.46 1037.24 2328.12 477 1103.58 640.063 444.692 810.433 1242.72 3868.21 1796.7 814.725 1020.35 1912.99 1079.33 761.569 772.414 +HIPK1 1483.19 2281.3 1835.58 958.172000000001 1316.11 988.769 782.014 1041.7 1372.62 561.435 809.796 866.505 343.326 1101.26 1791.75 1180.39 1052.66 1057.21 1453.61 1329.74 +HIPK2 1162.82 3330.56 3906.38 1962.82 2812.17 1457.28 2212.18 1453.76 2251.06 2439.12 1009.54 1763.96 601.244 1681.63 1628.91 2676.23 885.319 1691.08 2530.89 410.345 +HIPK3 73.487 1042.41 416.531 79.0085 135.243 167.268 126.399 267.564 146.406 121.644 68.0662 182.039 13.009 159.475 87.5991 147.086 59.3485 89.2449 216.115 413.793 +HIPK4 35.5427 2.4158 8.8876 6.9713 3.912 14.4404 4.9731 9.1795 8.4567 6.6837 5.7252 1.8204 12.4434 3.8614 13.9729 5.5504 7.1397 11.4416 4.6981 1.2931 +HIRA 929.395 437.752 526.737 505.035 457.145 315.291 810.613 287.623 872.648 572.129 254.459 484.83 510.181 469.161 734.113 174.838 1185.19 446.224 937.75 470.698 +HIRIP3 1385.21 417.528 754.851 1074.36 393.435 356.599 392.043 664.321 1088.79 450.485 639.313 717.233 611.425 722.077 1160.82 1286.77 989.29 1200.61 337.327 408.621 +HIST1H1A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.4698 0 +HIST1H1B 0 1.2079 0.5925 2.3238 0 0.4011 0.8288 0 1.0571 4.4558 0.6361 0 0.5656 0.7723 1.0748 0.9251 5.3548 0 5.6378 0.431 +HIST1H1C 12055.2 481.143 481.114 1831.91 146.421 362.214 1393.7 50.3171 1030.13 5318.03 143.13 664.442 710.973 313.544 1123.2 412.581 1410.53 1021.36 1105 220.69 +HIST1H1D 4.3228 3.6237 2.37 6.9713 0.5589 0.8022 8.7029 0.68 4.2283 8.4661 0 1.2136 0 2.703 3.2245 0 4.9085 3.0511 4.2283 1.7241 +HIST1H1E 0.9606 2.8184 2.9625 8.5205 0 2.8079 9.9461 0.34 8.9852 33.8643 3.8168 6.068 0.5656 1.5446 20.9593 4.6253 3.1236 3.0511 3.7585 6.4655 +HIST1H1T 2.4015 0.4026 0 0.7746 0 0.4011 0 0 0 3.1191 0 0 0 0 0.5374 0 2.2311 0.7628 0.9396 0 +HIST1H2AA 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +HIST1H2AB 0.4803 0 0 2.3238 0 0 0 0 0 0 0 0 1.1312 0.3861 2.6871 0 0.4462 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6.8966 +HIST1H2BO 0 0.8053 4.74 12.3935 0 1.6045 1.6577 0.68 5.2854 21.8336 0.6361 0.6068 0 3.4752 2.1497 0.9251 16.0643 0.7628 5.168 0 +HIST1H3A 0.9606 0.4026 0 2.3238 0 0.8022 0.4144 0 1.5856 1.7823 1.2723 0 0.5656 0.3861 2.1497 0.9251 4.4623 0 1.8793 0.8621 +HIST1H3B 0.4803 0 0 2.3238 0 0.8022 3.3154 0 2.1142 10.2484 0.6361 0 1.1312 0 1.6123 0.9251 1.3387 0 3.2887 0.431 +HIST1H3C 0.4803 0.4026 1.7775 2.3238 0 2.4067 1.2433 0 1.0571 3.1191 0.6361 0.6068 3.9593 0 2.1497 0 1.3387 0 1.8793 2.5862 +HIST1H3D 39.8655 10.9515 6.1383 48.66 2.7943 7.2202 31.4961 3.7398 16.5856 103.095 7.6336 4.2476 14.1403 14.2871 30.4071 3.7003 24.0473 23.9054 36.9321 7.7586 +HIST1H3E 53.7944 31.8078 50.3629 23.2378 6.7063 21.6606 31.0816 10.8794 56.0254 30.7452 12.7226 9.1019 27.7149 35.1385 60.1908 2.7752 29.0049 39.6644 136.246 31.4655 +HIST1H3F 0 0 0.5925 0.7746 0 1.2034 0.8288 0 0.5285 1.3367 0 0 0.5656 1.9307 0.5374 0 1.3387 0 3.2887 1.2931 +HIST1H3G 0 3.221 0.5925 9.2951 0 4.4124 1.2433 0.34 4.7569 81.0961 0 0 7.9186 1.5446 4.8368 0 12.0482 3.8139 2.8189 2.1552 +HIST1H3H 115.754 10.4684 36.1428 38.7297 0.5589 22.4629 23.2076 3.7398 45.9831 59.2626 5.0891 12.1359 72.9638 18.9207 41.9186 7.4006 57.1174 12.9672 33.8266 8.6207 +HIST1H3I 0 0.4026 0 0 0 0 0 0.34 0.5285 0 0 0 0 0 0 0 0 0 0 0.431 +HIST1H3J 0 0.4026 2.37 2.3238 0.5589 0 0.4144 0 0.5285 4.4558 0.6361 0 0 0 1.6123 0 0.4462 0 5.168 0 +HIST1H4A 1.4409 0 0 5.4222 0 0.8022 0 0.34 1.5856 0.4456 0.6361 0 0 0 1.6123 2.7752 0 1.5256 0.4698 0 +HIST1H4B 2.4015 0 0 0.7746 0 0.4011 0 0 1.0571 2.2279 1.9084 1.2136 1.1312 0.3861 2.6871 1.8501 0.4462 0 0.4698 0.8621 +HIST1H4C 2.4015 0.8053 1.185 1.5492 1.1177 0.8022 0 0 2.6427 2.2279 0 0.6068 1.1312 0.3861 3.7619 0 0.4462 0 0.4698 0 +HIST1H4D 2.8818 0 0 3.873 0 2.4067 0.4144 0.34 2.1142 4.9014 4.4529 1.2136 2.8281 0.3861 4.2993 0.9251 0 2.2883 2.8189 1.2931 +HIST1H4E 15.8501 4.4289 0 6.9713 1.6766 2.0056 6.2163 0.34 3.6998 11.1396 1.9084 0.6068 0.5656 0.3861 3.7619 3.7003 2.2311 2.2883 2.8189 1.2931 +HIST1H4F 0 0 0 0 0 0.4011 0 0 0 0 0.6361 0 0 0 0 0 0.4462 0.7628 0.4698 0 +HIST1H4G 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +HIST1H4H 139.289 59.1867 35.5503 127.808 9.5006 16.0449 125.155 10.1994 72.9387 335.079 15.9033 15.7767 31.1086 33.594 99.9597 12.951 93.7082 45.0038 229.269 3.0172 +HIST1H4I 0 0.8053 2.37 1.5492 0 0.8022 1.6577 0.68 0.5285 2.6735 1.2723 1.2136 0.5656 1.5446 1.6123 0 3.5698 2.2883 1.4094 0 +HIST1H4J 2.8818 9.6631 94.8008 144.849 78.2399 5.2146 17.8201 27.5384 17.9704 42.3304 110.051 28.5194 1.6968 41.3167 88.6739 236.818 24.0964 54.9199 72.8212 0 +HIST1H4K 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +HIST1H4L 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +HIST2H2AA3 2912.1 495.638 293.29 1811.77 77.6811 192.94 805.636 154.691 670.719 4724.96 260.178 628.641 882.353 724.394 986.162 234.043 2093.26 942.792 337.327 79.7414 +HIST2H2AB 0.4803 1.2079 0 2.3238 0 0.4011 0 0.68 0.5285 1.7823 0 0 0.5656 0 1.0748 0 1.3387 0 0 0 +HIST2H2AC 186.359 6.0395 11.2576 62.7421 19.56 40.9146 16.5769 20.3988 20.6131 22.7247 26.7176 17.5971 32.8054 3.4752 34.3947 37.0028 13.3869 13.73 6.1076 12.069 +HIST2H2BA 28.3381 31.8078 21.3302 24.0124 8.9417 18.0505 10.3605 27.5384 20.0846 21.8336 7.6336 15.7767 2.2624 40.5445 46.7553 1.8501 71.8429 26.6972 31.0078 21.5517 +HIST2H2BE 6520.17 1302.91 709.821 864.446 79.3577 614.12 937.422 391.317 753.171 2437.34 150.127 846.481 687.783 881.938 2121.19 285.846 2728.69 662.853 800.564 95.6897 +HIST2H2BF 161.724 242.371 63.9905 268.009 48.0617 92.1781 52.5694 138.858 118.922 159.073 125.197 114.684 44.6833 365.472 489.05 31.4524 290.942 263.921 53.4273 131.465 +HIST2H3C 2.4015 8.0526 1.7775 8.5205 0 2.8079 2.901 1.3599 3.1712 26.735 1.2723 1.2136 2.2624 0.3861 2.1497 0 4.0161 3.0511 0.4698 0 +HIST2H3D 2.8818 7.65 1.7775 3.0984 0 1.6045 0 2.7198 1.0571 3.1191 0 0.6068 0.5656 2.703 5.9116 0 0.8925 2.2883 1.8793 3.0172 +HIST2H4A 409.222 576.567 92.4308 136.328 82.7108 81.8291 615.417 84.9951 96.1945 4182.24 69.9746 210.558 360.294 115.455 243.45 70.3053 290.495 241.037 127.79 27.1552 +HIST3H2A 168.108 487.585 201.452 123.16 180.511 359.808 78.7402 239.006 177.061 40.9937 111.959 563.107 393.665 184.574 766.358 312.673 455.154 294.432 52.1494 63.3621 +HIST3H2BB 4.3228 15.3 7.7026 6.1967 5.5886 8.8247 2.4865 3.7398 6.871 2.6735 2.5445 9.1019 3.9593 7.3366 15.5851 12.0259 13.8331 9.1533 2.8189 0.431 +HIST3H3 0 0 0 0.7746 0 0.4011 0 0 0.5285 0 0 0.6068 0 0 0 0 0 0.7628 0 0.431 +HIST4H4 22.5744 16.1052 24.2927 17.0411 3.912 2.8079 11.6038 9.5194 28.5412 10.2484 8.2697 23.665 8.4842 9.2673 22.5715 2.7752 32.1285 9.1533 7.0472 4.7414 +HIVEP1 586.455 421.957 528.514 404.338 382.817 434.416 268.545 422.935 577.696 196.948 307.888 189.927 246.041 283.039 582.561 234.968 270.861 192.982 309.138 241.379 +HIVEP2 745.437 800.832 226.337 246.321 473.911 251.103 1272.69 583.746 561.839 360.922 210.56 436.893 349.548 211.603 111.783 480.111 215.975 509.535 742.307 582.328 +HIVEP3 135.447 265.333 129.759 123.16 33.5314 239.872 106.092 407.636 107.294 194.72 279.262 70.3883 241.516 154.069 386.941 103.608 153.057 342.487 146.582 151.293 +HJURP 19.6926 96.6313 30.8103 415.957 6.7063 935.419 292.167 44.8774 385.307 1236.05 204.835 14.5631 493.778 14.6732 277.308 29.6022 240.964 57.2082 112.755 592.241 +HK1 838.617 3199.3 2962.52 2453.91 1545.24 928.600000000001 2634.07 3017.66 1235.2 4489.7 2116.41 2777.91 2185.52 2109.08 1773.48 1612.4 2563.59 1636.92 1292.93 2076.29 +HK2 153.218 27.3789 1886.54 474.826 7752.46 20.4573 1946.95 16.999 5572.94 1363.48 255.089 2972.69 193.439 33.9801 34.3947 5174.84 1146.81 115.179 1045.34 282.759 +HK3 36.5034 19.7289 12.4426 113.865 177.716 14.8416 600.497 10.8794 48.6258 233.04 31.8066 27.3058 69.5701 6.1782 31.1702 10.1758 28.5587 50.3432 22.0813 4.3103 +HKDC1 0 3.6237 4.74 6.1967 18.4423 8.8247 13.6759 1.6999 17.9704 4.0102 1.2723 10.3155 1.6968 0.7723 6.449 0 1.7849 3.0511 10.8057 3.4483 +HKR1 386.647 441.283 1091.99 1530.6 631.508 721.62 622.876 1079.44 1065.54 363.596 1075.7 842.233 666.855 1017.09 1473.6 765.957 882.195 942.792 443.505 578.448 +HLA-A 25050.4 9378.86 35415.8 24167.3 25626.8 12959.4 22755.8 8983.89999999999 49208.5 46041.7 62746.6 11878 22726.2 21295.4 2571.01 52328.4 10993.6 112862 71403.5999999999 6305.98 +HLA-B 6686.58 7261.4 20846.9 11582.5 24507.1 11121.9 33366.7 5547.48 61802.9 51884.8 46396.8 11497.6 16775.8 11231.5 9244.8 18610.6 21439.5 85295.4 112341 3785.88 +HLA-C 3774.04 4673.77 13155.8 4772.25 12441.2 9858.41000000001 23558.7 3532.03 46356.7 28076.8 29145.2 6464.75 21332.3 9613.33 3941.81 22222.9 20018.3 34815.2 64791.3 8185.24 +HLA-DMA 604.707 239.968 545.104 763.749 3245.84 442.84 3281.39 140.412 556.554 3242.06 1057.25 1350.73 1207.58 407.761 420.261 1234.04 668.452 2000.76 497.064 334.914 +HLA-DMB 556.676 269.762 201.452 195.972 1490.47 2152.03 2169.91 127.833 245.772 859.976000000001 447.837 1177.79 2520.36 389.613 431.546 493.987 267.738 1158.66 241.015 517.672 +HLA-DOA 164.745 134.076 20.7377 49.574 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732.709 585.05 1465.82 1561.64 +KIF1C 1286.74 2747.15 1380.54 1319.91 1156.27 829.523 4006.63 1287.51 1638.48 1359.92 963.104 2495.15 1037.33 945.651 1002.82 873.265 895.136 1247.9 1290.11 951.724 +KIF20A 28.8184 113.542 109.613 1075.91 8.3829 1170.48 451.72 77.8555 616.808 1868.78 600.509 18.8107 411.199 42.8613 615.343 49.0287 581.437 191.457 193.564 834.914 +KIF20B 118.636 397.799 97.7633 257.94 44.1497 883.674000000001 195.193 242.406 265.856 716.498 250 119.539 160.068 92.2869 230.552 123.034 136.992 149.504 177.12 670.259 +KIF21A 203.65 2547.85 341.283 208.366 336.432 351.785 32.3249 433.815 524.841 438.454 183.206 568.568 91.0633 386.524 362.219 358.002 355.199 322.654 1133.66 383.19 +KIF21B 29.2988 66.0314 13.6276 63.5167 24.5897 24.0674 117.696 31.6182 11.0994 69.0654 31.8066 91.0194 27.7149 33.594 16.6599 52.729 242.303 98.3982 25.37 5.1724 +KIF22 1303.07 450.543 1262.04 3599.54 341.461 1221.42 1108.58 1784.9 2939.22 1670.94 1828.88 1249.39 1554.86 1212.47 2363.03 1909.34 2651.94 1136.54 881.372 1525 +KIF23 63.8809 167.897 106.058 333.075 24.5897 711.191 267.716 82.9552 642.706 872.897 308.524 45.5097 337.67 84.9503 297.192 44.4033 361.892 180.778 243.364 726.293 +KIF24 35.0624 85.7603 103.688 478.699 18.4423 314.513 78.7402 41.1376 321.353 176.897 204.835 261.547 79.7681 323.197 379.96 156.337 167.787 228.07 149.401 151.297 +KIF25 0.4803 0 1.185 0 17.3246 1.6045 0.4144 1.3599 0.5285 0 0 0 0.5656 0 1.0748 0 0 0.7628 0.9396 1.2931 +KIF26A 114.793 259.697 657.68 2474.05 108.418 197.353 35.2259 1721.66 782.241 31.6364 202.29 135.922 144.796 171.831 2996.1 81.4061 1307.01 35.0877 459.948 81.8966 +KIF26B 16.3305 175.144 16.5901 14.7173 3.912 15.6438 309.159 41.4776 3.6998 6.2382 32.4427 15.7767 24.8869 10.8119 1.0748 26.827 127.175 3.0511 16.4435 54.7414 +KIF27 18.2517 32.2104 42.6603 60.4183 14.5303 17.6494 14.5048 16.3191 35.9408 65.0551 14.631 86.165 8.4842 49.0395 26.3335 36.0777 58.0098 30.5111 6.1076 14.6552 +KIF2A 153.218 407.059 294.475 185.902 401.259 570.397 510.982 336.92 376.85 441.127 251.908 306.432 364.253 270.296 601.37 153.561 336.457 140.351 553.441 373.276 +KIF2B 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +KIF2C 40.8261 97.8392 61.6205 426.026 19.56 801.444 837.961 74.1157 569.767 1885.71 223.919 52.1845 957.013999999999 20.4653 483.139 31.4524 329.764 63.3105 122.622 569.828 +KIF3A 869.837 2532.55 1129.91 931.836 482.293 1204.57 130.129 1256.91 579.281 237.05 870.865 679.005 391.968 1454.58 791.616 919.518999999999 1663.54 934.401000000001 927.884 1150 +KIF3B 794.428 3202.52 1070.06 309.063 1630.74 951.865 1217.99 1232.43 718.816 822.992 835.242 2170.51 1383.48 2074.33 1690.72 982.424 1688.09 824.561 513.977 1556.47 +KIF3C 236.311 1361.29 660.643 337.723 3406.79 1753.31 351.015 377.718 347.252 268.241 529.898 129.854 1174.21 782.315 352.009 381.129 322.624 398.169 762.039 1099.57 +KIF4A 27.8578 170.313 107.836 478.699 3.3531 700.762 407.377 63.5763 665.962 786.9 241.094 29.1262 248.303 25.4851 338.573 33.3025 455.6 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188.894 358.604 425.611 287.283 192.917 350.228 276.081 214.806 179.299 195.772 146.178 224.792 149.041 302.822 144.703 322.845 +KIR2DL1 0.9606 0 0 0.7746 2.7943 0.4011 0 0 4.7569 17.4312 0 0.6068 1.1312 0 0 2.7752 0.6604 29.7483 1.4094 0 +KIR2DL3 0 12.4815 0.5925 0.7746 0 0 0.4144 0.34 8.4567 5.7391 0 0.6068 1.1312 0 0 2.7752 0.232 131.96 6.1076 0 +KIR2DL4 0 0.8053 4.1475 0.7746 1.1177 3.209 2.0721 10.5394 3.6998 101.593 5.0891 0 13.009 0.3861 1.0748 13.876 1.7849 12.9672 4.6981 0.431 +KIR2DS4 0.4803 0 0.5925 1.5492 2.2354 0.4011 0.8288 0.34 0 14.2587 0 0 0 0.3861 0 11.1008 0 4.0503 1.8793 0 +KIR3DL1 2.4015 0.8053 4.74 2.3238 0.8271 0 0.4144 0.34 0 6.1669 0.6361 0.6068 0 0 0 0 1.3387 10.6789 1.4799 0.431 +KIR3DL2 0 0 0 0 0.8495 0 0 0.34 1.5856 1.408 0.6361 0.6068 13.5747 0 0 1.8501 0 5.103 1.8088 0 +KIR3DL3 0 0 0 0 0 0 0.8288 0 0 0.4456 0 0 0 0 0 0 0 1.5256 1.4094 0 +KIR3DP1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1.0748 0 0 0 0.4698 0 +KIR3DX1 0 0 0 0 0 0 0 0 0 0.4456 0 0 0 0 0 0 0 0 0 0 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49.5235 15.4051 13.1681 112.33 16.446 13.2615 65.6162 9.5137 7.1293 15.2672 14.5631 1.6968 13.901 21.4967 46.2535 15.618 9.1533 24.9002 13.7931 +KLB 6.7243 4.4289 5.925 2.3238 3.3531 1.6045 2.0721 0.68 2.1142 0 1.9084 1.8204 2.2624 2.3168 2.1497 3.7003 3.1236 2.2883 37.5852 0.431 +KLC1 2211.5 2261.37 1846.09 1809.45 681.939 1152.03 2540.97 1616.34 1588.65 1515.87 1669.74 1123.54 1994 1433.29 1101 1794.63 1703.4 998.757 2069.68 1298.98 +KLC2 1423.15 1445.85 1440.38 1274.98 492.353 1360.21 699.544 901.968 1089.32 818.091 617.048 545.51 639.14 920.552 607.819 401.48 750.112 623.951 702.373 1650.43 +KLC3 3.8425 9.2605 50.3629 277.498 60.9154 103.089 5.3875 94.5349 258.05 5.347 519.459 12.7427 14.7059 53.6731 40.3063 2.7752 32.1285 139.763 28.1889 81.0345 +KLC4 1133.17 637.895 827.83 691.758 1095.43 666.402 377.149 805.495 1279.8 284.745 1211.41 572.894 1363.16 580.025 779.438 584.672 484.676 452.357 1044.47 840.629 +KLF10 858.79 2022.82 1947.56 1209.91 315.754 936.622 1063.41 1405.82 2117.86 1560.88 1260.18 986.044 518.1 5424.85 894.801 891.766999999999 1924.14 942.029 1281.65 525.862 +KLF1 0.4803 0.4026 0 3.873 0.5589 1.6045 0.4144 0 0.5285 3.1191 1.2723 0.6068 0 0.3861 1.0748 0.9251 0 1.5256 0 0.431 +KLF11 253.602 2055.83 472.226 378.776 528.12 624.95 430.584 417.496 370.507 295.867 382.315 373.786 882.353 1200.5 541.717 294.172 517.18 234.935 354.24 1540.52 +KLF12 359.27 169.507 72.8781 61.1929 252.044 39.7112 482.387 184.949 169.662 305.67 75.6997 137.136 29.9774 81.475 40.8437 193.339 41.9456 83.1426 85.976 468.966 +KLF13 696.446 1186.55 1470.6 608.056 675.658 649.017 1506.84 1161.37 625.793 1667.37 395.674 658.981 269.231 379.959 1744.46 432.007 1171.35 385.202 1090.91 113.362 +KLF14 25.4563 8.0526 2.37 20.1394 5.0297 0.4011 29.424 30.2582 2.6427 0.4456 19.7201 1.8204 6.7873 84.5641 0 1.8501 14.7256 21.3577 2.8189 26.2931 +KLF15 307.877 139.31 181.306 789.311 264.339 121.139 12.0182 815.273 89.852 69.9566 178.117 936.286000000001 31.1086 196.93 138.654 212.766 199.464 321.129 326.991 20.2586 +KLF16 407.301 715.474 915.42 705.654 311.842 713.999 568.172 621.144 698.731 508.41 453.562 532.767 666.29 443.672 1151.69 533.765 1206.16 499.619 206.718 1052.59 +KLF17 12.0077 9.2605 309.88 190.55 3.912 110.309 5.3875 33.658 198.203 69.511 100.509 2.4272 102.376 118.158 56.9663 6.4755 4.9085 64.836 40.8739 13.3621 +KLF2 1941.88 136.492 109.021 128.583 445.968 220.217 1275.59 1151.51 219.345 94.018 257.634 239.685 375 308.524 262.26 543.016 617.581 466.819 133.427 798.707 +KLF3 1633.29 2787.74 1218.78 724.818 683.482 1639.73 1361.79 1742.4 1673.26 492.815 1239.82 991.505 926.414 1679.7 1346.23 903.793 1685.34 1214.34 2804.79 1733.6 +KLF4 783.381 409.475 363.798 402.014 829.343000000001 1094.67 1285.12 2449.9 575.053 78.4226 108.142 579.49 328.62 685.008 1136.1 274.746 1218.21 249.428 313.836 1159.05 +KLF5 58.5975 15.7026 23.1077 60.4183 7.824 5.2146 498.55 23.7986 29.5983 1686.98 17.1756 7.2816 5.6561 20.8514 19.347 10.1758 20.5266 35.0877 16.9133 180.603 +KLF6 1322.29 2081.6 1183.23 971.34 1499.41 3548.34 2884.38 3657.85 2458.77 1758.72 698.473 875 618.213 2354.67 2744.05 468.085 1105.31 900.076 659.62 5321.55 +KLF7 68.2037 64.4209 46.2154 29.4345 53.0914 13.2371 143.39 39.4377 74.5243 63.7184 22.2646 37.6214 18.6652 16.9901 54.8166 44.4033 24.5426 24.4088 51.2098 68.9655 +KLF8 14.4092 74.4866 31.4028 41.828 74.8868 11.6326 17.4057 15.6391 97.7801 4.4558 41.9847 63.7136 5.6561 18.5346 12.3606 62.9047 7.5859 40.4272 63.4249 3.8793 +KLF9 1769.93 987.652 583.025 1567.78 2603.71 418.773 2140.49 2333.62 1869.98 1567.56 1000.64 4006.07 415.724 1744.96 1394.6 1496.76 1965.19 736.842 1396.76 345.69 +KLHDC10 137.848 1524.76 956.303 205.267 300.106 498.195 204.31 574.567 658.034 233.486 258.27 608.01 78.6199 671.107 590.085 236.818 409.192 291.381 787.879 287.069 +KLHDC1 74.928 68.8498 97.1708 213.013 57.0034 19.655 27.3518 88.0549 75.5814 34.3099 82.0611 86.165 28.8462 83.7919 52.1295 65.6799 109.326 70.9382 135.307 16.8103 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2257.75 2627.44 1296.95 1954.04 2536.99 2713.18 1266.81 +LARP4B 1158.5 3349.08 1301.14 3371.8 1486.56 2815.48 788.23 1835.21 1186.58 1413.84 2401.4 1885.32 1002.83 1682.02 1554.75 1240.52 1059.35 1616.32 1477.57 2784.48 +LARP6 273.775 507.717 39.6978 231.603 65.9451 98.2752 2431 307.002 28.5412 422.858 309.796 378.034 139.706 289.603 38.1567 579.093 292.726 358.505 138.595 142.241 +LARP7 1195.49 691.316 706.858 1220.76 946.703 692.74 1076.67 1764.16 1353.07 564.999 1249.36 1358.62 671.38 1836.08 1150.61 1131.36 774.654 1281.46 1755.23 778.017 +LARS2 287.224 1075.02 710.413 319.907 1147.89 389.089 518.027 477.332 509.514 246.407 375.954 1140.17 529.977 341.732 750.773 712.303 639.893 321.129 839.558 394.397 +LARS 1852.55 2103.34 2488.52 2196.75 3188.28 1436.02 1900.12 1990.58 2577.17 2545.62 2685.11 2666.26 1595.02 2545.03 3995.16 1787.23 2677.82 2512.59 3066.48 1591.81 +LAS1L 820.365 607.569 1767.44 1875.29 425.29 377.056 793.203 572.187 1451.9 1141.14 1563.61 1208.13 532.805 1349.94 1433.83 1057.35 1695.67 1347.83 1028.89 413.793 +LASP1 1484.15 2631.19 3245.15 1576.3 1854.85 2538.31 8632.82000000001 2253.39 2889.01 6526.01 3972.01 2933.86 4462.67 2355.05 2895.07 4655.87 1546.18 1977.12 2766.27 4187.93 +LASS1 311.239 102.228 51.8086 687.049 1.1177 16.4019 82.7103 2150.98 82.1564 9.3572 78.5369 311.59 43.4615 59.6737 130.222 48.2054 327.367 300.709 12.6756 14.0647 +LASS2 6540.83 15125.2 12570 8470.18 13931.7 25155.2 3062.16 7584.96 10408.6 10391.4 10133 13362.3 4640.84 13419.1 18080.3 15639.2 5182.95 13782.6 12459.5 8488.79 +LASS3 0 0.8053 0 12.3935 0.5589 1.2034 0.8288 0 5.814 0.4456 0 1.2136 0 1.9307 0.5374 0.9251 1.3387 0.7628 0 0 +LASS4 268.492 313.246 104.873 1116.96 309.048 2466.11 374.637 1448.32 1149.05 134.566 396.31 574.636 257.919 327.831 51.5921 962.072 389.112 348.589 403.571 2608.62 +LASS5 361.191 1350.02 719.301 1286.6 805.312 613.317 1791.13 1336.8 920.719 1241.39 878.499 816.141 1492.08 610.484 755.609 1127.66 961.177999999999 855.835 486.728 857.759 +LASS6 518.045 1905.86 308.713 183.532 63.162 681.629 556.958 410.094 392.685 691.665 337.029 196.851 859.774 249.055 263.689 320.102 336.506 403.326 725.605 1258.74 +LAT 113.602 30.0523 96.7383 194.043 43.7473 32.0979 157.588 26.2363 75.6395 180.657 78.6705 72.8883 14.1403 47.8579 53.4838 226.91 115.181 243.196 19.4738 14.1681 +LAT2 209.414 31.0025 39.1053 151.82 72.0925 34.4966 411.106 32.9781 58.1395 442.464 116.412 259.709 225.113 68.7325 121.456 125.809 46.8541 399.695 51.6796 28.8793 +LATS1 62.44 523.419 98.3558 45.701 122.948 115.122 165.769 109.134 136.364 92.6813 48.9822 87.9854 40.724 70.6632 77.3881 83.2562 41.9456 51.106 196.852 178.017 +LATS2 1630.16 1153.94 551.029 378.002 850.58 385.88 455.035 525.949 718.288 473.655 498.092 415.655 419.118 450.236 534.731 342.276 359.215 712.433 1900.87 1598.28 +LAX1 1.9212 18.9236 3.555 14.7173 0.5589 2.4067 9.5317 0.68 2.1142 5.347 2.5445 6.6748 2.8281 0.7723 2.6871 2.7752 8.9246 21.3577 2.8189 0.431 +LAYN 50.9126 101.463 150.496 48.7994 167.098 85.0381 82.8844 153.331 47.0402 61.0449 42.6209 64.9272 309.955 89.5839 87.0617 67.5301 58.9023 73.2265 104.299 70.2586 +LBH 2900.1 444.101 181.899 733.54 65.3862 5703.17 6488.6 783.314 1380.55 1499.39 1708.02 876.82 1313.35 739.84 1533.25 1205.37 430.165 3512.59 568.006 535.345 +LBP 0 0.4026 0 4.6476 0.5589 0 12.4327 0 0 0 6.3613 0.6068 0 0.7723 0.5374 13.876 0.4462 3.0511 0.4698 0.431 +LBR 278.098 297.544 173.604 258.714 363.257 363.016 1104.85 158.771 538.055 1072.07 276.718 236.044 430.995 117.386 148.327 261.795 229.362 392.83 262.626 681.034 +LBX1 0 0.4026 0 1.5492 0 0 2.0721 0 0 0 0 0.6068 0 0 0 0 0 0 0 0 +LBX2 1.9212 4.4289 3.164 5.0658 39.4441 46.1853 11.1894 0.5202 3.1712 40.7709 2.1883 2.4272 29.9774 2.3168 15.8592 4.6253 1.3387 3.0511 1.4094 4.5 +LBXCOR1 4.3228 5.6368 7.7026 8.5205 7.824 2.0056 9.5317 6.7996 14.7992 2.6735 17.1756 3.034 2.8281 2.3168 1.0748 4.6253 5.3548 7.6278 1.8793 3.8793 +LCA5 250.24 132.063 57.473 44.9264 58.1211 20.4573 92.4161 210.108 54.4397 120.308 102.417 67.3544 23.19 188.821 45.6805 123.959 87.9072 99.1609 115.105 214.655 +LCA5L 36.5034 31.8078 74.6556 36.4059 195.6 47.3325 36.4691 59.4965 57.0825 43.6671 85.2417 64.3204 75.7919 109.277 133.28 76.7808 153.503 61.0221 136.716 17.2414 +LCAT 268.17 73.009 287.43 893.501000000001 105.624 90.3851 317.447 90.8529 181.38 284.799 216.285 55.3095 296.471 209.885 106.946 200.111 182.361 333.242 31.0078 162.569 +LCE1A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE1B 0 0 0 0 0 0 0 0 0 0 0 1.2136 0 0 0 0 0 0 0 0 +LCE1C 0 0.4026 0 0 0 0 0 0 0 2.6735 0 0 0 0 0 0 0 1.5256 0 0 +LCE1D 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE1E 0 0 0 0 0 0 0 0 0 0 0 0.6068 0 0.7723 0 0 0 0 0 0 +LCE1F 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE2A 0 0 0 0 0 0 1.6577 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE2B 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE2C 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE2D 0 0 0 0 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE3A 0 0.4026 0 0 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE3B 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE3C 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE3D 0 0 0 0 0 0 0.4144 0 2.6427 0 0 0 0 0 0 0 0 0 0 0 +LCE3E 0.4803 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE4A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE5A 0.4803 0 0.5925 1.5492 0.5589 0.4011 0 0.34 2.1142 0.8912 0 0 0 0 0 0 0.4462 1.5256 2.8189 0.431 +LCE6A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCK 14.8895 28.1841 8.8876 9.2951 30.1783 5.2146 213.013 16.3191 8.9852 217.445 12.7226 84.9515 3.9593 19.3069 7.5238 52.729 44.6229 298.246 20.6718 0 +LCLAT1 177.714 405.449 485.854 315.26 171.569 415.564 295.068 357.659 290.169 459.842 335.878 373.18 478.507 327.059 528.819 547.641 180.277 355.454 451.962 530.172 +LCMT1 1035.06 611.998 1634.72 1255.62 1312.2 1484.96 605.056 1068.9 1797.04 454.049 1698.47 1099.51 1643.67 1649.58 1886.34 1304.35 1769.3 1443.94 1003.05 568.103 +LCMT2 231.508 171.923 272.552 182.029 212.924 186.522 157.066 277.084 481.501 413.501 404.58 243.932 263.575 278.405 241.838 231.267 302.99 567.506 568.945 123.707 +LCN10 9.1258 18.9236 268.405 34.8102 27.384 6.418 4.9731 0.34 1094.74 18.2689 0 35.3944 0 3.4752 1.6123 24.9769 390.134 11.4416 1702.88 3.4483 +LCN12 35.0624 8.8579 72.2856 16.2665 176.599 113.117 0.4144 0.34 11.6279 1.7823 0 25.4854 70.1357 3.4752 1.6123 5.5504 68.7193 1.5256 20.6718 111.638 +LCN1 0 0 0 0 0 0 0.4144 0.34 0 2.2279 1.2723 0 0.5656 0 1.0748 2.7752 0 0 0 0 +LCN15 0 0 0 0 0 0.4011 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCN2 2.4015 439.27 509.554 934.16 0 1.6045 0.8288 0 85.0951 15.5954 8.2697 520.631 1.6968 6.1782 2.1497 6.4755 163.32 74.7521 486.728 2.1552 +LCN6 0.4803 0 0 0.8211 0.5589 8.4236 0 0 1.982 0 1.2723 1.6201 0 3.4752 5.3742 4.6253 35.5689 0.7628 3.0162 0.431 +LCN8 0 0 0 0.7746 0 0 0 0 0 0 0 0 0 0 0 0 4.0161 0 0 0 +LCN9 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCNL1 0 0.4026 0 0 59.7977 0 1.6577 0 0 0 0 0 0 0.3861 0 0 0.4462 1.5256 0 0 +LCOR 13.8232 142.559 31.1598 17.0411 7.2651 36.8472 10.8952 17.39 18.4302 14.7042 9.542 22.9915 7.3529 14.7929 5.5945 11.1008 4.0161 17.4676 31.7125 68.944 +LCORL 215.49 113.22 117.665 174.369 68.4655 68.3795 83.3485 351.672 216.406 62.6668 167.074 85.5643 40.1357 179.067 73.5832 145.8 258.688 443.44 307.757 142.974 +LCP1 1117.68 5452.42 288.55 324.555 1945.94 179.302 3541.65 397.777 630.55 1941.85 786.896 1567.35 549.208 2017.57 1398.9 1065.68 729.585 3161.71 5062.72 1324.57 +LCP2 127.281 96.6313 41.4753 119.287 148.097 52.9483 736.013 66.6361 93.0233 453.158 107.506 268.204 125 41.7029 78.463 256.244 62.4721 625.477 91.6138 11.2069 +LCT 0 0 0.5925 8.5205 0 1.2034 1.2433 0 0 0.4456 1.9084 0 0 0 0 0 4.4623 0 0.4698 1.2931 +LCTL 0 0 0 0 0 0.4212 0.9242 0.7514 0.5708 0.9714 2.8372 0.6796 0.6222 1.6874 1.1823 0 0 4.0656 0.498 1.431 +LDB1 555.716 2869.55 987.113 2006.2 747.75 1989.57 933.278000000001 1596.21 913.319 442.464 2298.98 4378.64 355.769 857.612 687.895 2506.94 546.185 1405.8 1089.97 713.362 +LDB2 461.095 1741.38 230.484 449.264 574.505 1141.6 706.175 4288.17 425.476 78.4226 926.845 270.024 385.747 1332.56 1076.99 691.027 2937.08 413.425 552.032 1327.59 +LDB3 53.7944 21.742 9.4801 17.0411 45.2674 12.8359 10.3605 4.7597 18.4989 7.1293 5.7252 30.3398 12.4434 5.7921 4.8368 71.2303 9.3708 12.2044 21.6115 4.3103 +LDHA 12727.2 3690.11 39832.3 9919.44 10228.2 17327.3 33160.4 4300.07 30558.1 33132.2 18934.5 8223.3 27392.5 9160.73 10758.6 9730.8 24432.4 6409.61 10655.9 36109.1 +LDHAL6A 0 0.4026 1.7775 0 1.1177 1.2034 0 1.3599 0.5285 0 0 27.9126 0 2.3168 0 0 0.4462 0 0.9396 0.431 +LDHAL6B 0.4803 0.4026 0 2.3238 0.5589 0.8022 0.4144 0.34 0.5285 0.4456 1.9084 0 0 0 0 0 0 0.7628 0 1.2931 +LDHB 16385.7 13617 20625.1 12584 17018.9 19395.5 6493.99 27432.3 19753.2 9596.97 27771.6 25018.2 26709.8 25391.6 19111.1 16933.4 29194.6 21916.9 33406.2 24783.6 +LDHC 0.9606 1.2079 0.5925 0 20.6777 0.4011 2.4865 38.7577 0.5285 0 0 93.4466 0.5656 0 1.0748 0 0 0.7628 1.4094 0.431 +LDHD 19.2123 155.415 1086.06 44.9264 59.2388 40.5134 40.6133 13.5992 326.11 30.2997 161.578 2661.41 83.1448 1008.59 289.131 586.494 527.889 46.5294 142.354 484.483 +LDLR 8531.22 10610.1 22062.5 2247.1 20577.7 84194.8999999999 116.867 21911 30399.6 1099.7 24942.1 4682.04 25974.5 24639.8 7362.09 662.35 7505.13 11237.2 24059.7 52301.3 +LDLRAD1 0 4.0263 15.4051 0 170.451 4.4124 0 0 0.5285 0 0 0.6068 2.2624 10.4257 5.9116 4.6253 0.4462 0 14.0944 7.3276 +LDLRAD2 129.962 158.117 97.5441 455.647 158.441 197.144 237.978 158.645 215.55 327.562 261.889 63.1129 793.626 212.356 131.275 339.167 123.708 324.333 114.762 113.328 +LDLRAD3 195.485 124.815 645.83 210.689 134.685 142.8 224.202 162.171 720.93 395.678 192.112 199.636 54.2986 327.831 537.955 231.267 318.161 160.946 186.516 207.759 +LDLRAP1 665.706 473.091 1494.3 1408.99 1211.6 1931.01 628.264 644.263 1858.88 845.717 1349.24 780.947 703.62 1552.66 1797.66 1012.03 715.306 1016.02 1415.08 381.897 +LDOC1 2461.58 496.041 2302.47 1849.73 352.08 601.284 58.0191 1181.09 1941.33 553.86 1693.38 1423.54 1932.13 1806.74 1712.21 2618.87 1427.93 1341.72 756.871 59.9138 +LDOC1L 340.538 927.66 792.179 287.374 369.963 610.91 157.48 557.908 964.059 506.183 318.702 523.665 522.059 910.898999999999 985.624 277.521 1233.38 225.019 1203.66 812.069 +LEAP2 2.8818 2.0132 1.185 7.7459 0.5589 0.8022 3.3154 0.68 8.9852 3.1191 5.7252 5.4612 1.1312 8.495 13.4354 2.7752 8.4784 8.3905 4.6981 2.5862 +LECT1 0 0 0 0 0 0 0 0 0 0.4456 0 0 0 0 0 0 0 0 0 0 +LECT2 0 0.4026 21.5079 0.7746 0 0 1.6577 0 0 0 3.327 0 0 2.3168 0 0 0.8925 0.7628 1.4094 0 +LEF1 3811.72 3207.76 1047.55 1583.27 19.0011 528.279 908.827 2957.15 140.063 29.8541 853.053 108.01 494.909 2290.18 349.322 2776.13 1243.19 1630.05 158.797 941.81 +LEFTY1 7.6849 10.2953 12.2648 46.282 13.9714 101.007 50.8744 3.8384 6.0307 2.0987 2.5445 3.0947 62.9186 4.5139 9.4102 3.7003 9.0228 3.8139 7.3103 16.9698 +LEFTY2 2.8818 5.6368 0 0 96.1234 57.3606 31.4961 0 0 0 2.5445 7.2816 146.493 0.3861 1.0748 0.9251 57.5636 0 28.6587 5.6034 +LEKR1 41.7867 21.3394 8.8876 13.1681 20.6777 8.8247 5.3875 10.1994 21.1416 4.4558 13.9949 20.6311 18.0995 18.1485 5.9116 11.1008 27.22 9.1533 11.2755 9.9138 +LELP1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LEMD1 0.9606 0.8053 2.9625 0 0 0 2.0721 2.3799 13.7421 0.4456 1.2723 0 0 1.5446 2.6871 0 0 0.7628 0.9396 0.431 +LEMD2 1573.49 1259.43 778.551 1233.93 1488.79 1101.89 1597.18 945.485 1729.92 1092.57 1208.02 915.048 1051.47 779.612 895.338 1230.34 857.653 963.387 1391.59 1218.53 +LEMD3 450.528 962.689000000001 651.755 814.872 442.056 451.665 461.666 976.763000000001 840.909 312.354 874.046 606.189 316.176 809.345 538.492 647.549 643.016 843.631 661.968 3149.57 +LENEP 0 0.8053 0 0 0 0 0 0 0 0.4456 0 1.2136 0 0 0 1.8501 0 0 0 0 +LENG1 240.154 212.186 284.402 413.633 278.87 580.826 297.555 483.452 347.78 277.598 533.715 305.825 780.543 378.801 286.981 411.656 301.651 575.134 225.981 340.517 +LENG8 1857.9 2546.34 2928.36 7626.64 1905.75 2153.23 1895.27 2629.44 3301.25 1636.33 7152.44 4729.41 940.057 4053.87 1945.69 1340.93 3158.6 3038.36 817.524 2072.58 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1285.81 116.279 39.6569 117.684 566.748 163.462 155.613 73.0888 110.083 3563.59 541.571 25.37 61.2069 +LEPROT 156.58 636.462 355.485 28.3114 437.495 375.764 225.744 586.095 332.452 460.131 118.957 372.548 119.909 343.195 650.646 173.913 202.111 84.6682 313.324 414.957 +LEPROTL1 1271.85 936.518 1168.42 1050.35 4838.58 1994.79 908.413 1927.69 1362.05 780.216 1638.68 2185.68 3104.07 1373.88 1579.47 1497.69 950.915 1868.04 1766.97 3206.9 +LETM1 920.749 1183.33 1469.41 2941.91 1371.99 1277.98 737.256 2584.87 2119.98 681.297 1420.48 2807.65 2106.33 2239.6 1976.08 1396.85 3379.3 2668.19 4640.36 831.034 +LETM2 50.4323 19.3263 24.2927 76.6847 45.8262 20.8584 34.397 97.2343 59.7252 55.6979 68.0662 78.8835 40.724 44.4058 87.0617 55.5042 49.0852 110.603 24.9002 60.3448 +LETMD1 1197.89 2112.2 822.989 1257.94 1288.72 910.951 1007.46 1221.55 1148.52 793.584 1099.87 1796.72 1476.81 1844.19 1191.99 756.707 1957.16 1093.82 1313.13 3183.62 +LEUTX 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LFNG 62.44 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566.1 18.3589 8.4567 23.1703 16.5394 39.4417 12.4434 10.8119 13.4354 39.778 2.6774 12.2044 29.5983 1.7241 +LGI3 40.3458 18.521 79.3956 128.583 24.5897 302.046 12.0182 14.2792 4.7569 4.4558 5.7252 21.8447 466.629 438.266 7.5238 6.4755 25.4351 6.1022 33.3568 149.138 +LGI4 68.2037 8.8579 2.37 13.9427 11.736 16.446 138.831 63.5763 38.5835 74.4124 29.8982 16.9903 13.009 8.495 5.3742 80.481 30.3436 29.7483 5.6378 5.6034 +LGMN 774.736 1484.5 1315.95 1421.38 5690.28 842.76 12711.1 1184.15 2216.17 2534.92 1655.22 1413.23 1813.35 1030.99 1288.73 1958.37 1148.15 1661.33 4208.6 1586.64 +LGR4 826.608999999999 831.029 673.678 343.145 3091.6 1263.14 265.23 387.577 874.207 46.7862 576.972 603.762 632.353 783.859 563.751 342.276 318.608 308.162 965.469 1460.34 +LGR5 5.2834 4593.61 931.418 76.6847 0 0.8022 9.1173 114.913 31.1839 0 52.799 240.898 1.6968 540.593 7.5238 56.4292 1124.5 3.8139 4.6981 577.155 +LGR6 7.2046 23.3526 1.7775 5.4222 2.7943 0 6.2163 2.3799 2.6427 316.364 2.5445 4.2476 2.2624 0.7723 0 3.7003 24.9888 26.6972 3.7585 1.2931 +LGSN 0 0.4026 5.925 10.8443 1.1177 11.6326 0.4144 0.34 44.926 11.5852 3.8168 0 0 37.4554 4.8368 5.5504 0.4462 0 26.7794 6.8966 +LGTN 1131.12 1174.07 590.727 467.854 637.655 346.971 846.664 436.875 669.662 924.139 569.338 661.408 507.353 671.107 788.392 691.027 423.025 938.215 402.161 484.914 +LHB 2.8818 0.8053 2.37 11.6189 2.2354 0.4011 1.6577 0.68 28.0127 1.7823 0.6361 0 32.2398 2.703 0.5374 0 5.801 2.2883 3.2887 17.6724 +LHCGR 12.488 0 0.5925 0 0 0 0.4144 0 0 1.3367 0 0.6068 0 0 0 0.9251 0 0 3.7585 2.1552 +LHFP 588.857 980.808 412.383 278.079 205.659 352.186 1313.72 1140.97 366.279 484.349 794.529 402.306 177.036 737.137 533.118 1667.9 1051.76 1146.45 568.476 108.621 +LHFPL1 7.2046 9.2605 2.37 2.3238 0 0 0.8288 12.9192 1.0571 0 3.8168 3.034 5.0905 14.6732 0 7.4006 222.222 12.2044 7.9868 4.7414 +LHFPL2 787.704 1212.32 1413.12 919.442 1246.25 1247.49 3406.13 945.145 797.04 703.576 728.371 1243.93 1319 1166.91 1726.19 966.697 766.622 652.174 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820.158 876.907 783.889 912.613 493.382 6199.75 404.577 1467.76 1957 209.924 1321.6 283.371 437.108 654.037 513.413 471.664 1674.29 2375.85 602.155 +LIMK2 200.288 424.372 546.289 482.572 389.523 299.639 715.707 276.404 466.173 1762.28 241.094 397.452 269.796 436.336 298.804 235.893 459.616 432.494 603.712 281.034 +LIMS1 70.6052 510.938 244.112 48.0248 202.306 454.071 147.949 211.128 98.8372 100.256 63.6132 99.5146 78.6199 128.97 232.702 103.608 62.0259 79.3288 280.009 362.069 +LIMS2 321.806 257.683 96.5783 203.718 359.345 221.42 261.086 262.805 161.734 98.0283 408.397 248.786 185.52 271.455 121.456 561.517 149.041 254.767 277.66 75 +LIMS3 144.798 65.2946 62.4559 38.8226 68.8008 124.3 97.0908 52.8771 29.2812 2.4463 32.8626 19.0413 215.351 50.5686 55.1122 48.2886 13.4092 13.4325 72.1306 133.957 +LIMS3-LOC440895 152.512 39.3893 77.9677 324.462 115.622 708.432 71.5789 63.0561 45.7717 51.9149 88.6387 37.9976 153.993 55.6193 83.5416 73.8205 22.2892 71.9985 52.84 180.267 +LIN28A 4.8031 0 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0.6068 41.2896 21.2376 16.1225 5.5504 82.9987 0 12.2152 0.431 +LRFN3 191.162 684.069 534.439 587.142 409.083 384.677 378.367 918.287 815.011 215.217 550.891 452.67 407.805 487.306 353.621 478.261 531.905 569.031 256.519 384.483 +LRFN4 214.697 636.559 33.7728 656.081 912.053999999999 336.542 171.571 494.331 118.393 797.594 67.43 404.733 163.462 96.9206 486.363 198.89 132.53 85.431 42.2833 159.914 +LRFN5 680.596 4.4289 25.4777 51.1232 0 0 20.7211 105.394 35.9408 0.4456 18.4478 35.801 1.1312 52.1286 13.4354 22.2017 0.8925 51.106 59.6664 0.431 +LRG1 1.4409 6.0395 109.613 3.0984 11.736 10.0281 27.3518 2.3799 551.269 39.2113 4.4529 7.2816 11.3122 35.9108 32.7825 12.0259 642.124 12.9672 77.5194 12.5 +LRGUK 0 2.0132 6.5176 57.3199 1.1177 8.8247 3.3154 2.7198 12.1564 3.5647 10.1781 5.4612 1.6968 24.7128 13.9729 3.7003 20.9728 11.4416 7.517 0.431 +LRIG1 859.428 216.128 186.278 235.709 82.0793 77.5251 2172.47 590.44 115.365 193.298 671.138999999999 741.038 47.9921 130.252 102.787 707.53 124.453 378.955 151.125 91.5474 +LRIG2 145.533 167.494 99.5408 142.525 90.5348 132.371 208.869 141.092 141.649 68.6198 81.4249 80.0971 63.914 84.5641 81.1501 65.6799 78.9826 40.4272 84.0968 91.8103 +LRIG3 144.092 100.658 46.8079 45.701 133.008 102.286 1036.88 383.838 25.8985 142.141 164.122 275.485 206.448 240.564 18.8096 222.942 162.874 104.5 84.0968 1096.98 +LRIT1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.4698 0 +LRIT2 2.8818 0 2.9625 0 0 5.2146 0 0 0 1.3367 0 1.2136 2.8281 0.7723 0 0 1.7849 0 0 0 +LRIT3 6.7243 1.6105 13.6276 58.0945 0.5589 1.6045 2.0721 2.0399 9.5137 0 29.2621 10.3155 0.5656 6.5643 6.449 10.1758 3.5698 41.1899 13.1548 1.2931 +LRMP 59.0778 75.6945 24.2927 34.8567 146.979 69.7954 167.012 271.304 29.0698 49.0141 62.341 55.2184 59.9548 82.2473 83.2997 44.4033 35.2521 127.384 53.5588 12.5 +LRP10 1779.06 3739.63 3178.2 2838.11 1922.47 2162.45 4046.83 3529.33 4106.24 1490.92 1963.1 2559.47 2356.33 1373.11 1372.56 2825.16 1895.14 1102.97 4017.85 3298.28 +LRP11 2135.45 1091.92 3772.42 1134 4166.21 2456.48 1179.86 1718.9 3007.83 2529.58 1501.23 839.794 8195.13 2556.22 2832.19 2694.73 2669.25 989.253 4857.86 2898.27 +LRP12 545.149 922.829 194.934 272.657 114.566 29.6831 429.341 1051.9 190.803 341.762 249.364 426.578 124.434 683.85 166.062 517.114 403.391 421.815 246.653 1265.09 +LRP1 1237.27 3516.57 3295.51 1075.14 1842.55 1020.06 50280.6 3885.63 1357.29 3283.5 1129.13 2688.11 748.303 846.028 1669.22 15245.1 1379.3 1968.73 1058.02 536.638 +LRP1B 1.4409 0.4026 0.5925 0 0 0.4011 0 4.0798 5.2854 0 0 9.7087 2.2624 1.9307 33.8573 6.4755 2.6774 0.7628 76.5798 1.2931 +LRP2 0 0.4026 2.9625 1.5492 0 1.2034 4.1442 0.34 2.1142 0.4456 0 0.6068 1.1312 1.9307 0.5374 0 2.2311 0 0.4698 0.8621 +LRP2BP 134.966 47.913 78.2106 313.71 19.56 32.8921 37.7124 175.43 73.4672 15.1498 90.3308 86.7718 16.4027 78.7721 36.007 46.2535 70.5042 205.95 51.6796 37.931 +LRP3 1177.71 902.697 4204.33 4630.33 312.96 1734.46 1104.76 5510.74 2553.9 962.081 3234.05 3123.79 680.995 3389.84 3619.44 3453.27 3266.62 3823.02 995.969000000001 1072.41 +LRP4 222.382 231.102 162.518 141.751 1444.34 276.181 371.604 170.949 195.032 284.563 113.69 786.845 78.0543 240.239 199.339 228.492 84.7836 166.285 694.353 109.845 +LRP5 2012.49 2551.87 2456.53 2006.97 374.993 2902.13 563.614 345.42 1135.31 3955 1896.95 1035.19 245.475 1358.82 97.81 1901.02 1045.52 1873.38 1274.14 1225.86 +LRP5L 129.203 69.2524 72.2856 95.275 79.3577 64.9819 78.3257 29.9183 99.3658 61.4905 57.888 35.1942 109.728 113.525 69.8643 24.9769 210.174 131.198 58.7268 179.31 +LRP6 656.58 1388.27 631.61 808.675 350.962 807.06 970.162 1779.12 893.763 541.384 898.855 837.985 767.534 790.424 303.641 614.246 797.412 766.59 745.126 1169.83 +LRP8 19.2123 366.394 366.168 67.3896 24.5897 72.6033 116.453 30.9382 343.552 1194.61 13.3588 50.9709 75.2262 35.5247 29.558 30.5273 115.127 32.0366 85.976 51.7241 +LRPAP1 2472.14 4160.78 3595.32 2669.25 3444.79 4477.34 4501.86 5972.77 2950.85 2478.33 5786.26 11002.4 4661.76 5138.72 1963.72 9619.8 4821.51 9079.33 4525.25 3269.4 +LRPPRC 2676.75 4245.74 3908.16 2164.99 4804.49 3157.64 2259.01 2505.31 2725.69 3157.4 2267.18 2480.58 3766.97 3518.1 5194.14 1511.56 3825.97 1752.1 4747.47 3381.03 +LRRC10 0 0 0.5925 0.7746 0 0 0 0 0.5285 0 0.6361 0.6068 0 0 0.5374 0 0 2.2883 0 0.431 +LRRC10B 13.4486 124.815 199.674 323.78 18.4423 42.5191 61.3344 33.3181 392.178 6.2382 66.7939 24.8786 19.2308 68.3464 3.2245 48.1036 527.889 151.792 73.7609 18.9655 +LRRC14 1314.97 808.212 562.844 1673.07 674.965 604.124 637.012 1769.37 986.337000000001 1789.93 1331.04 1252.86 1046.17 1590.85 457.643 521.489 1591.58 1622.4 668.203 860.767 +LRRC14B 0 0 0.5925 3.0984 0 0 0 0.34 0.5285 0 0 0 0 0.7723 0 0 1.3387 0 0 0 +LRRC15 0 3.6237 17.7751 9.2951 1.1177 8.0225 370.908 1.0199 1.5856 2.6735 1.9084 20.6311 6.7873 0.3861 6.449 52.729 0.8925 3.8139 0 31.8966 +LRRC1 378.002 46.7051 86.5057 97.5988 149.774 114.32 185.661 60.8565 135.835 61.0449 163.486 53.3981 66.7421 91.1285 52.1295 100.833 57.1174 171.625 256.049 223.707 +LRRC16A 416.907 320.494 363.798 295.895 111.771 186.522 170.327 64.9362 241.543 239.724 223.919 183.252 303.733 259.871 266.559 212.766 255.689 51.106 427.061 524.138 +LRRC16B 10.0865 14.0921 41.4753 111.541 23.472 443.642 12.4327 44.1974 11.0994 4.9014 9.542 13.3495 95.5882 7.3366 8.0613 1.8501 12.0482 9.1533 17.3831 15.9483 +LRRC17 963.016 162.26 37.9203 50.3486 20.6777 50.5415 3881.06 66.9761 67.1247 10.2484 81.4249 44.2961 58.8235 60.2375 61.2656 123.959 109.772 47.2921 52.1494 731.897 +LRRC18 0 0.4026 0 3.0984 0 0.4011 2.901 0 0.5285 0 2.5445 0.6068 1.1312 0 0 0 0 1.5256 0.4698 0 +LRRC19 0.4803 3.6237 1.185 6.1967 2.2354 6.418 3.7298 0.68 14.7992 2.6735 0 1.8204 11.8778 2.703 5.3742 6.4755 0.8925 6.1022 0.4698 3.0172 +LRRC20 253.122 722.319 398.756 111.541 167.657 959.487 658.516 235.266 207.188 639.412 175.572 647.452 567.308 314.702 369.206 245.143 327.086 511.823 362.227 728.448 +LRRC23 233.91 260.502 274.33 240.899 701.924 95.4673 405.719 157.751 448.731 244.18 236.005 339.199 201.357 214.306 422.948 377.428 231.593 262.395 103.359 275.431 +LRRC24 26.5322 75.159 38.5484 113.919 104.082 121.508 48.0274 444.582 54.3605 22.2613 62.7226 26.875 301.114 165.692 61.5021 27.0768 259.862 67.1472 5.0411 234.491 +LRRC25 72.5264 160.649 274.922 120.062 347.609 23.2651 762.536 160.131 226.216 331.068 216.921 686.286 125 5576.21 856.643999999999 111.008 293.619 594.966 477.801 22.4138 +LRRC26 0 0.4026 0 18.5902 0.5589 0.8022 0.4144 0 0 1.7823 0 0 0 0 1.0748 0 5.801 0 0 0 +LRRC27 162.344 243.189 85.9132 153.369 116.36 140.578 120.787 103.694 126.85 212.989 122.137 330.097 119.344 122.792 117.695 139.685 85.676 172.387 46.0418 67.2414 +LRRC2 57.1566 543.954 13.0351 15.4919 269.369 0.4011 29.0095 1.3599 6.3425 1.3367 0 44.2961 14.7059 0 2.6871 2.7752 0.4462 5.3394 105.708 52.5862 +LRRC28 149.856 159.844 95.3933 43.3772 236.955 127.557 220.472 88.7348 164.905 249.972 234.097 109.223 177.602 158.316 137.579 121.184 91.477 243.326 490.486 175.431 +LRRC29 70.6052 72.0708 152.866 162.665 98.9176 43.3213 80.8123 185.969 190.803 32.082 145.674 251.214 97.8507 176.465 92.9733 256.244 188.755 375.286 80.3383 29.3103 +LRRC30 0 0 0 0 0 0 0 0 0 0 0 0 0 0.3861 0 0 0 0 0 0 +LRRC31 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.4698 0.431 +LRRC32 620.077 1504.23 564.065 228.505 659.451 718.01 1808.12 530.709 693.446 215.662 1237.28 771.845 569.005 1008.98 480.451 1108.23 738.51 1420.29 722.575 384.914 +LRRC33 66.7627 72.8761 15.4051 12.3935 206.218 67.3887 502.694 73.0957 34.8837 211.206 82.6972 151.092 72.9638 54.8315 55.8914 146.161 46.8541 109.077 69.0627 8.6207 +LRRC34 17.7714 79.3182 20.7377 17.8156 17.3246 10.4292 21.1355 16.999 16.3848 47.2318 17.1756 69.7816 6.7873 35.9108 25.2586 49.9537 21.419 68.6499 20.6718 15.9483 +LRRC36 3.8425 8.0526 10.6651 9.2951 40.7965 12.0337 1.6577 20.0588 4.7569 0.4456 1.9084 1.8204 19.7964 13.1287 149.402 0.9251 29.0049 2.2883 1.4094 39.6552 +LRRC37A2 44.121 35.0288 74.8571 51.8978 36.7225 87.9101 47.2027 37.0578 60.7135 32.5276 30.6679 78.8592 54.9887 51.7695 153.503 156.198 78.8443 65.3547 32.6803 91.1121 +LRRC37A3 271.374 221.044 295.66 1149.5 116.242 252.306 200.166 200.588 369.979 21.388 203.562 296.723 32.2398 320.88 296.117 370.028 320.393 440.122 215.175 95.6897 +LRRC37A4 109.51 294.725 147.534 212.912 103.947 159.126 95.3005 99.6142 106.21 70.4021 65.5216 274.763 66.6968 118.892 42.9934 86.013 118.251 77.8032 102.889 322.358 +LRRC37A 363.593 173.534 280.255 391.17 140.273 221.42 143.804 219.287 161.205 229.03 155.852 388.349 184.389 178.782 235.389 353.377 253.458 363.844 139.065 259.483 +LRRC37B 130.644 206.147 85.3207 279.628 111.213 158.444 228.346 150.271 127.907 51.2421 119.593 320.995 58.2579 141.326 89.7488 187.789 103.079 109.84 72.3514 164.655 +LRRC37B2 718.06 344.652 167.086 402.788 230.249 505.816 372.98 307.342 358.88 341.762 263.359 510.315 302.602 357.563 81.1501 319.149 368.586 159.42 239.136 789.224 +LRRC3 28.8184 92.2024 271.367 281.177 34.6491 62.5752 25.6942 208.068 146.935 65.9463 76.972 49.7573 19.7964 52.5147 257.961 137.835 305.221 53.3944 91.6138 59.9138 +LRRC39 70.0096 215.286 9.7112 71.2393 203.005 8.6081 90.4434 21.327 61.7336 8.2477 21.0496 112.512 2.9016 13.6963 10.6086 2.7752 6.7827 180.091 26.9063 25.4784 +LRRC3B 0 70.0577 0 0 0.5589 0.8022 2.4865 0.34 1.5856 0 1.2723 30.9466 0 1.1584 2.1497 0.9251 13.8331 1.5256 0.4698 331.034 +LRRC40 233.429 289.089 142.201 160.341 97.7999 173.285 133.444 208.068 245.243 420.185 106.234 197.815 87.1041 160.633 300.416 141.536 135.208 171.625 321.353 185.345 +LRRC41 2094.14 2093.28 1978.97 1173.51 1805.11 1459.69 1659.76 2425.08 1883.19 2444.91 1239.19 1328.88 1791.86 1334.11 2323.26 1306.2 1376.62 1169.34 1094.2 1300 +LRRC42 549.472 740.84 609.095 181.255 1308.84 951.865 724.409 396.757 792.283 1704.36 442.748 468.447 1126.7 396.95 1011.96 302.498 573.851 247.14 585.389 523.707 +LRRC43 17.2911 31.8078 5.925 27.8854 13.9714 0.8022 3.7298 7.8195 1.5856 0.8912 0.6361 22.4515 0 7.3366 0.5374 2.7752 18.2954 6.865 0.9396 0.8621 +LRRC45 439.481 98.6444 161.161 467.854 268.251 314.079 382.511 224.727 281.712 1191.04 220.738 228.762 417.986 195.772 168.749 160.962 420.348 223.494 148.461 610.776 +LRRC4 161.864 43.0815 18.3676 143.3 57.0034 175.291 116.038 87.3749 59.7252 20.0512 60.4326 84.3447 76.9231 125.495 275.158 56.4292 43.2842 111.365 124.031 18.1034 +LRRC46 21.1335 20.1315 23.1077 24.0124 3.3531 42.9202 9.5317 9.1795 41.2262 10.2484 34.9873 100.728 27.7149 23.9405 58.0411 67.5301 55.7787 46.5294 0.9396 22.8448 +LRRC47 1070.61 1390.69 1206.93 979.086 1253.52 980.345 1593.45 767.675 1272.2 1976.16 1246.82 1068.57 1254.52 1305.53 2033.05 747.456 1231.59 1022.88 1378.44 825.431 +LRRC48 50.9126 30.5999 23.7002 4.6476 13.4126 12.0337 15.748 5.0997 10.5708 12.4763 5.7252 108.617 17.5339 10.8119 24.7212 52.729 25.4351 19.8322 2.3491 3.4483 +LRRC49 144.572 173.131 108.428 99.1479 49.1794 37.3045 190.22 173.05 68.1818 36.5378 144.402 71.6019 41.8552 238.633 61.803 167.438 261.49 872.616000000001 86.4459 51.7241 +LRRC4B 18.2517 17.7157 4.1475 1189 11.1771 40.9146 35.2259 564.367 77.6956 3.1191 18.4478 25.4854 13.009 9.2673 6.449 63.8298 130.299 9.1533 8.9265 3.4483 +LRRC4C 135.447 2.4158 245.889 129.357 0 3.209 1.2433 249.546 210.359 0 99.2366 10.3155 5.0905 69.1186 31.1702 147.086 134.315 99.1609 169.133 55.1724 +LRRC50 56.6763 2.4158 11.8501 27.1108 64.2685 9.627 16.5769 2.3799 26.9556 6.6837 7.6336 10.3155 27.7149 29.7326 55.8914 5.5504 42.3918 0.7628 4.2283 1.7241 +LRRC52 0 0 0 0 0 0 0.8288 0 0 0 0 0 0 0 0 0 0 0 1.8793 0 +LRRC55 1.9212 9.6631 0.5925 3.873 5.0297 1.2034 12.8471 41.4776 2.1142 0 10.8142 3.034 11.8778 6.9505 1.6123 11.1008 7.1397 14.4928 22.0813 0 +LRRC56 25.9366 37.042 67.5455 79.7831 62.5919 26.8753 29.8384 57.7966 70.8245 45.4495 13.3588 9.1019 26.5837 33.594 13.9729 12.951 78.0901 19.0694 9.3963 40.9483 +LRRC57 220.941 306.402 225.152 107.668 460.498 393.502 302.942 272.664 541.226 347.555 213.104 195.995 354.638 237.475 408.438 134.135 201.249 252.479 378.67 353.448 +LRRC58 1463.5 2598.98 2819.73 329.202 2483.56 1890.89 661.417 1169.19 987.844 799.376 742.366 1515.78 698.529 963.413 5459.09 1459.76 799.643 539.283 1268.97 1958.19 +LRRC59 3609.15 2107.11 3948.37 2528.48 2498.9 3719.78 4367.45 2194.86 4425.73 4295 3202.12 2487.82 3882.94 3565.9 5146.17 2565.93 3111.64 2866.94 2705.94 5663.09 +LRRC61 3.3622 163.065 334.765 178.931 322.46 202.166 30.2528 263.825 1.0571 661.245 147.583 120.146 5.0905 366.445 0.5374 325.624 175.814 446.224 14.0944 0.431 +LRRC6 183.477 26.171 27.8477 37.1805 59.7977 20.8584 10.775 48.2772 9.5137 55.6979 96.056 86.165 11.8778 235.544 34.9322 54.5791 71.8429 93.8215 4.6981 52.5862 +LRRC66 5.2834 134.076 38.5128 515.105 1.1177 3.6101 16.1625 7.1396 11.0994 0.8912 46.4377 13.3495 3.9593 76.8414 10.2109 60.1295 41.0531 4.5767 8.4567 112.5 +LRRC67 0 0.4026 1.185 0 0.5589 0.8022 0 4.0798 0 0 2.5445 4.2476 1.6968 6.5643 4.2993 0.9251 8.9246 3.0511 0 0.8621 +LRRC69 2.4015 0 0 0 1.1177 0 1.2433 0 0.5285 1.3367 3.1807 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3.3622 39.0551 352.54 751.356 109.536 10.8303 19.0634 30.9382 97.7801 108.277 110.687 699.636 16.4027 413.167 128.98 617.946 24.5426 12.2044 97.7214 3.8793 +LRRCC1 279.059 174.742 299.215 365.608 227.455 139.19 145.876 211.468 230.972 196.948 199.745 385.315 106.335 367.217 337.498 184.089 584.114 337.147 194.033 286.638 +LRRFIP1 1038.9 1562.21 501.259 422.153 919.319 1324.11 1554.91 1020.62 1015.33 1667.37 1064.89 1055.83 689.48 513.177 833.535 1386.68 572.958 726.163 987.55 1332.76 +LRRFIP2 1468.78 2429.47 615.02 678.544 1380.93 867.629 1361.79 761.896 843.552 606.884 774.809 1021.84 664.593 654.503 663.173 936.17 669.344 652.937 600.893 1631.9 +LRRIQ1 0 12.0789 5.3325 19.3648 0 0 0.4144 2.7198 12.685 0 9.542 8.4951 0 22.396 12.898 15.7262 1.3387 9.9161 0 0 +LRRIQ3 5.2834 12.0789 2.37 6.1967 10.0594 0.8022 0.4144 0.68 12.685 14.2587 1.9084 17.5971 9.6154 10.8119 4.2993 9.2507 26.7738 13.73 29.5983 2.5862 +LRRIQ4 0 1.2079 0 0 0.5589 0 0.4144 0 0 2.6735 0 0.6068 0 0.3861 0 1.8501 0 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2601.8 2710.2 2489.36 3609.1 1244.09 1617.57 1315.09 +MAN1C1 1462.54 153.402 657.088 701.007 1254.07 1206.98 536.676 229.147 758.457 94.4636 1360.05 2294.3 614.819 783.087 1714.36 1297.87 1031.24 850.496 1068.83 353.448 +MAN2A1 142.651 2722.18 1685.68 440.744 78.7988 697.553 288.023 247.846 1089.32 329.731 596.692 847.087 81.448 484.989 771.732 632.747 291.834 190.694 1217.76 387.5 +MAN2A2 983.669 2534.16 1124.57 2254.84 2037.03 890.092 411.106 768.695 2197.67 1019.05 1190.84 1513.96 319.005 1355.73 555.69 932.47 1677.82 2321.89 2052.62 887.5 +MAN2B1 692.603000000001 2392.43 1446.3 1607.28 1573.74 1954.67 4542.48 1765.52 1048.1 2981.84 1982.19 1458.13 1671.95 466.84 774.956 3289.55 570.281 3607.93 673.244 4259.48 +MAN2B2 1771.85 3374.85 1866.39 1270.33 1009.3 1843.56 2118.52 1632.59 1609.94 680.851 1156.49 1884.71 528.846 1235.25 1100.63 2529.14 1003.12 1627 1440.92 968.103 +MAN2C1 2232.95 1340.76 1629.98 2600.31 4819.58 940.634 1058.85 1212.37 1603.59 988.303 1903.94 1454.49 871.041 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91.8984 661.425 398.483 854.31 655.861 1072.84 +MAOA 2395.29 335.391 4564.66 903.95 4829.08 1269.55 130.129 146.191 4082.45 1717.72 2224.55 2797.33 467.76 1699.01 3667.34 2731.73 1828.2 956.522000000001 3360.11 1308.62 +MAOB 2067.24 1733.32 4120.87 759.876 473.352 0.8022 5.8019 1290.57 1026.96 262.894 3499.36 4016.99 16.9683 4079.54 1075.91 5234.04 5610 3230.36 3313.6 998.707 +MAP1A 140.73 656.288 316.99 259.489 103.388 211.793 3287.19 208.068 725.687 75.7491 634.224 1586.16 75.2262 852.206 479.377 1677.15 572.512 1518.69 563.777 33.1897 +MAP1B 1056.68 4193.4 7703.16 6515.1 408.524 1826.71 4035.23 3063.56 706.131 896.513 2087.79 3620.15 1243.78 2023.36 1601.5 19747.5 3582.33 1893.97 1115.81 578.017 +MAP1D 66.7627 44.692 45.6229 37.1805 115.124 85.0381 96.9747 41.1376 29.0698 48.5686 54.0712 49.7573 67.8733 46.3365 97.2726 51.8039 40.1606 38.1388 38.5248 47.8448 +MAP1LC3A 807.397 381.694 274.922 824.942 781.841 425.19 863.655 313.802 261.099 247.744 386.768 898.058 1190.05 524.761 675.534 630.897 517.626 631.579 156.448 991.810000000001 +MAP1LC3B2 299.712 345.86 670.715 598.761 450.997 230.646 365.935 429.735 674.419 245.516 294.529 550.364 262.443 799.691 526.132 365.402 403.838 316.552 345.314 300.431 +MAP1LC3B 3047.07 2279.69 6294.18 5271.11 3786.81 1790.21 4871.11 4794.4 6693.45 1814.86 2475.19 4976.34 2227.38 8901.63 6189.44 4926.92 4683.62 3691.08 2878.55 2615.95 +MAP1LC3C 0 41.4709 0.5925 2.3238 1.6766 1.6045 246.995 3.3998 5.2854 0 4.4529 1.2136 0 12.3564 3.7619 5.5504 6.6934 4.5767 0.9396 2.1552 +MAP1S 693.084 791.169 1190.93 1811.77 693.541 960.69 1307.09 1221.55 1605.71 584.159 1370.87 804.612 931.561 942.176 923.284 1250.69 1185.63 1469.87 493.775 973.707 +MAP2 73.9673 251.644 178.344 82.1069 391.2 77.8179 92.4161 980.843 248.943 10.2484 113.868 878.641 69.0045 299.643 161.225 298.797 180.277 1070.94 278.13 18.5345 +MAP2K1 805.154 1127.18 1966.47 711.131 982.738 1039.29 1823.1 852.783 2101.21 2202.29 1097.71 1098.76 1010.75 784.23 1571.88 1015.25 798.559 1158.61 1798.76 1071.33 +MAP2K2 1909.7 2117.43 4468.08 7451.59 3353.7 4178.9 4204.72 3730.26 3767.97 2573.24 4788.8 4608.62 4917.99 4052.51 6915.49 6055.5 3599.73 3881.77 1999.06 3316.38 +MAP2K3 1054.76 514.562 748.926 441.518 559.415 1103.09 1097.39 661.942 1431.82 866.659 710.56 1161.41 794.118 787.335 993.685 808.511 564.926 697.941 889.359 449.569 +MAP2K4 1079.25 764.595 694.416 604.957 1222.78 445.648 709.076 780.595 645.877 245.071 846.692 1139.56 311.652 550.246 305.791 1000.93 397.59 411.899 972.046000000001 787.5 +MAP2K5 201.729 259.697 207.377 99.1479 418.025 288.809 388.313 283.884 557.082 193.829 291.985 263.956 376.131 323.583 484.751 168.363 287.372 430.206 562.838 124.569 +MAP2K6 8.6455 43.0815 2.37 4.6476 7.2651 10.4292 174.886 58.1366 3.1712 176.451 13.9949 14.5631 10.181 25.4851 9.6735 78.6309 5.3548 30.5111 11.7454 46.1207 +MAP2K7 1245.44 770.232 929.64 1588.69 1267.49 1276.37 927.891 1874.65 1084.04 639.412 1351.78 1085.56 1098.98 1339.9 1427.92 1049.95 1160.64 1041.19 519.145 910.345 +MAP3K10 1028.82 414.307 1032.74 1098.37 551.033 671.079 293.825 570.147 926.533 185.808 692.112 561.286 384.615 832.513 1287.12 578.168 571.174 790.236 264.975 438.362 +MAP3K11 2137.85 1136.63 1187.97 1533.69 1511.71 2062.98 1351.84 1481.29 1213.53 2006.46 957.378999999999 937.5 1683.82 1149.53 803.439 1524.51 966.979 1829.14 937.28 1264.22 +MAP3K12 69.1451 396.406 308.843 1025.14 460.263 207.24 670.158 677.516 215.211 65.2958 161.578 513.277 114.796 237.05 255.918 552.359 462.767 197.696 260.456 139.065 +MAP3K13 23.1076 250.887 74.8156 27.1108 25.7186 55.1143 5.8019 36.4221 57.241 29.511 21.673 34.5934 16.4027 37.1696 26.9407 34.2461 23.7439 27.4905 42.3115 56.1164 +MAP3K1 246.878 353.912 318.175 501.937 367.728 342.559 161.625 363.099 310.782 440.682 496.819 219.66 223.416 291.148 263.335 276.596 371.709 415.713 502.232 267.672 +MAP3K14 455.331 272.581 476.374 254.841 462.175 475.323 1564.44 237.986 581.395 376.072 734.733 610.437 252.262 617.048 397.689 791.859 674.699 470.633 311.487 642.672 +MAP3K15 989.625000000001 334.002 572.17 1025.04 1004.56 1053.72 2.3083 845.031000000001 241.829 0.9134 2495.18 309.939 1164.59 901.013999999999 568.072 133.756 552.039 646.781 3584.55 434.797 +MAP3K2 259.366 666.353 290.92 111.541 188.335 195.347 273.518 237.986 300.211 201.849 138.041 257.888 128.394 216.623 472.928 199.815 151.718 140.351 305.379 328.448 +MAP3K3 613.127 496.165 521.25 672.696 818.993 560.373 1752.75 431.38 679.984 916.658 655.528 962.688000000001 531.301 436.278 324.874 951.526 307.108 609.382 577.581 457.431 +MAP3K4 360.231 407.059 373.87 270.333 1368.64 256.719 1106.09 252.265 609.408 312.799 416.667 338.592 328.054 236.316 281.07 398.705 388.219 250.191 710.829 439.224 +MAP3K5 952.449999999999 508.925 2495.63 1640.59 9178.66 1182.11 815.168 356.299 3411.73 786.008999999999 1082.06 800.971 300.905 671.107 2377 710.453 771.084 1045.77 2946.21 1415.52 +MAP3K6 845.821 271.776 399.941 2691.71 269.928 350.983 981.765 374.998 626.321 1446.36 591.603 1014.56 265.837 288.445 461.642 847.364 746.096 607.933 299.742 287.069 +MAP3K7 370.317 1071 612.65 604.183 510.795 367.028 657.273 533.429 1090.38 291.857 1031.81 586.165 451.923 507.771 452.506 610.546 350.29 311.976 1316.42 786.638 +MAP3K8 104.227 26.5736 37.3278 43.3772 141.95 19.2539 769.167 21.0788 63.4249 115.406 85.2417 142.597 23.19 78.3859 173.048 72.1554 20.5266 143.402 15.9737 19.3966 +MAP3K9 44.6686 151.389 63.398 23.2378 12.8537 28.8809 3.7298 18.3589 63.4249 60.5993 20.3562 10.3155 28.8462 28.9603 3.2245 12.0259 70.5042 21.3577 163.495 22.8448 +MAP4 4085.49 8228.56 2854.69 2642.14 3633.13 2887.69 11338.2 3001.69 3243.66 3492.93 3079.52 7646.24 1736.43 2031.86 3019.75 2107.31 2240.96 2939.74 1508.57 4395.69 +MAP4K1 193.084 53.1472 31.4028 89.0782 84.9462 37.3045 178.201 12.5793 54.4397 139.913 61.0687 83.1311 19.7964 30.1187 49.9798 73.0805 109.772 269.26 15.0341 12.069 +MAP4K2 367.916 505.704 197.304 395.817 621.449 937.826 290.924 267.564 127.907 547.622 195.293 168.689 1169.12 182.643 182.722 141.536 199.911 305.873 272.962 695.259 +MAP4K3 1060.04 1141.05 486.447 652.982 793.018 624.95 421.882 842.471 652.748 346.218 698.473 416.869 402.149 590.791 501.411 496.762 568.496 781.083 578.342 1374.14 +MAP4K4 787.704 894.645 556.362 905.5 613.625 1514.24 8014.5 913.867 491.543 3940.29 587.786 915.048 447.398 473.019 421.336 1447.73 704.596 420.29 602.772 1610.34 +MAP4K5 449.568 596.296 790.994 681.642 274.957 271.962 638.21 583.066 792.283 652.334 377.226 373.18 172.511 471.088 463.791 582.794 830.878999999999 364.607 715.997 412.5 +MAP6 665.706 397.799 20.7377 677.769 368.287 92.2583 27.7663 1012.12 49.1543 43.6671 879.771 183.859 53.1674 776.137 13.4354 799.26 546.631 774.218 408.738 425 +MAP6D1 54.2747 21.742 52.7329 68.9388 32.9725 72.2022 40.6133 31.6182 60.7822 93.1269 36.2595 44.2961 75.2262 36.2969 46.7553 19.4265 32.1285 32.7994 31.4776 53.4483 +MAP7 310.759 43.4841 162.346 187.452 314.636 151.223 241.194 300.882 257.928 145.706 466.285 123.18 93.3258 157.158 33.3199 267.345 79.4288 119.756 760.16 359.052 +MAP7D1 1021.13 1086.7 1218.19 1367.93 866.228 741.276 4302.11 1318.78 1530.66 2552.75 1510.18 2400.49 852.376 1352.64 1593.98 2367.25 829.54 1545.39 1155.27 803.879 +MAP7D2 208.934 351.899 147.534 169.636 0.5589 1.6045 3.7298 487.192 5.814 0 209.924 103.762 63.3484 350.613 3.2245 241.443 325.301 22.1205 4.6981 187.5 +MAP7D3 40.8261 169.507 259.517 90.6274 49.7382 68.1909 306.672 155.031 162.262 315.027 148.855 205.704 72.3982 197.702 153.164 186.864 145.471 110.603 89.7346 14.2241 +MAP9 339.577 42.6788 137.461 234.702 259.868 57.7617 26.523 1135.53 551.269 5.7926 345.42 1285.19 70.1357 507.385 123.069 555.042 270.861 336.384 981.912 80.6034 +MAPK10 537.464 10.871 12.4426 1216.89 54.768 104.292 290.924 1063.46 262.685 9.8028 858.143 234.223 31.1086 171.445 5.9116 719.704 466.31 819.222 316.655 148.276 +MAPK11 92.219 68.0445 75.2481 1298.99 107.3 99.4785 427.269 84.6551 57.611 455.832 78.2443 83.7379 211.538 105.416 77.9256 94.3571 128.068 70.1754 59.6664 123.707 +MAPK12 162.44 40.4201 49.96 834.043 80.1736 36.5784 240.754 285.274 20.8087 445.28 40.8206 139.515 160.073 116.448 56.4611 48.1684 367.372 38.6117 48.8983 165.647 +MAPK13 802.594 2496.31 23.1077 189.775 1152.36 574.408 292.167 481.072 83.5095 537.819 3045.8 36.4078 92.7602 1743.41 24.7212 650.324 571.62 630.053 2167.25 67.6724 +MAPK14 778.578 2823.65 1061.77 806.352 1526.8 1679.5 1244.92 1457.5 1728.33 1648.66 1891.22 825.85 1996.61 1404 1143.09 1013.88 1318.61 842.868 1244.07 2821.55 +MAPK15 0 0 0.5925 216.886 8.9417 1.2034 0 0 7.3996 70.8477 2.5445 0.6068 0 5.7921 0 0 2.2311 1.5256 0 0.8621 +MAPK1 3134.49 4155.95 1929.79 1508.91 1581.01 1468.51 2222.13 1800.54 1915.43 2321.04 878.499 1796.12 1414.03 1927.21 1576.78 1120.26 3264.17 1244.85 3600.19 4042.67 +MAPK1IP1L 2274.26 1657.23 3049.62 2582.49 1278.11 1973.53 1843.76 2321.72 2838.27 3119.97 2134.22 1334.95 2546.38 1623.71 1811.64 2202.59 3063.81 1508.77 3439.51 3116.81 +MAPK3 946.681 1699.38 2347.24 1299.16 2543.42 947.136 1584.28 1787.88 1511.37 569.553 968.804 1587.12 1577.88 1087.41 1119.73 2653.55 1183.92 1032.92 850.416 1311.56 +MAPK4 399.616 1536.44 3970.97 2927.96 901.436 6103.09 2.901 2654.23 3188.69 6.2382 1537.53 385.315 4169.68 1349.94 2135.16 642.923 870.147 2543.86 2703.78 546.552 +MAPK6 633.525 930.479 493.557 398.916 460.498 969.916 1083.3 453.194 2235.73 1057.81 975.191 533.981 551.471 484.217 796.453 701.203 433.289 812.357 1885.84 1211.21 +MAPK7 968.3 621.053 992.12 972.091000000001 765.835 661.761 938.247 618.699 698.05 433.998 625.897 905.467 571.833 714.274 412.119 1298.8 659.924 768.856 333.568 780.948 +MAPK8 85.4947 440.88 113.168 109.992 91.6525 220.618 75.0104 194.129 182.875 136.794 152.036 194.782 24.8869 135.921 117.695 92.5069 74.5203 86.9565 169.603 224.569 +MAPK8IP1 1028.82 307.207 2198.19 1194.42 3553.21 3338.55 568.587 905.707 2958.77 184.026 481.552 614.078 2350.11 3592.24 3722.69 217.391 1734.94 992.371999999999 1799.86 1185.34 +MAPK8IP2 227.185 746.879 682.566 248.644 570.593 25.2708 42.6855 191.749 41.7548 405.926 19.7201 290.048 7.9186 584.226 166.6 18.5014 305.667 119.756 68.1231 375.431 +MAPK8IP3 3930.36 777.077 3853.65 10326.1 1023.83 1041.72 847.493 3772.76 3519.56 546.731 4077.61 2884.1 569.57 3587.61 1697.7 2849.21 2200.8 3712.43 621.095 743.534 +MAPK9 889.529 1750.23 1466.45 1483.35 751.103 806.659 684.625 1027.76 1043.34 997.215 2319.97 1792.48 656.109 1666.57 1968.02 1235.89 1186.97 1498.86 2013.62 1163.36 +MAPKAP1 1611.91 1805.8 2031.7 1831.91 1864.35 1978.34 2121.01 2068.1 2263.74 1629.94 1376.59 3466.63 2372.17 2903.76 2149.67 2784.46 4737.62 988.558 1978.39 2487.07 +MAPKAPK2 2214.22 3678.83 2807.29 1958.17 2143.22 1626.96 4922.09 2317.65 2571.35 3746.91 2266.54 1916.87 2825.79 2187.86 2232.97 2156.34 1470.33 4437.07 2191.21 1694.83 +MAPKAPK3 591.739 1658.43 1542.29 1191.32 1282.58 1539.11 827.186000000001 729.938 2152.75 349.783 2223.92 2975.73 401.018 1254.18 1015.18 3037 719.322 1983.98 3295.28 490.517 +MAPKAPK5 402.714 1028.64 583.054 528.273 969.879 641.26 670.564 649.332 846.57 463.406 695.948 956.189 458.71 808.943 992.938 651.249 869.634 756.011 1211.54 519.659 +MAPKBP1 699.328 369.615 620.352 625.871 165.98 750.903 319.105 421.575 543.869 279.381 808.524 328.884 583.145 422.821 477.227 245.143 447.122 1199.85 637.068 284.483 +MAPKSP1 1791.07 1117.3 1090.21 2442.29 644.362 653.831 755.077 2364.22 1776.43 483.458 1372.14 2082.52 502.262 2163.92 1312.37 1895.47 1155.73 2558.35 2148.93 586.638 +MAPRE1 3000.48 4213.53 2473.71 1841.21 3547.62 2570 2903.03 3531.03 4024.31 3168.1 5678.75 2098.91 4613.12 2818.8 5296.79 3283.07 3933.07 3304.35 3382.19 8568.97 +MAPRE2 1593.18 2940.81 1736.63 737.413 1375.91 2281.19 1289.27 3835.66 1797.04 311.463 1788.8 1177.18 1346.72 2243.85 990.461 2567.99 1590.81 2002.29 1594.08 9900.43 +MAPRE3 664.265 401.423 645.83 1108.44 1876.64 653.831 712.391 823.771999999999 897.463 252.646 1712.47 1075.85 358.597 919.78 630.928 1085.11 610.888 983.218999999999 1434.81 452.586 +MAPT 94.1402 153.402 888.757 362.51 1959.91 297.633 45.172 117.973 165.962 12.0307 367.048 210.558 285.068 108.891 119.307 470.86 66.4882 18.3066 102.419 41.8103 +MARCH10 3.3622 8.5358 3.555 13.1681 4.2976 0.7541 0 0 14.7992 1.6086 0 0 0 7.1049 0.5374 0 2.6774 1.5256 4.5102 1.2931 +MARCH11 1.9212 3.221 2.37 66.615 0 1.2034 0.4144 7.1396 1.0571 0 5.7252 0 15.8371 3.4752 6.9864 1.8501 43.2842 9.9161 3.7585 0.431 +MARCH1 21.1335 17.3131 30.2177 3.873 19.56 4.4124 108.579 8.8395 13.7421 62.3816 14.631 62.5 6.2217 13.901 24.1838 20.3515 24.9888 67.8871 14.5642 3.0172 +MARCH2 423.631 322.104 1062.36 488.768 638.773 582.03 850.394 350.52 650.106 425.532 488.55 587.985 359.728 596.583 632.541 800.185 460.955 748.284 418.605 697.845 +MARCH3 288.665 86.9682 187.232 176.607 186.099 364.22 185.247 234.246 470.402 30.2997 414.758 115.898 423.077 291.148 898.562 161.887 197.68 233.41 313.366 148.707 +MARCH4 126.801 4.8316 0.5925 13.1681 0.5589 12.0337 2.901 25.8385 5.814 11.5852 57.888 0.6068 17.5339 9.6534 2.1497 0 10.2633 11.4416 7.9868 18.1034 +MARCH5 892.891 1651.99 1137.02 1122.39 1084.74 1971.52 776.212 1601.31 952.959999999999 781.553 1489.19 1803.4 946.266999999999 1251.09 1133.41 1246.99 845.605 1090.01 1173.13 1804.74 +MARCH6 855.908 2541.81 2807.88 5709.53 1194.28 4912.15 1238.29 3955.33 2093.02 1727.97 4765.9 1751.21 1503.39 2632.3 2364.64 1481.04 1860.33 779.558 2619.69 2331.47 +MARCH7 1085.01 1498.19 808.769 676.22 1464.76 1074.61 1064.24 947.865 727.273 1381.31 807.888 740.898 996.606 763.78 756.147 864.94 705.489 669.718 918.957 1359.91 +MARCH8 34.5821 777.882 157.606 80.5577 93.3291 142.399 26.523 253.965 99.3658 35.6467 66.1578 200.243 9.0498 132.445 61.803 60.1295 44.1767 88.4821 151.75 138.362 +MARCH9 982.229 674.406 594.282 1333.08 325.255 476.534 843.348 783.994 498.414 68.1742 634.86 684.466 1050.9 368.375 368.668 980.573 793.396 434.02 109.937 1617.24 +MARCKS 1464.46 698.564 2441.71 1505.81 3031.8 267.549 12960.2 1132.13 2499.47 2593.74 1711.83 1213.59 2993.78 459.504 2627.97 2177.61 1970.55 1599.54 1296.69 915.948 +MARCKSL1 838.136 1683.8 3975.11 3572.42 2964.18 2065.78 1368.42 3887.67 1072.41 2524.23 6571.25 489.685 9054.3 5549.18 405.213 1876.97 3719.77 2353.17 1127.08 802.155 +MARCO 19.6926 7.2473 4.74 2.3238 1151.24 0.4011 340.24 1.3599 9.5137 36.5378 0 76.4563 1.1312 0.7723 2.6871 0.9251 2.6774 9.1533 0 1.7241 +MARK1 81.6523 14.0921 315.213 436.871 12.2948 13.6382 364.277 224.727 45.4545 78.8682 134.86 85.5583 137.443 130.901 29.558 111.933 440.875 12.2044 226.92 173.707 +MARK2 652.257 1253.39 639.313 400.465 569.475 829.523 836.718 704.439 760.042 959.786000000001 472.01 509.709 911.199 588.86 378.342 433.858 672.914 639.97 840.028 825.862 +MARK3 2026.42 1350.02 1946.97 3990.7 1118.83 1079.82 1628.26 1093.72 2107.29 1779.21 1358.14 879.248 1707.58 1122.5 1906.22 1125.81 1966.53 1123.57 3777.78 1155.17 +MARK4 366.474 1065.36 1868.17 3101.47 766.751 1053.35 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87.0286 93.8345 150.634 21.388 80.7888 4.2476 1326.92 84.9503 990.998 8.3256 1028.11 60.2593 8.9265 1016.38 +MMP19 268.492 223.863 235.817 702.556 312.401 157.24 1378.37 227.447 512.685 307.452 347.964 130.461 276.018 388.841 392.315 269.195 500.669 437.834 157.858 107.759 +MMP20 0 0 0.5925 2.3238 0 0 0 0 1.0571 0 0 0 0 0 0 0 1.7849 0 0 0 +MMP21 0.9606 0 2.37 8.5205 0 0 0 0.34 0.5285 0.4456 1.9084 2.4272 0.5656 1.1584 0 0.9251 0 3.0511 0 0.8621 +MMP23A 0 0 0 0 0 0 3.3154 0 0 0 0 0 0 0 4.8368 0 0 6.865 0 0 +MMP23B 11.5274 23.3526 27.2552 31.7583 17.8834 5.2146 9.9461 6.4596 35.4123 41.4392 42.6209 13.9563 19.7964 17.3762 23.109 33.3025 41.9456 35.0877 2.3491 13.3621 +MMP24 859.27 163.871 539.772 505.81 603.006 216.205 399.917 298.503 652.748 197.393 1119.59 836.772 1144.23 735.978 468.091 2319.15 338.242 662.09 189.805 371.983 +MMP2 208.934 1473.22 309.88 838.885 86.6228 225.832 25644.4 806.093 131.078 327.504 381.043 669.296 175.339 206.197 314.389 1580.94 522.088 395.881 38.055 242.672 +MMP25 14.4092 11.5434 30.7391 60.426 3.3252 7.8861 71.3054 15.3331 25.0846 34.5594 17.2646 30.7828 5.6561 17.6928 6.8037 26.309 11.0397 31.4874 12.0272 2.931 +MMP26 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +MMP27 0 0 1.185 0 0 0 0 0 0 0 0 0 0.5656 0 0 0 0 0 0 0 +MMP28 246.878 29.7946 43.8454 128.583 16.7657 132.371 1371.74 73.4357 10.5708 685.307 235.369 57.0388 28.2805 40.1583 16.1225 322.849 80.3213 28.9855 5.6378 12.931 +MMP3 0 0.8053 170.049 0 0 0 50.5595 0 2.6427 0 0 0 0 0 1.6123 2.7752 0 0 0 0 +MMP7 0 2.8184 1.185 1.5492 0 0 118.11 0 4.2283 3.5647 0 0 0 0 0 0 1.3387 0.7628 0.4698 10.7759 +MMP8 0 0 0 0 0 0 12.0182 0 1.0571 0.4456 0 0.6068 0 1.5446 0 0 0.8925 0 0.4698 0.431 +MMP9 20.6532 219.434 43.8454 597.986 19.56 12.8359 934.107 32.9781 105.18 1192.38 39.4402 46.1165 75.7919 92.2869 26.3335 33.3025 114.235 114.416 40.404 46.9828 +MMRN1 215.178 152.194 476.374 28.66 340.903 151.625 24.8653 280.824 87.2093 0.4456 31.8066 19.4175 630.656 376.484 593.847 37.9278 65.1495 194.508 218.934 56.4655 +MMRN2 586.936 1522.35 513.109 343.145 3689.57 725.231 680.481 1130.43 591.966 149.716 1406.49 1173.54 679.299 706.246 597.071 1682.7 420.348 1503.43 1990.6 306.897 +MMS19 1433.72 2459.27 830.692 841.983 1135.6 1389.89 1377.54 1370.8 838.795 1427.2 1164.12 1394.42 1238.12 993.918 985.087000000001 733.58 896.475 1205.95 886.54 1547.41 +MN1 7.6849 22.5473 466.894 128.583 292.841 10.4292 74.1815 22.4387 475.687 42.776 111.323 33.9806 11.3122 15.4455 64.4901 100.833 20.9728 54.1571 312.896 28.8793 +MNAT1 267.531 183.197 295.067 292.796 221.307 193.341 265.644 234.586 236.786 446.029 363.232 236.65 275.452 176.465 230.015 271.97 315.038 220.442 409.678 144.828 +MND1 23.0548 36.2367 40.2903 387.297 22.9131 295.227 60.92 37.3978 368.922 130.11 280.534 50.3641 202.489 49.8118 135.429 52.729 142.793 180.015 242.424 150.431 +MNDA 46.5898 578.58 10.6651 7.7459 58.68 8.4236 327.808 23.7986 43.3404 188.927 31.1705 185.68 78.6199 18.5346 23.109 64.7549 12.9407 218.917 21.6115 5.6034 +MNS1 12.9683 41.0683 15.9976 41.0534 16.2068 167.268 94.9026 20.3988 44.926 176.005 83.3333 38.835 50.3394 13.1287 101.034 44.4033 59.7947 46.5294 36.6455 122.845 +MNT 1186.36 763.79 785.069 640.589 411.318 575.612 753.419 775.155 765.856 311.017 411.578 586.772 371.041 702.77 573.425 481.961 498.884 443.936 412.497 423.276 +MNX1 11.5274 0.4026 13.6276 99.9225 0 14.8416 1.2433 10.5394 14.7992 0.4456 13.9949 0 9.6154 1.1584 5.3742 4.6253 1.3387 6.1022 3.7585 5.1724 +MOAP1 732.469 911.555000000001 2044.14 687.839 1493.27 582.832 260.671 1047.48 1104.12 491.924 545.165 922.33 824.095 1309.01 1328.5 419.056 1467.2 448.513 2201.08 598.276 +MOB2 1068.68 407.865 427.196 560.031 633.744 388.287 1049.73 729.938 552.326 780.662 713.104 466.626 1059.39 642.919 348.247 609.621 582.329 524.79 452.901 489.655 +MOBKL1A 840.058 454.57 400.533 756.003 471.675 583.634 348.943 1406.16 640.592 417.957 602.417 729.369 529.412 1271.55 950.154 1361.7 1316.38 845.919 910.5 1056.47 +MOBKL1B 343.9 694.537 323.508 292.796 460.498 890.893999999999 369.664 418.516 545.455 1144.7 409.033 344.053 435.52 279.564 440.683 363.552 410.977 395.118 748.414 722.414 +MOBKL2A 753.122 781.103 1433.27 1324.55 1104.3 2675.89 1493.58 2077.28 930.233 1050.69 1203.56 840.413 924.208000000001 1163.82 1039.37 1704.9 977.688 1361.56 567.066 1393.97 +MOBKL2B 73.487 164.273 508.962 157.242 113.448 443.241 58.4335 13.2592 670.719 726.746 293.893 225.728 334.842 968.047 862.554999999999 205.365 25.8813 210.526 254.17 371.121 +MOBKL2C 268.492 199.705 190.739 273.37 249.25 281.187 647.327 216.227 255.285 880.472 311.069 398.058 352.941 205.811 165.525 256.244 212.405 482.075 287.996 99.569 +MOBKL3 4254.08 1490.94 3213.75 810.225 2551.74 7633.77 831.33 1951.83 3158.03 851.509 1541.98 702.67 17266.4 2025.29 4353.62 787.234 1537.26 995.423000000001 3404.75 7134.48 +MOBP 0 1.2079 1.185 5.4222 0 1.2034 0.4144 0 2.1142 4.9014 1.2723 1.2136 0 1.1584 2.1497 0 0 0 0 0.431 +MOCOS 111.912 1017.45 782.699 402.788 826.549 1254.31 48.4874 454.214 515.328 140.804 167.303 416.262 939.479999999999 281.88 1215.64 257.169 570.727 67.1243 1044.4 606.897 +MOCS1 1051.68 630.857 751.533 378.59 2637.41 833.129 521.79 841.036 1177.64 135.618 759.943 923.447 1120.19 1234.34 350.289 1503.76 650.785 484.157 2726.94 532.884 +MOCS2 2327.09 620.453 2455.34 2584.04 1998.47 1484.56 821.384 1894.37 1386.36 1387.99 3652.67 3228.76 1665.72 3038.52 2055.62 2798.33 2050.42 4702.52 3960.54 1479.31 +MOCS3 113.833 233.123 196.119 109.218 399.024 138.789 256.942 295.103 229.387 201.404 353.69 375 409.502 405.831 246.137 370.028 424.364 316.552 346.723 181.465 +MOG 0 0 0.5925 0 0 0 0.4144 0.34 0 0 0 0 0 0.3861 0 0 0 0 0.4698 0 +MOGAT1 0 0 0 0 0 0 0 0 0 0.8912 0 0 0 0 0 0 0 0 0 0 +MOGAT2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +MOGAT3 0 0.8053 0 0 0 0 0.4144 0 1.0571 0 0 0 0 0 0 0 0 0 0 0.8621 +MOGS 1431.32 1205.48 1527.48 1261.04 1202.66 1568.79 1699.54 1026.74 1752.11 2105.38 947.201 979.369 1592.76 1011.29 1267.77 977.798 950.021999999999 1184.59 704.722 1558.19 +MON1A 289.625 423.567 296.252 141.751 298.43 480.144 298.798 209.768 197.674 197.393 228.371 310.68 503.959 193.455 278.92 287.697 153.949 212.052 336.857 277.155 +MON1B 448.607 603.136 686.121 533.695 281.105 503.811 589.308 563.007 780.655 242.397 438.931 799.757 695.136 665.701 540.105 860.314 468.095 446.987 429.88 465.086 +MON2 698.847 1910.48 1390.02 2730.44 881.317 1002.01 849.565000000001 1355.16 1238.37 406.372 1342.24 1113.47 438.914 1161.89 1409.65 907.493 1046.41 1213.58 1110.64 3061.64 +MORC1 1.9212 1.6105 0 0 0 0 0 0.34 0 0 0.6361 0 0 0.3861 0.5374 0 0 0 1.4094 0 +MORC2 437.56 469.064 594.282 1329.2 521.413 256.719 874.016 455.913 713.531 1031.08 465.649 545.51 405.543 588.088 859.868 403.33 950.915 1092.3 399.342 755.172 +MORC3 503.842 810.092 444.379 439.194 349.285 440.032 249.896 550.428 269.556 573.02 459.924 413.228 168.552 308.138 475.077 687.327 334.226 800.915 372.563 285.345 +MORC4 803.074 2042.14 6659.75 1200.62 258.192 835.138 442.603 660.922 1860.99 554.751 2390.59 2286.41 507.353 4987.74 1162.43 1977.8 3453.37 1176.96 1262.86 1009.05 +MORF4 1.9212 6.4421 1.185 1.5492 3.912 0.8022 4.1442 5.0997 1.5856 1.3367 1.9084 2.4272 2.2624 2.703 2.1497 2.7752 0.8925 0.7628 4.6981 3.4483 +MORF4L1 5319.88 5865.12 2515.18 2371.8 6055.77 3140.79 6060.09 4338.83 6145.35 4061.49 5319.97 3587.99 6393.1 3358.63 5313.45 3320.07 3083.89 4460.72 6713.65 5003.88 +MORF4L2 9871.76 4548.11 15089.3 20433 5851.23 5537.51 4443.02 7585.64 22847.2 6147.71 14999.4 5990.29 3126.13 12857.2 12829.2 10219.2 11500.7 10326.5 9735.96 4988.79 +MORN1 15.3698 14.4947 30.2177 15.4919 43.5908 26.8753 46.8297 7.1396 39.6406 121.199 15.9033 41.8689 15.2715 29.3465 73.0888 24.9769 54.44 3.8139 13.6246 11.2069 +MORN2 440.922 257.683 456.821 303.641 402.377 390.694 331.538 398.117 399.049 507.965 374.682 247.573 471.719 494.256 444.982 437.558 469.88 347.826 185.107 605.172 +MORN3 1.4409 0.8053 0.5925 0 3.3531 6.8191 0.8288 1.3599 1.0571 5.7926 0 1.8204 1.1312 0.3861 2.1497 0.9251 4.0161 0.7628 0 0.8621 +MORN4 155.139 454.167 284.995 310.612 226.337 352.587 94.9026 299.523 250 163.529 288.168 521.845 143.1 324.356 193.47 350.601 201.249 304.348 170.543 187.931 +MORN5 1.4409 0.8053 4.74 5.4222 1.1177 8.0225 1.2433 9.5194 1.5856 0 0 10.3155 9.0498 13.901 26.3335 56.4292 52.6551 8.3905 1.4094 0 +MOS 0 0 0 0 0 0 0 0 0 0 0 0 0 0.3861 0 0 0 0 0 0 +MOSC1 146.013 111.126 29.6252 144.849 103.388 152.026 28.1807 158.091 33.8266 96.6915 67.43 46.1165 449.095 108.505 25.2586 101.758 155.734 96.1098 139.065 265.517 +MOSC2 242.075 200.913 290.327 387.297 338.108 419.575 95.317 252.945 591.966 130.556 521.629 566.141 424.774 316.633 180.572 263.645 390.451 362.319 710.829 538.793 +MOSPD1 275.696 458.596 920.16 353.215 637.097 629.763 197.679 232.207 773.784 298.986 534.351 712.379 276.018 971.909000000001 410.587 793.71 323.516 323.417 1014.8 431.466 +MOSPD2 66.2824 323.312 299.807 45.701 74.8868 109.507 194.778 155.031 217.759 152.389 76.972 167.476 24.8869 228.207 211.205 148.936 149.487 125.858 347.193 265.948 +MOSPD3 652.257 282.647 1761.52 510.457 779.605 1309.67 630.75 656.842 787.526 416.62 262.723 408.981 357.466 958.007999999999 740.024 455.134 1011.6 496.567 726.333 621.121 +MOV10 3191.16 1236.48 756.629 1044.93 1913.53 1728.84 2303.36 1300.42 832.981 1391.11 1594.15 674.757 2543.55 631.335 753.997 1242.37 853.637 1604.12 958.891 1350.86 +MOV10L1 0.9606 7.65 0 237.8 40.7965 15.6438 7.874 58.4766 69.7674 0.8912 0.6361 1.2136 0 0.7723 2.1497 3.7003 316.377 2.2883 0 0 +MOXD1 557.637 1596.83 506.592 33.3075 37.4434 108.303 2937.84 6.1196 44.926 12.0307 163.486 145.631 1004.52 652.959 12.3606 6790.93 3376.17 102.212 18.3228 850.431 +MPDU1 2162.35 858.005 1231.22 1580.94 1878.32 1449.26 3093.28 1368.76 1338.27 1490.03 1403.33 1987.26 2378.39 1069.22 2172.26 2002.78 1479.72 1161.71 1255.81 1587.94 +MPDZ 500.48 456.18 243.519 609.605 321.343 269.555 441.359 359.019 76.1099 404.589 373.41 1314.32 113.688 569.553 462.717 501.388 267.738 318.841 339.676 340.517 +MPEG1 159.942 301.973 49.1779 113.865 1070.77 45.728 1666.8 86.355 116.808 1054.7 466.921 546.116 187.217 32.0494 67.1772 381.129 88.7996 722.349 474.982 11.6379 +MPG 1447.17 1395.92 2562.58 2475.6 953.968000000001 712.395 1435.14 2601.53 1540.7 1252.09 1403.94 1879.85 1919.12 2874.79 3014.91 2144.31 3639.45 2829.14 1121.45 613.362 +MPHOSPH10 844.38 447.322 790.401 705.654 762.28 830.726 759.221 703.759 744.715 1149.6 851.145 485.437 623.303 825.948 1039.9 815.911 652.387 1064.84 768.616 735.345 +MPHOSPH6 223.343 188.431 764.924 1225.41 141.95 292.018 284.708 287.963 547.569 399.688 599.873 412.621 348.982 438.266 799.14 793.71 459.17 624.714 309.608 372.845 +MPHOSPH8 488.473 1122.53 683.158 248.644 808.666 301.645 324.078 752.716 539.112 335.524 541.349 640.17 242.081 713.968 843.746000000001 237.743 552.432 565.98 1117.69 618.534 +MPHOSPH9 94.1402 631.324 166.494 179.706 89.9759 450.461 104.849 268.244 252.643 312.354 190.204 236.044 178.167 181.871 284.831 104.533 202.588 125.858 208.128 219.397 +MPI 1329.01 578.982 1472.97 680.867 974.087 334.938 943.224 561.647 1881.08 1030.63 1793.89 658.374 1277.71 787.721 632.541 877.891 910.754 1750.57 2936.81 471.983 +MPL 8.1652 10.0658 4.1475 3.0984 10.6183 9.2258 0 1.6999 8.4567 2.2279 4.4529 7.2816 4.5249 8.1089 1.0748 0.9251 5.3548 1.5256 1.4094 3.8793 +MPND 614.793 361.159 563.472 635.941 395.112 1188.13 396.602 914.887 505.814 201.404 668.575 606.189 417.421 681.147 413.812 350.601 649.264 1089.24 377.731 1837.07 +MPO 0 28.9894 0 0 0 0.4011 2.901 0 0 0 0.6361 0.6068 0 0 0 1.8501 0 0.7628 0 1.2931 +MPP1 1020.65 353.912 813.509 454.686 896.406 658.243 1051.8 292.043 788.055 748.58 2232.19 1701.46 655.543 1050.29 711.004 978.723 1030.79 2049.58 2351.42 535.776 +MPP2 97.0221 42.6788 9.4801 77.4593 4.4709 27.2764 246.581 26.5185 11.0994 51.2421 10.8142 41.2621 94.457 3.4752 13.9729 1.8501 126.729 3.8139 29.1285 212.5 +MPP3 29.2988 12.0789 174.789 75.1356 15.0891 285.199 105.678 21.0788 23.2558 91.7901 7.6336 26.0922 332.579 22.396 202.607 12.0259 79.4288 4.5767 20.6718 386.638 +MPP4 2.8818 2.0132 2.9625 11.6189 3.3531 4.8135 2.901 0.68 1.5856 0 3.1807 1.8204 1.1312 3.0891 0.5374 3.7003 3.5698 2.2883 0.4698 3.0172 +MPP5 580.692 546.369 434.306 310.612 392.317 440.834 221.301 434.155 383.192 503.955 326.336 533.981 613.688 371.078 644.364 566.143 586.345 293.669 1208.83 469.828 +MPP6 9.6061 20.1315 27.8477 35.6313 231.925 140.794 43.9287 3.3998 198.732 143.032 36.8957 82.5243 70.1357 35.5247 62.8779 103.608 30.3436 44.241 309.608 22.4138 +MPP7 149.856 134.881 36.1428 44.1518 566.122 205.375 20.3067 45.5574 69.2389 14.7042 262.087 2336.77 0.5656 194.613 26.8709 265.495 87.0147 385.202 272.962 32.3276 +MPPE1 483.67 997.316 375.648 294.346 604.683 610.108 766.266 584.766 426.533 282.945 243.639 777.306 423.077 513.177 747.548 472.711 351.629 450.801 489.077 487.931 +MPPED1 0 0.8053 0.5925 39.5043 0.5589 0 0 0 0.5285 0.4456 0 0 0.5656 0.3861 0 0 0 0 0 0 +MPPED2 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0 0 0 0 0 0 0 0 0 0 0.4462 0 0 0 +PCNP 2449.57 4529.99 1526.29 1185.9 1515.62 1182.91 2632.82 1689.36 1705.6 2354.02 1782.44 3052.18 1379.52 1677 1977.16 1984.27 1857.21 1494.28 1968.52 2883.19 +PCNT 1205.57 696.551 2941.19 539.117 640.45 2587.65 632.408 861.17 589.852 961.123000000001 861.323 430.825 1395.93 924.027 4075.24 617.021 1432.4 938.978000000001 942.917999999999 469.828 +PCNX 2615.75 3629.31 4150.5 3064.29 1460.29 1907.74 1019.89 2051.44 2570.3 1829.56 2276.08 1366.5 2316.74 1438.75 2985.89 1757.63 2279.79 1156.37 5045.34 1903.88 +PCNXL2 106.148 176.755 97.1708 161.115 40.2377 40.9146 490.675 105.054 21.6702 147.488 152.036 108.01 24.8869 147.891 36.007 235.893 55.3324 158.657 32.4172 108.19 +PCNXL3 1589.82 2088.44 1629.39 1319.91 2205.25 2791.42 1749.69 1072.98 1801.8 1341.65 821.883 737.864 2011.88 1186.6 1025.39 653.099 1622.49 839.817 1970.87 1512.5 +PCOLCE2 91.2584 1.2079 24.8852 666.15 288.37 131.167 234.148 25.8385 73.4672 87.3343 874.682 1646.84 209.276 1073.46 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25.8712 34.3947 10.1758 0.4462 3.0511 10.8057 2.1552 +PCTP 360.231 410.683 428.381 284.276 799.724 265.543 552.839 328.421 484.144 286.51 311.705 612.864 270.928 315.474 224.103 413.506 369.032 295.957 732.91 409.914 +PCYOX1 1686.84 2941.62 2283.51 955.074 3207.84 4604.09 2259.01 2228.23 1744.71 2075.08 1954.83 2616.5 2940.61 1844.19 1697.7 4231.27 1734.94 2057.97 1895.7 4762.5 +PCYOX1L 521.134 623.674 1551.18 872.967 755.574 1888.49 186.904 785.014 1217.23 291.411 1120.23 668.082 1063.91 627.088 784.63 1240.52 1285.59 894.737 872.445 834.052 +PCYT1A 85.975 580.19 284.402 191.325 165.98 391.897 230.833 370.238 198.203 300.769 509.542 498.18 344.457 398.494 235.926 338.575 299.866 272.311 485.788 404.741 +PCYT1B 0 7.65 19.5527 24.787 415.789 2.4067 26.1086 8.1595 33.8266 0.4456 10.1781 476.335 0.5656 439.811 3.7619 507.863 284.248 213.577 214.235 0 +PCYT2 1801.63 434.438 930.825 371.03 2313.67 2331.73 305.429 625.564 1267.44 864.877 486.005 1299.76 4570.7 272.227 524.52 390.379 363.231 760.488 1256.75 4040.09 +PDAP1 3457.25 3298.35 2765.81 2941.13 2555.65 2044.93 4380.02 2203.41 3662.26 3123.98 2222.01 2862.26 1903.28 2981.37 3367.46 2570.77 3079.88 2485.89 3489.78 1689.66 +PDC 0 0.8053 4.1475 0 0 0 2.901 0.34 0 0 0 0 0 0 0 0 0 2.2883 0 0 +PDCD10 425.072 807.677 297.437 89.8528 421.937 527.076 412.764 372.958 384.778 1145.15 416.031 770.024 469.457 310.068 390.703 390.379 327.086 259.344 667.606 583.621 +PDCD11 483.67 1797.34 964.598 622.773 947.821 1728.04 1187.32 984.922999999999 657.505 1109.95 713.74 847.087 850.679 665.701 851.807 421.832 550.647 894.737 801.503 902.155 +PDCD1 4.3228 18.1184 2.37 6.9713 3.3531 0.8022 92.4161 2.3799 6.3425 88.2255 2.5445 18.8107 9.0498 1.1584 2.1497 30.5273 25.4351 388.253 2.8189 0 +PDCD1LG2 1.9212 10.871 2.9625 5.4222 26.2663 0.4011 215.499 1.3599 8.4567 156.4 12.7226 7.8883 3.9593 5.4059 6.449 25.9019 10.2633 52.6316 10.8057 0.8621 +PDCD2 731.028 454.972 436.676 317.583 894.73 478.54 679.652 336.58 667.548 588.17 803.435 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17.7348 712.933 192.325 758.658 43.6927 237.931 +PDE6A 15.8501 8.4552 797.511 17.8156 154.803 312.074 1.2433 0.68 516.913 5.7926 103.69 3.034 304.864 96.1483 499.798 1.8501 12.4944 45.0038 1481.79 37.5 +PDE6B 8.1652 53.1472 2.9625 52.6723 38.5611 2.8079 55.947 115.277 3.6998 11.5852 5.7252 9.7087 3.9593 1.5446 5.3742 3.7003 16.9567 16.0183 2.3491 0.8621 +PDE6C 0 0 0 0 0 4.4124 0 0 0 0 0 0 0 1.1584 0 0 0 0.7628 0 0 +PDE6D 941.403 306.804 639.905 885.36 501.295 2192.54 566.515 1139.61 669.133 467.417 1015.27 295.51 1647.06 666.86 683.595 661.425 705.935 663.616 573.174 1042.24 +PDE6G 30.2594 14.4947 39.1053 10.8443 21.2366 25.2708 30.2528 26.5185 10.5708 16.041 54.0712 160.194 117.081 52.9009 61.2656 172.063 18.7416 28.9855 17.8529 69.3966 +PDE6H 0 0 9.4801 0.7746 33.5314 0 0 0.68 8.4567 0 5.7252 2.4272 11.8778 7.7228 19.8845 0.9251 1.3387 0 11.7454 0 +PDE7A 44.1883 53.5498 148.126 324.555 630.39 57.7617 258.599 108.114 165.962 801.603999999999 216.921 172.694 155.543 117 134.892 265.495 254.797 395.881 145.173 146.121 +PDE7B 207.973 131.66 412.976 753.679 78.2399 598.075 670.535 520.17 672.304 36.9834 914.757999999999 72.8155 841.629 327.059 215.505 192.414 503.793 138.825 884.191 790.517 +PDE8A 1363.59 437.257 1327.8 1601.86 634.302 1304.85 797.762 1015.52 1815.01 1268.58 1869.59 297.33 888.575 983.493000000001 2519.41 354.302 610.888 2104.5 1455.49 694.397 +PDE8B 27.8578 253.255 53.9179 281.952 2419.85 1292.42 21.5499 121.713 155.391 33.4187 343.512 455.097 126.697 549.088 190.783 141.536 110.219 110.603 863.518999999999 1057.33 +PDE9A 345.821 506.106 469.264 1294.35 353.197 585.64 158.724 402.877 426.004 42.3304 730.28 168.689 635.747 216.623 942.631 72.1554 550.647 199.085 408.738 146.121 +PDF 198.775 250.496 169.913 112.138 150.316 302.483 232.201 200.041 178.467 213.448 158.671 346.468 604.864 324.402 237.651 453.691 213.78 282.799 123.542 260.022 +PDGFA 413.545 168.702 216.857 659.179 16.7657 328.119 164.525 108.454 242.072 592.18 60.4326 228.762 137.443 235.544 182.185 250.694 92.8157 99.1609 79.8685 23.7069 +PDGFB 288.665 362.367 109.613 318.358 433.673 575.612 595.11 395.397 450.846 148.379 352.417 464.199 320.136 164.881 200.457 501.388 274.431 352.403 423.303 99.569 +PDGFC 890.49 851.966 923.122 224.632 855.61 35.7 893.078999999999 1534.67 564.482 193.829 468.193 1029.73 492.647 1987.45 214.43 888.067 711.736 688.787 652.572 1241.38 +PDGFD 347.743 582.203 958.08 295.895 68.7394 639.791 1997.93 1197.41 69.2389 62.3816 713.74 7491.5 276.584 2867.46 694.881 10950 2592.59 178.49 610.289 2400.43 +PDGFRA 50.5956 480.366 163.466 805.531 12.0154 44.0393 1401.79 29.8571 35.518 23.5713 314.51 288.932 81.8835 367.993 188.134 1211.48 241.08 436.323 57.5335 48.4741 +PDGFRB 1077.33 2344.52 1088.43 1039.5 649.95 1094.26 29643.6 1454.1 1924.42 600.201 1603.69 1347.09 1528.28 1118.64 629.854 3157.26 1197.68 1379.86 757.811 315.948 +PDGFRL 9.6061 4.8316 31.4028 357.862 5.5886 61.3718 1278.49 8.8395 44.3975 172.886 24.173 6.6748 23.7557 16.9901 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4128.96 9008.39 5431.05 5085.78 +PSMB5 2185.4 1583.95 3628.5 2402.01 2504.24 4186.12 2830.09 5590.63 4298.63 3021.05 2430.66 2138.35 7671.38 2034.56 4482.06 2473.64 3117.8 1744.47 4911.91 4251.72 +PSMB6 3632.56 1327.07 1852.76 2089.85 3001.62 2831.93 3094.49 1935.51 2159.09 2227.02 2799.62 3886.53 2846.15 1279.66 2114.74 2908.42 1423.03 1999.24 2677.94 1469.4 +PSMB7 3762.72 1457.76 2943.56 7333.28 3950.73 12563.6 3438.27 3908.01 5617.99 4212.13 4082.03 4953.6 10167.2 6308.77 7123.66 3336.32 8766.59 2850.02 4620 4705.17 +PSMB8 648.895 281.036 1105.02 986.057 2814.4 1663.86 1904.68 389.617 2214.59 3682.3 1773.54 922.33 2572.4 760.304999999999 399.301 1172.99 1432.84 3620.14 4232.56 567.241 +PSMB9 117.195 91.7997 155.236 152.595 755.574 324.108 1541.65 83.6351 396.406 3643.98 287.532 232.403 1626.7 101.168 190.246 303.423 478.804 867.277 664.318 149.569 +PSMC1 708.453 253.255 729.373 467.08 580.093 683.514 958.558 509.97 705.602 965.133 900.127 512.136 1623.87 479.969 980.787 669.75 696.118 480.549 1903.22 425.862 +PSMC2 2118.16 1900.42 2604.06 1831.91 2604.83 3505.01 2660.17 2478.46 2650.63 2479.67 2360.05 2618.93 2321.27 2585.96 2947.74 2012.95 2784.03 3008.39 4751.23 1723.28 +PSMC3 2850.14 1377 2060.73 2901.63 2365.64 3000.8 4341.48 2625.67 2208.77 4828.78 2111.96 1770.02 6985.29 1662.71 1686.42 1941.72 2690.76 2274.6 2119.33 3068.97 +PSMC3IP 145.231 63.3136 44.1831 225.089 17.1569 107.132 311.082 116.647 228.504 561.533 56.7812 74.6541 344.627 33.1769 126.358 88.9639 233.19 56.6667 30.8386 399.129 +PSMC4 5302.59 1091.93 3896.9 3544.54 2186.81 5222.62 1955.66 2552.91 2989.43 3203.3 4484.1 2203.88 4516.97 2568.2 5304.85 2800.18 2198.57 2818.46 1751 2102.16 +PSMC5 4450.03 1402.61 2257.29 2410.46 4085.8 3553.23 3819.73 2076.26 2031.65 5001.56 3479.01 3877.43 6221.15 2321.46 3409.46 3789.08 2204.75 3542.33 3319.24 3159.05 +PSMC6 1015.37 639.78 1933.94 1453.14 1054 1717.21 869.043 1092.02 1270.08 1617.47 1424.3 1010.92 2107.47 985.809 1764.88 1121.18 1423.92 890.16 2911.91 1044.83 +PSMD10 1296.35 1074.22 2020.44 1549.96 673.422 1016.04 847.078 1348.02 2266.91 1203.52 2477.74 1654.13 817.308 2485.95 1573.02 2553.19 2211.96 1720.82 2942.92 1202.59 +PSMD11 812.68 822.976 916.605 941.905 830.461 1872.44 878.989 853.01 1178.65 771.304 982.188 1361.04 1664.59 754.899 853.957 801.11 641.678 470.633 1147.76 2256.47 +PSMD12 754.563 611.998 715.153 832.688 841.079 1297.63 639.453 695.6 858.351 1636.18 959.923999999999 780.34 1250.57 999.324 682.52 904.718 677.376 688.024 1304.2 884.483000000001 +PSMD13 2512.01 1343.98 1875.87 2530.6 2994.35 1872.04 3682.14 1585.33 1855.18 3776.76 2131.68 1643.2 3441.74 1690.12 1434.37 1567.07 1765.73 1641.49 2563.78 1796.98 +PSMD14 1556.68 886.189000000001 1517.4 1431.45 2778.64 2581.63 1333.61 1482.31 1662.26 1671.38 1676.21 1422.33 2475.11 1379.28 1832.06 1345.98 1141.45 1210.53 2730.09 2803.45 +PSMD1 1287.7 1625.42 1887.13 999.999999999999 4047.8 5135.58 2329.47 1461.23 1988.37 2417.29 1680.03 1515.78 3540.16 1644.17 1891.17 1355.23 1512.27 1113.65 2573.17 2953.45 +PSMD2 2697.89 7859.35 3704.34 2476.37 3369.35 9049.34 3946.54 2483.9 3379.49 6260.44 2924.3 6980.58 6304.86 3134.67 3871.56 2925.99 2344.04 2112.13 4855.06 5230.17 +PSMD3 2324.21 1981.34 2317.29 2199.07 2712.13 1434.42 3393.7 2477.44 2626.32 2796.03 2478.37 4728.16 2832.01 2565.11 2545.75 2031.45 2270.86 1741.42 3310.78 4105.6 +PSMD4 4007.2 2724.6 1744.33 2292.02 3378.29 4581.23 4055.95 1964.41 2544.4 9523.89 2762.72 2217.84 5200.23 1796.7 2459.76 2860.31 1811.69 4070.94 2390.89 2905.17 +PSMD5 654.179 812.106000000001 749.519 1143.3 774.575 1006.82 493.991 1129.41 815.539 1097.92 573.155 899.272 726.244 1395.5 963.053000000001 1267.35 1451.58 562.929 526.192 1148.28 +PSMD6 2338.14 1921.75 1628.2 1193.65 2443.88 1671.48 957.729 1400.38 1757.4 827.448 2395.04 2200.85 1694.57 1632.98 1369.34 1804.81 1546.63 1215.87 2322.29 2314.66 +PSMD7 1996.16 1904.44 3015.85 3286.6 2379.61 2440.03 2534.6 2400.94 3322.41 2166.87 2523.54 3729.98 4734.16 3707.69 3095.53 2546.72 3519.86 2393.59 2839.56 2726.72 +PSMD8 2433.24 1910.48 6564.95 3901.63 5641.66 5911.75 3252.38 4211.68 6972.52 3338.75 5989.19 4617.11 5242.08 3940.15 7380.89 4332.1 4081.21 4237.99 2708.48 2930.6 +PSMD9 1227.19 1080.26 1625.83 1118.51 1157.95 1494.99 1990.88 1522.43 1686.58 1636.63 1540.08 1618.93 1575.79 1541.46 2360.88 1474.56 2058.46 1054.16 1659.85 1146.55 +PSME1 5348.22 2935.98 5032.14 4942.68 3397.85 3288.41 3346.04 6456.9 6252.64 9447.25 7801.53 3151.09 10820.7 2332.66 4413.27 4847.36 6668.9 6253.24 6314.31 6421.98 +PSME2 4335.25 2052.61 4151.09 6869.09 1241.22 2999.6 3757.98 13010 4097.78 10869.6 6688.3 1492.72 12444 4585.77 3665.73 5210.92 14441.3 9187.63999999999 4780.83 4900 +PSME3 1197.41 1561.4 1752.63 1139.43 1943.14 1025.67 1857.85 1431.32 1565.01 1948.54 1606.87 2478.76 1874.43 1734.92 1735.32 1512.49 1695.67 1488.18 1876.44 3179.31 +PSME4 1515.85 1290.83 789.216 578.621 2339.37 2298.03 1326.15 766.315 1048.63 1222.23 800.255 637.136 1783.37 952.216000000001 761.521 668.825 1006.25 795.576 1509.98 8647.84 +PSMF1 3546.11 2357.8 2118.2 2012.39 2825.02 2380.26 2174.06 2868.07 1461.94 3431.88 4008.91 2854.37 4369.91 3435.08 3096.06 2860.31 2036.59 3274.6 1803.15 888.793 +PSMG1 1001.44 557.24 757.221 197.521 483.97 655.836 491.09 1014.5 414.905 1541.72 611.959 345.874 985.294 399.652 1141.48 763.182 989.29 634.63 639.887 374.569 +PSMG2 1610.95 549.591 805.214 1477.15 946.143999999999 906.137 1387.48 1206.59 949.260000000001 827.002 834.606000000001 724.515 1162.9 878.463 1112.45 1133.21 1240.96 1228.07 988.958999999999 959.483000000001 +PSMG3 1463.02 369.615 918.383 2160.34 433.673 634.577 1912.56 339.3 1424.95 1605.88 576.972 546.116 1452.49 678.83 973.801 627.197 1383.31 1106.79 956.541999999999 730.603 +PSMG4 353.506 138.907 181.306 419.055 250.927 104.292 195.193 182.569 359.937 517.322 430.662 300.364 351.244 271.841 178.423 207.215 323.07 190.694 230.679 259.914 +PSORS1C1 0 5.6368 16.5901 3.0984 2.7943 9.627 94.9026 6.7996 19.556 4.0102 54.0712 0.6068 2.8281 0.3861 14.5103 2.7752 0.4462 5.3394 0.9396 0 +PSORS1C2 0 0 1.185 0 0 0.8022 6.6308 0.34 0 0.4456 6.9975 0 1.1312 0 0.5374 0 0 0.7628 0.4698 0.431 +PSORS1C3 0 0.4026 0 0 2.2354 0 0 0 0 0.4456 0 0 0 0 2.1497 0 0 0.7628 0.4698 0 +PSPC1 928.914 847.134 1004.89 783.889 619.772 795.427 459.179 1443.9 689.746 742.341 889.313 442.961 812.783 722.85 1319.9 556.892 838.465 742.182 887.479 1285.34 +PSPH 121.037 396.994 541.549 202.169 761.163 1131.97 1607.96 159.791 998.414000000001 466.971 366.412 415.048 555.995 381.118 795.916 251.619 761.713 272.311 1252.06 563.362 +PSPN 1.9212 0.4026 2.37 7.7459 1.1177 3.209 2.0721 0 6.3425 1.7823 1.9084 0.6068 8.4842 1.1584 13.4354 1.8501 3.5698 6.865 1.4094 0 +PSRC1 97.9827 78.1103 102.503 415.957 28.5017 447.653 272.69 67.6561 406.448 499.944 254.453 43.0825 210.973 30.1187 127.905 43.4783 234.27 157.132 70.4722 208.19 +PSTK 85.4947 75.2919 69.9156 178.931 84.9462 229.844 51.3883 212.148 68.7104 73.0756 253.817 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189.171 247.919 301.651 260.87 691.567 211.638 +PTCD1 316.883 654.754 778.771 357.661 402.047 396.197 738.193 636.528 574.059 448.506 418.88 849.169 356.29 742.689 879.871000000001 489.315 520.553 790.03 673.935 212.603 +PTCD2 145.533 159.442 286.18 140.201 375.552 163.257 93.6593 309.722 286.469 148.825 365.14 405.34 236.991 495.415 448.744 298.797 346.72 201.373 473.103 249.138 +PTCD3 2963.02 1255.8 946.23 1053.45 2341.05 1062.17 1152.92 1486.05 817.653 1372.4 985.369 1137.74 1701.92 1132.93 1554.21 847.364 1149.04 1146.45 1472.87 1643.1 +PTCH1 223.823 252.449 133.906 1532.92 51.9737 180.505 426.026 371.258 341.966 135.457 370.865 165.048 169.683 311.227 166.062 128.585 246.765 276.125 134.837 56.0345 +PTCH2 121.037 65.2261 39.1053 576.297 10.6183 67.7898 112.723 20.3988 88.2664 15.1498 72.5191 33.9806 18.6652 27.4158 64.4901 21.2766 59.7947 80.0915 3.7585 20.2586 +PTCHD1 0 0.4026 0 2.3238 0 0 0 2.3799 0.5285 0 0.6361 0 0 0 0 0 2.6774 1.5256 0 0 +PTCHD2 1.4409 242.786 15.9976 28.66 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712.67 1136.79 1600.97 711.378 1360.11 398.169 1014.33 693.966 +RBM19 1033.62 1428.94 1092.58 1633.62 797.489 1079.02 1097.39 1578.53 2010.57 657.235 1432.57 1369.54 584.842 1190.85 1667.61 1080.48 1490.41 2977.12 2703.78 606.466 +RBM20 55.2354 10.0658 4.1475 109.218 25.1486 7.6213 7.0452 31.9581 84.5666 3.5647 13.9949 6.6748 5.0905 18.5346 4.8368 10.1758 45.5154 30.5111 25.37 37.5 +RBM22 700.288 643.001 788.623999999999 825.716 765.075 764.541 1314.13 839.411 760.571 1389.77 1504.45 865.291 964.932 949.126 1249.5 1024.05 865.685 1055.68 957.952 662.931 +RBM23 829.011 1553.75 1456.97 1398.14 984.147 829.924 1609.2 3330.11 2017.44 1142.03 1659.67 950.85 1751.13 1320.98 1624.61 1108.23 1838.02 1170.1 1931.41 1444.83 +RBM24 7.2046 94.6181 8.8876 10.0697 31.296 20.8584 0.8288 5.0997 13.7421 1.3367 2.5445 3.6408 8.4842 23.5544 55.8914 15.7262 19.1879 1.5256 2.8189 131.897 +RBM25 2239.67 1188.56 2066.66 4340.05 705.277 1178.5 794.861 1360.6 1580.34 1913.33 1688.3 941.748 944.005 1134.47 1375.79 1699.35 1703.26 1411.14 1838.85 1188.36 +RBM26 621.038 847.94 470.449 387.297 741.603 223.426 372.565 473.592 514.799 434.444 359.415 475.121 301.471 414.712 532.043 186.864 312.807 536.995 904.863 626.724 +RBM27 536.984 740.437 580.062 707.978 531.473 605.295 370.079 871.368999999999 754.757 777.543 832.697 734.83 375 626.701 872.229 612.396 834.895 613.272 686.399 754.31 +RBM28 405.86 504.496 478.151 323.78 314.636 371.44 618.317 376.698 448.203 714.27 304.071 376.214 134.615 498.504 526.132 337.65 552.432 501.144 558.609 222.414 +RBM33 989.913 1257.41 937.343 1250.19 661.128 883.273 868.628 805.073 993.658 746.352 778.626 1109.83 479.638 1018.63 800.215 673.451 804.105 939.741 669.955 560.345 +RBM34 739.193 630.117 487.632 388.071 611.948 1155.64 715.292 331.481 387.421 1038.21 449.109 282.494 919.682999999999 191.524 415.87 288.622 482.374 628.528 393.704 543.198 +RBM3 1873.2 2907.39 5946.38 10369.5 1394.35 2019.25 5227.1 2943.55 8087.21 2527.35 8690.2 5373.18 1813.91 5257.26 4714.77 4503.24 4346.72 3553.01 4649.28 3521.12 +RBM38 1001.44 937.323 608.502 1234.7 594.065 906.939 201.823 787.054 688.161 998.997 1706.11 476.335 1772.62 1807.51 1079.13 998.15 883.534 1338.67 808.551 1307.76 +RBM39 4554.76 3577.37 3037.18 5582.49 4155.1 3119.13 3796.52 3961.79 3123.15 3604.77 6106.23 4669.3 3401.02 4618.98 3987.64 3952.82 4189.2 5478.26 2907.68 6112.93 +RBM41 66.7627 73.6814 181.306 103.796 30.1783 55.355 48.9018 77.8555 71.3531 82.8785 164.758 94.0534 19.2308 287.673 40.3063 73.0805 128.514 147.216 112.286 114.655 +RBM42 1663.78 1298.08 2667.46 4552.29 2051.56 2049.34 2863.66 5048.37 3126.32 2598.64 4057.89 2276.7 3246.61 2433.83 4250.97 3840.89 3641.68 3019.83 1178.29 1890.52 +RBM43 117.195 248.826 337.135 49.574 832.138 561.572 159.552 224.727 279.598 159.964 198.473 153.519 172.511 598.513 640.602 359.852 251.227 187.643 340.146 321.983 +RBM44 7.2046 2.0132 1.7775 10.8443 2.2354 0.8022 4.1442 2.7198 2.6427 1.7823 2.5445 1.8204 0 2.3168 0 0.9251 0.4462 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517.291 252.047 340.098 1043.38 380.581 184.918 1006.22 479.032 489.958 420.185 481.552 376.214 436.652 353.702 260.648 819.611 636.769 749.809 462.767 162.069 +RBPJL 0 0 0 0 0 0 0.4144 0 0.5285 0 0 0 0 0.3861 0 0 0 0 0 0 +RBPMS 2825.65 1035.16 334.765 1429.9 994.765 467.308 1038.54 3876.45 405.391 77.9771 3543.26 621.359 1380.66 758.374 307.403 694.727 725.569 4462.24 418.135 783.19 +RBPMS2 485.111 220.642 17.7751 235.476 26.8251 37.3045 131.372 274.024 26.9556 193.383 138.677 255.461 203.054 110.049 3.7619 59.2044 232.039 35.0877 384.308 280.172 +RBX1 1984.45 570.028 1032.65 2119.97 1052.2 1233.28 1241.72 759.448 1119.85 3221.28 805.929 939.8 1621.49 895.743 1190.78 912.1 2205.5 1240.11 955.011 1728.33 +RC3H1 632.085 372.836 505.407 367.932 489.558 417.168 399.088 356.979 455.603 462.961 433.206 465.413 250.566 580.751 240.226 410.731 363.677 616.323 559.079 494.828 +RC3H2 111.431 466.649 92.4308 97.5988 87.1816 183.313 102.362 191.409 161.734 104.712 68.0662 191.141 116.516 150.208 121.456 88.8067 133.423 61.0221 227.39 188.362 +RCAN1 265.13 509.327 869.797 245.546 1594.98 625.752 1861.58 555.188 623.679 1336.3 434.478 532.16 372.738 388.454 853.957 735.43 598.394 571.32 832.981 251.724 +RCAN2 178.674 285.062 127.981 58.8691 67.0628 159.647 348.943 186.649 612.579 19.6057 167.939 289.442 79.7511 167.97 63.9527 922.294 2321.29 161.709 156.918 62.931 +RCAN3 1.9212 2.4158 3.555 7.7459 40.2377 10.0281 4.5586 2.7198 0.5285 111.841 4.4529 21.8447 3.9593 6.5643 9.1361 31.4524 3.5698 9.1533 1.8793 7.7586 +RCBTB1 491.835 1166.82 630.425 561.58 737.132 350.18 394.944 475.632 503.171 298.986 351.781 837.379 120.475 652.573 745.936 359.852 485.051 414.188 1502 562.931 +RCBTB2 463.497 315.26 505.407 492.641 283.899 205.776 393.701 403.557 150.634 121.644 307.252 313.714 139.14 331.306 289.668 327.475 308.344 398.932 866.338 102.155 +RCC1 145.961 140.188 718.045 728.73 155.692 405.323 554.811 322.699 529.551 1661.36 552.067 196.893 274.474 366.862 834.072 614.403 488.237 625.957 247.691 350.547 +RCC2 1304.51 1399.54 1797.66 2475.6 772.899 1378.66 3783.26 2721.2 2121.56 6194.5 1528.63 817.961 2545.25 1321.36 3413.68 1565.22 1886.66 1629.29 1144.94 1118.53 +RCCD1 536.984 287.075 632.203 616.576 186.658 259.928 84.5421 191.409 480.444 536.928 232.824 373.18 322.398 314.316 240.763 218.316 727.354 623.951 658.21 374.138 +RCE1 493.276 294.323 184.269 291.247 259.31 384.677 651.886 220.987 344.08 604.211 190.204 117.112 528.846 137.851 245.062 139.685 233.824 213.577 255.579 520.69 +RCHY1 376.081 350.288 346.615 426.801 279.987 267.148 225.446 533.089 377.907 237.941 400.763 581.918 239.819 655.276 370.818 368.178 640.339 524.79 918.017 236.207 +RCL1 245.437 391.759 292.105 265.685 336.432 427.196 320.348 196.169 312.368 736.103 313.613 841.626 291.855 856.84 823.324 389.454 298.974 317.315 297.392 151.293 +RCN1 2173.39 1402.36 2883.72 2769.95 780.164 1813.88 6682.14 1531.27 2105.71 5772.08 1744.27 1890.17 3320.7 1617.92 860.943 3402.41 2016.51 1343.25 1370.92 2017.67 +RCN2 756.004 551.604 871.574999999999 295.895 792.459 733.253 1035.64 861.85 1089.32 2141.47 697.837 846.481 1118.21 613.573 694.881 680.851 771.531 878.718 1563.54 726.293 +RCN3 117.675 204.939 901.200000000001 1998.45 247.015 190.534 319.519 191.749 446.617 158.628 330.789 54.0049 878.959 307.752 798.065 273.82 475.234 403.509 181.818 132.328 +RCOR1 631.124 644.611 1715.89 1378.78 207.336 436.422 974.72 691.86 931.818 1473.54 545.802 334.952 634.05 374.94 906.086 473.635 892.459 347.063 1105 481.466 +RCOR2 9.1258 32.6131 4.74 72.8118 1.6766 3.6101 198.094 19.0389 14.7992 30.2997 10.8142 32.767 2.8281 3.8614 3.2245 13.876 178.492 12.2044 19.7322 3.8793 +RCOR3 802.594 1695.07 683.751 1079.01 468.322 727.236 403.233 684.38 686.575 612.677 607.506 632.282 696.833 536.731 558.914 532.84 439.09 728.452 537.468 766.809999999999 +RCSD1 104.227 114.347 31.9953 82.1069 192.806 83.8347 675.922 147.551 121.036 400.579 83.9695 256.068 57.1267 67.9602 74.1636 246.069 63.8108 383.677 212.356 16.3793 +RCVRN 0 0 0 2.3238 0.5589 0 21.1355 0 0 0 0 0 0 0 0.5374 2.7752 0 0.7628 0.4698 0 +RD3 0 0 0 0 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 0 0 0 +RDBP 2004.07 1642.8 964.005 855.151 1913.53 2072.33 1690.75 1256.47 2500.6 2609.25 1782.89 1216.75 3637.44 987.226999999999 1116.6 1215.28 1092.82 1389.54 1678.04 1910.15 +RDH10 172.911 115.958 174.789 325.329 321.901 94.6651 437.215 188.689 186.575 778.434 293.893 324.029 999.434 273.772 151.552 224.792 294.511 263.158 237.726 432.328 +RDH11 3529.3 2917.06 14130.1 3418.28 3281.05 7073.41 1898.05 10225.9 7623.15 1412.5 3018.45 3109.22 15254 4103.1 5725.11 3617.02 6900.94 4866.51 22213.3 6956.9 +RDH12 145.053 3.6237 512.517 8.5205 15.648 4.8135 27.3518 108.794 28.0127 1.3367 13.3588 41.2621 1.1312 89.1978 18.8096 2.7752 8.4784 2038.14 214.235 3.4483 +RDH13 79.2507 190.847 330.025 221.534 431.996 619.735 34.397 500.451 574.308 178.679 433.842 780.443 864.819 459.504 386.403 261.795 238.362 411.899 122.833 349.138 +RDH14 469.741 187.102 341.283 298.993 445.968 334.938 331.123 461.38 357.822 463.852 470.738 645.631 504.525 533.449 400.376 874.191 448.014 348.589 436.927 500.862 +RDH16 4.3228 2.4158 11.8501 12.3935 10.0594 15.6438 9.1173 4.7597 17.9704 2.2279 15.2672 9.7087 6.7873 12.7425 10.7484 3.7003 4.0161 9.1991 1.4141 3.0172 +RDH5 18.732 29.4041 148.02 217.661 11.736 13.911 86.7882 13.9392 61.8763 20.9424 27.7036 18.2282 36.1991 19.2297 9.6628 14.8011 42.3918 39.1991 17.7778 19.1638 +RDH8 0 0 0.5925 0 0 0 1.6577 0 0 0 0 1.8204 0 1.5446 3.7619 0 1.3387 0 0 0.431 +RDM1 0.4803 6.0395 4.74 5.4222 0 23.6663 4.1442 0.34 5.2854 14.7042 5.7252 6.068 2.8281 2.3168 8.5987 8.3256 16.0643 3.8139 4.2283 3.4483 +RDX 1365.99 7251.37 3400.39 1929.51 15017 5553.15 943.224 1479.25 4032.24 1560.88 3988.55 2334.34 2656.11 3285.65 1830.44 4208.14 1231.59 2855.07 5371.39 8287.5 +REC8 24.4957 93.4102 89.4682 306.739 32.4137 29.282 150.85 56.4367 60.7822 105.603 139.949 28.5194 106.335 35.1385 46.2179 13.876 249.442 151.792 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4.7414 +RNASE10 0.4803 0.4026 0.5925 0 0 0.4011 2.0721 0 0 2.2279 0.6361 0 0 1.9307 0 0 0 0 0 0.8621 +RNASE11 0.4803 0.4026 21.9227 7.7459 17.8834 0.4011 0 0.68 45.4545 0 0 11.5291 28.8462 1.1584 11.8232 16.6512 81.66 0 330.749 18.9655 +RNASE12 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.4462 0 0 0 +RNASE13 0.4803 0 0.5925 2.3238 0 2.0056 0.4144 0 2.1142 0.4456 1.9084 1.8204 0 0.3861 0.5374 0.9251 0.4462 0.7628 0.9396 1.2931 +RNASE1 3494.72 828.613 4561.69 2793.96 16612.6 1234.26 19554.9 824.452 9786.99999999999 2711.82 2476.46 2065.53 6416.86 1268.08 1998.66 3589.27 1594.38 1195.27 6355.18 691.81 +RNASE2 44.1883 2.4158 426.603 60.4183 9.5006 4.4124 74.1815 2.0399 5.2854 216.999 3.8168 9.7087 121.606 31.2772 211.205 19.4265 45.0692 25.9344 7.0472 6.4655 +RNASE3 6.244 0 2.37 0 0.5589 0 2.4865 0 2.1142 14.7042 0.6361 1.8204 11.8778 0.7723 1.6123 1.8501 0.4462 3.8139 1.4094 0 +RNASE4 114.841 431.346 970.801 110.682 555.286 146.566 165.823 36.3337 612.785 192.706 70.2926 53.7136 190.486 52.9124 152.906 156.781 384.11 123.028 46.7324 221.974 +RNASE6 171.95 48.7183 14.2201 57.3199 297.871 27.6775 917.116 28.2184 91.9662 402.807 113.868 287.015 218.891 37.0692 146.178 231.267 41.9456 529.367 111.346 10.7759 +RNASE7 0 0.4026 2.37 0 0 0 0 0 17.9704 1.7823 0 2.4272 0 0.3861 3.2245 0 0.4462 0 15.5039 0 +RNASE8 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +RNASE9 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +RNASEH1 112.392 300.765 203.229 216.112 177.158 945.848 213.013 163.19 371.565 523.115 143.766 209.345 469.457 144.802 406.288 167.438 273.092 147.216 244.304 374.569 +RNASEH2A 348.703 486.377 562.287 1185.13 272.163 1087.85 740.986 633.043 1200.32 707.14 1208.02 449.636 1631.79 490.395 1236.06 727.105 1306.56 741.419 257.928 1746.98 +RNASEH2B 597.502 401.423 281.44 284.276 565.004 91.4561 590.137 296.803 412.262 510.193 482.824 398.665 335.973 215.079 316.002 176.688 456.046 424.104 894.996 437.069 +RNASEH2C 3106.81 700.307 1303.68 3630.67 2237.76 2566.85 1006.09 2223.99 2004.93 1433.09 2780.94 1366.38 1915.19 1176.02 933.145 1353.6 1437.74 1764.93 1174.42 807.828 +RNASEK 4932.91 3481.59 4105.02 8434.04 5071.63 5025.31 5025.81 4475.47 3930.02 2466.2 7323.14 6291.56 3568.18 3510.2 4159.82 7534.25 3745.59 8657.76 7109.69 2090.58 +RNASEL 191.643 325.325 340.69 192.874 575.063 475.331 370.493 273.004 336.152 166.202 222.646 261.529 406.674 365.286 451.968 293.247 260.598 370.709 407.799 376.724 +RNASEN 509.126 584.217 1189.75 1096.82 766.751 814.28 1244.92 1359.92 1165.96 973.154 1377.86 931.432 705.317 1236.03 1574.1 859.389 1267.74 1152.56 1316.89 722.414 +RNASET2 1548.03 897.463 865.057 2209.91 1339.58 700.361000000001 1596.77 909.787 1371.56 919.238 1505.73 1034.59 1177.6 580.365 422.948 2119.33 562.249 2341.72 519.145 1011.21 +RND1 12.0077 43.8867 8.2951 20.914 6.7063 26.8753 63.821 27.8784 28.5412 26.2894 17.1756 39.4417 8.4842 13.5148 12.898 86.0315 10.7095 29.7483 8.4567 15.5172 +RND2 12.0077 105.892 82.3582 184.353 197.835 66.1853 9.9461 36.3779 49.6829 31.1908 2.5445 147.452 89.3665 47.1088 46.7553 10.1758 53.5475 61.7849 59.1966 153.879 +RND3 184.438 97.8392 1612.21 1491.09 125.184 366.225 7139.66 259.405 1580.34 1715.94 599.873 851.335 583.145 2240.37 3185.27 868.64 259.259 647.597 439.746 225.431 +RNF103 925.552 771.303 774.902 699.458000000001 2372.27 861.612 1015.1 718.609 940.777 560.967 715.013 703.962 816.177 864.361 662.862 1583.72 630.143 725.4 978.149 1150.79 +RNF10 8444.76 7024.29 5469.41 9150.27 6866.11 6348.58 5507.25 7042.35 5852.54 3821.77 9583.97 4984.22 6034.5 5681.63 6996.64 4797.41 4627.4 7026.7 5719.05 6970.69 +RNF111 251.201 670.38 401.126 237.8 532.59 324.91 390.8 413.076 551.269 515.985 441.476 330.704 261.878 317.019 473.465 252.544 280.678 546.148 943.387 389.655 +RNF11 2561.48 3574.55 1743.15 923.315 1523.44 1436.82 1851.22 2655.25 1865.75 2301.88 1772.26 1444.17 2038.46 1717.54 2487.71 1949.12 1233.38 1379.86 2605.59 2476.29 +RNF112 5.7637 25.3657 31.4028 41.828 30.1783 9.2258 181.102 4.0798 19.556 0.4456 24.8092 30.3398 16.9683 1.5446 9.1361 51.8039 12.0482 10.6789 8.4567 4.3103 +RNF113A 333.333 180.378 886.386999999999 817.196 265.457 395.909 365.935 386.217 996.829 404.589 861.323 350.121 453.054 802.394 525.057 567.067 771.977 721.587 496.594 151.724 +RNF113B 5.7637 0.8053 0.5925 0 0 0.8022 0 0.68 1.0571 1.3367 0 0 0.5656 0 0 0 0 0 0 18.9655 +RNF114 1480.31 2134.75 1207.52 986.832 1829.14 1136.78 2097.39 2120.8 1504.23 2074.19 3272.9 1896.84 3604.64 3112.27 2173.85 2329.32 1937.08 2677.35 1785.29 1402.59 +RNF115 262.248 576.969 255.37 296.669 331.961 730.846 415.665 454.554 316.068 552.969 353.69 200.243 301.471 350.999 294.505 230.342 217.314 294.432 385.248 431.466 +RNF121 256.004 366.394 379.796 220.759 369.404 456.478 395.773 409.676 500 387.657 273.537 507.888 884.615 418.959 335.886 300.647 354.752 225.782 470.754 469.397 +RNF122 599.424 143.739 189.009 976.762 200.63 188.528 243.68 863.55 223.044 75.7491 475.191 124.393 184.955 260.643 216.579 270.12 139.67 639.97 164.435 456.466 +RNF123 811.239 1414.84 1161.31 1092.18 1280.34 1213.8 864.484 951.265 847.78 466.08 775.445 1418.69 871.041 815.523 986.699 877.891 586.345 664.378 1086.21 765.948 +RNF125 82.6129 36.2367 73.4706 39.5043 133.567 68.5921 171.156 38.0778 46.5116 62.8272 36.2595 106.796 16.4027 72.5939 49.4424 211.841 25.4351 81.6171 57.7872 12.931 +RNF126 1042.27 1035.57 1481.85 2173.51 863.992 1144.81 676.337 1840.65 1269.56 519.55 1537.53 657.16 1363.12 1482 990.461 703.978 2310.58 1330.28 583.979 1527.59 +RNF126P1 1.4409 1.6105 1.185 0 1.1177 0.4011 2.0721 2.0399 0 0.4456 1.9084 0.6068 1.1312 1.1584 2.1497 1.8501 1.3387 2.2883 0 0.431 +RNF128 2623.44 1142.26 994.816 20.1394 1169.13 2263.94 37.298 9.8594 9.5137 2.6735 1198.47 1537.01 2330.32 2251.57 33.8573 3441.26 61.1334 1781.08 2479.21 2350.43 +RNF130 2453.89 1345.59 1633.54 1486.44 2610.42 1541.12 3003.73 1786.94 764.799 2695.33 1513.99 2582.52 1554.3 2217.97 1557.97 1621.65 2062.47 2243.33 1230.44 851.293 +RNF13 1475.02 1838.01 1028 609.605 1102.62 756.117 1369.25 1681.88 970.402 1434.78 1115.78 2324.64 780.543 1316.73 783.018 1903.79 978.135 1066.36 2083.63 1827.16 +RNF133 0.4803 1.2079 1.7775 4.6476 3.3531 10.8303 3.3154 1.3599 6.3425 0.8912 1.2723 1.2136 0 3.0891 9.6735 0 4.4623 1.5256 2.8189 3.8793 +RNF135 530.74 236.344 124.426 445.391 696.335 308.063 719.851 419.196 336.152 459.396 466.285 814.927 251.697 486.533 202.607 890.842 416.332 548.436 420.954 253.448 +RNF138 498.559 226.278 247.075 213.788 175.481 183.714 376.295 239.346 502.114 437.563 143.766 232.403 282.24 200.792 214.967 311.748 451.584 228.07 255.579 526.293 +RNF138P1 124.88 14.0921 5.3325 65.8404 5.0297 5.6157 6.2163 13.2592 14.7992 6.6837 11.4504 13.9563 2.2624 10.4257 8.5987 4.6253 11.1557 8.3905 3.7585 16.3793 +RNF139 989.433 1055.7 808.769 750.581 1696.13 705.174 841.276 2564.47 825.581 1381.75 1583.97 1800.97 872.172 1799.4 757.759 1735.43 1038.38 932.113 1130.84 1507.76 +RNF141 487.512 788.753 1074.21 439.969 1486.56 660.65 625.363 1098.14 976.216 514.649 568.066 1020.63 638.009 824.79 616.418 694.727 849.174 572.082 1426.36 1240.09 +RNF144A 1598.46 3318.88 2213.6 4638.26 239.75 2488.17 1843.35 1305.52 2395.88 1565.78 837.15 442.354 1480.2 1375.42 1519.82 1005.55 852.298 594.966 1202.26 1541.81 +RNF144B 135.447 98.2418 69.3231 49.574 250.368 164.46 562.37 169.65 88.7949 1555.53 140.585 117.112 173.643 97.3067 65.565 169.288 45.0692 252.479 247.122 42.2414 +RNF145 1164.75 2402.9 4538.59 418.28 543.768 1485.36 2910.48 2225.17 4553.91 1891.5 2961.83 1777.91 980.204 2899.51 720.677 3526.36 3967.87 1603.36 3176.89 1915.09 +RNF146 556.676 497.248 511.332 457.01 891.376 360.209 870.7 729.258 1019.03 459.842 891.221 540.655 397.624 716.672 455.193 768.733 550.201 617.849 1318.77 572.845 +RNF148 4.8031 0.4026 7.1101 7.7459 1.1177 16.446 4.9731 3.0598 17.9704 2.6735 1.2723 3.6408 3.3937 11.198 17.1974 0.9251 4.9085 4.5767 6.1076 11.2069 +RNF149 886.167 592.269 501.259 577.072 1128.33 1269.96 2794.03 583.406 655.391 1445.47 684.478 626.214 1428.73 473.791 589.01 818.686 550.201 579.71 669.955 1096.98 +RNF14 1885.69 1268.29 3109.47 3886.13 5368.38 2414.76 569.83 4210.32 3684.46 821.655 4262.09 4495.75 1325.23 6346.17 4905.01 3478.26 3213.74 3299.77 6791.17 2065.52 +RNF150 41.7867 153 295.66 108.443 114.566 103.49 57.1902 12.5793 197.146 4.0102 90.3308 31.5534 120.475 138.623 75.2385 42.5532 18.7416 87.7193 142.354 138.793 +RNF151 0 0 0 0.7746 0 0 0.8288 0 0.5285 0.8912 0 0 0 0 0 0 1.7849 0 0 0 +RNF152 26.8972 47.5104 24.2927 17.8156 4.4709 14.4404 33.1538 26.8584 10.5708 11.1396 9.542 13.9563 27.1493 16.9901 10.2109 19.4265 24.9888 9.1533 15.0341 27.5862 +RNF157 210.855 97.4366 296.845 704.88 918.202 455.672 281.392 565.727 50.2114 331.959 172.392 472.087 330.882 244.425 198.307 535.615 771.972 727.689 402.161 519.828 +RNF160 486.071 720.306 1260.26 467.08 528.12 513.438 215.914 618.764 469.345 471.873 462.468 498.18 376.131 429.771 1000.67 572.618 867.915999999999 448.513 883.251 425.431 +RNF165 2.7522 6.0395 50.3807 20.2014 3.3531 3.6101 152.735 16.659 12.1564 21.1474 6.1196 4.8544 17.5339 2.591 66.5968 4.6253 12.1241 3.8139 0.4698 0.431 +RNF166 290.106 553.214 442.009 639.039 331.961 160.048 630.75 344.06 469.873 407.263 353.69 422.33 360.86 473.405 357.383 303.423 705.489 488.94 218.934 252.586 +RNF167 3492.8 2379.55 1960.01 2368.71 3499.56 2761.73 2583.09 2674.96 2571.88 1511.42 2301.53 3185.07 2904.41 2034.17 3312.64 2686.4 2263.28 2106.03 2529.48 1801.72 +RNF168 11.0471 177.56 61.028 10.8443 31.8548 64.5808 45.172 36.3779 72.9387 51.6876 25.4453 78.2767 37.3303 49.0395 52.1295 35.1526 35.2521 19.8322 82.6873 72.8448 +RNF169 116.47 405.086 156.433 51.7816 114.84 304.854 137.174 180.825 140.465 239.791 139.886 213.38 61.4932 139.465 83.418 135.874 93.9848 168.802 130.491 314.401 +RNF170 690.682 647.43 428.381 437.645 1216.07 665.463 380.025 941.065 449.789 112.287 730.916 1008.5 574.661 370.306 699.18 457.909 428.826 1018.31 611.229 796.552 +RNF175 20.6532 1.6105 11.8501 72.8118 4.4709 3.6101 27.7663 13.5992 2.1142 71.7389 11.4504 7.2816 15.8371 5.0198 1.0748 7.4006 6.6934 19.0694 7.517 1.2931 +RNF17 0 0.8053 0 6.9713 0 0.4011 0 0 0 0 1.2723 1.2136 0 0 0 27.7521 0 0 0 0 +RNF180 85.975 52.3419 95.3933 149.496 104.506 19.2539 14.9192 155.371 43.8689 5.7926 205.471 387.743 5.0905 140.554 60.7282 233.118 50.8701 280.702 178.53 7.3276 +RNF181 2080.69 811.703 1293.44 1405.11 2313.11 1939.43 2257.36 1239.23 1572.41 2820.99 2300.89 1347.09 3898.76 925.186 1405.88 2209.07 901.83 1604.88 1279.77 2017.67 +RNF182 83.5735 11.2737 14.2201 14.7173 1.1177 1.2034 0.4144 2.0399 7.9281 0.8912 59.7964 36.4078 5.6561 96.5344 0 97.1323 14.2793 3.8139 5.6378 163.362 +RNF183 0.4803 0.4026 7.1101 25.5616 1.1177 5.2146 0 0 6.871 1.7823 0.6361 3.6408 1.1312 7.7228 4.2993 1.8501 12.9407 1.5256 0.4698 0 +RNF185 422.19 1311.17 734.433 485.67 526.443 345.776 1251.55 561.647 749.45 824.774 408.397 825.85 364.253 739.693 736.261999999999 336.725 1101.29 716.247 1225.58 816.078 +RNF186 0 0.4026 0 0 3.912 0.4011 0 0 2.1142 0 1.9084 0 0 0 0 0 0 3.0511 0 0 +RNF187 5996.16 14337.7 5725.37 4445.39 7999.47 9747.29 6048.9 4720.63 6802.85 3506.74 7520.36 4118.33 8118.78 4161.02 9540.24 3204.44 4634.09 4844.39 5338.5 4494.83 +RNF19A 1088.86 692.927 405.866 744.384 506.324 434.817 502.694 773.115 552.326 786.9 828.88 729.369 184.389 669.563 602.445 447.734 694.779 1101.45 341.085 858.621 +RNF19B 376.081 337.002 487.632 127.033 296.194 476.935 762.122 200.928 326.11 1023.06 143.766 334.345 363.122 168.742 433.159 96.2072 339.58 195.271 174.771 176.293 +RNF20 993.756 973.963 956.303 1391.94 1024.94 864.42 961.459 1181.43 1145.35 1065.83 709.288 1309.47 1023.76 1177.72 1510.14 899.166999999999 1850.07 675.057 910.03 1400.86 +RNF207 92.219 45.0946 109.613 151.82 69.8571 101.083 68.3796 41.8176 40.6977 205.414 52.1628 101.942 18.6652 32.0494 25.796 16.6512 64.257 106.026 8.4567 105.603 +RNF208 309.318 85.3576 399.348 1271.88 154.244 67.3887 63.821 119.333 105.18 48.5686 79.5165 521.845 152.715 118.544 66.6398 130.435 240.071 128.147 101.01 68.1034 +RNF212 2.4015 1.2079 90.6532 366.383 29.6194 1.2034 1.6577 356.299 2.6427 1.3367 80.1527 4.2476 1.6968 1.1584 0.5374 86.9565 109.326 5.3394 61.5457 0 +RNF213 2530.45 2142.78 2209.98 2168.71 2745.1 1136.33 3103.93 790.009 1534.14 5166.98 1696.56 2754.82 1759.62 1375.03 1111.91 1939.86 1381.97 2617.09 1346.47 1082.76 +RNF214 589.817 328.949 236.409 295.895 340.903 373.446 262.329 255.325 236.786 385.429 205.471 212.379 279.977 201.178 242.913 177.613 199.464 199.085 192.154 252.155 +RNF215 191.643 214.199 564.065 630.519 272.163 220.217 429.341 178.15 441.861 388.994 153.308 243.932 178.167 475.722 266.022 209.066 681.392 383.677 313.836 237.069 +RNF216 1561.48 2003.09 1967.12 1134.78 1544.12 1549.94 2284.71 1222.23 1931.29 1141.14 1058.52 1407.77 995.475 1494.74 1555.29 809.436 1760.37 1702.52 1503.41 1321.55 +RNF216L 442.349 476.312 449.682 311.387 903.112 613.317 914.509 385.198 829.783 397.901 474.478 240.109 441.176 252.005 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347.792 330.843 250.301 383.34 467.813 227.801 265.568 286.896 338.592 239.253 264.89 296.117 293.247 319.054 400.458 274.372 515.948 +SDF2 1340.06 727.956 814.694 732.765 1330.64 1019.25 1552.84 918.967000000001 1040.17 817.199 929.389 1140.78 1372.17 760.304999999999 1263.47 1354.3 937.082 784.897 1336.15 1110.34 +SDF2L1 647.454 214.199 311.658 639.039 223.543 268.351 266.059 86.695 473.573 1338.98 258.27 134.709 425.339 388.068 238.076 179.464 635.877 798.627 378.67 379.741 +SDF4 4063.4 2400.08 4737.08 3550.74 3830.4 3692.74 6298.8 4110.7 4538.06 8209.42 3247.46 2719.05 3098.42 3565.21 5066.24 4284 2957.16 3415.71 3119.1 2454.74 +SDHA 4260.33 2700.84 5822.54 3541.44 11249.2 5507.02 2297.14 5971.75 4606.77 2342.88 5290.08 19041.9 8681.56 7771.02 8077.93 4445.88 5272.2 4105.26 10699.1 1665.95 +SDHAF1 552.354 150.986 500.074 479.473 383.935 328.921 404.89 618.084 750.529 415.729 581.425 437.5 617.647 519.741 809.351 339.5 553.324 350.114 150.341 164.655 +SDHAF2 1029.3 590.659 453.266 481.022 939.438 846.37 1163.7 614.344 644.82 945.082 547.71 651.092 2611.99 627.474 545.479 689.177 796.073 694.127 771.905 891.81 +SDHAP1 61.9597 213.394 122.056 105.345 97.2411 121.54 113.966 69.6959 136.892 136.794 116.412 205.704 63.914 73.7523 55.354 54.5791 124.498 64.836 62.0155 85.7759 +SDHAP2 73.0067 219.836 88.2832 193.648 90.5348 109.908 106.092 80.2353 150.634 110.505 134.86 223.301 85.9729 37.8415 84.912 76.7808 86.5685 76.2777 55.4381 50.431 +SDHAP3 101.345 57.1735 228.114 925.639 390.082 134.376 61.7489 285.583 177.061 58.817 363.232 492.718 220.023 176.851 226.253 134.135 249.442 160.183 283.298 53.4483 +SDHB 1996.16 1453.5 1398.9 961.27 2385.2 1598.07 1488.6 1576.83 1665.96 2358.92 2019.08 3057.04 2920.25 1414.04 2363.56 1456.98 1468.09 1050.34 2433.17 1145.69 +SDHC 2177.23 2690.38 1385.87 901.627 3936.03 2434.82 1621.63 1654 1886.36 1741.78 1683.21 2443.57 3410.07 1748.05 3146.04 1469.94 1694.33 2297.48 2900.63 2853.02 +SDHD 1716.62 1217.55 1483.63 1215.34 2818.87 2115.12 1808.54 760.876 1340.38 2269.8 1639.95 2952.06 1570.7 1274.25 1408.57 1591.12 1270.41 1317.32 2259.34 1575.43 +SDK1 7.2046 2.8184 1971.86 673.122 343.138 4.0112 112.723 204.668 1532.24 5.7926 31.8066 81.9175 15.8371 67.188 36.007 21.2766 730.031 4.5767 1390.65 0.8621 +SDK2 42.2671 251.644 572.952 701.782 1.6766 7.6213 4.9731 429.395 243.129 1.7823 151.399 22.4515 302.602 34.7524 161.225 127.66 298.081 4.5767 389.946 16.3793 +SDPR 275.696 841.497 51.5479 123.935 2021.94 266.747 726.896 1155.59 65.0106 219.227 501.272 337.379 137.443 149.435 154.239 483.811 98.6167 318.841 661.029 102.155 +SDR16C5 0 0 0.5925 0 0 0 3.3154 0 0 106.494 0.6361 0 0 0 1.0748 0 0 0 0 0 +SDR39U1 3993.94 820.222 1868.27 2405.41 803.334 953.791 511.778 2341.48 2256.97 488.413 1594.08 1092.62 2104.81 1090.66 1795.23 1499.85 2381.85 1592.6 2575.86 1173.47 +SDR42E1 0.9606 12.8842 13.0351 10.0697 57.0034 74.6089 0.4144 0 1.0571 4.9014 223.282 0 0.5656 0.7723 0 15.7262 44.6229 28.2227 0.4698 0.431 +SDR9C7 0 0 0 0 0 0 0.8288 0 0 0 0 0 0 0 0 0 0 0 0 0 +SDS 3.8425 220.642 24.2927 42.6026 12.2948 40.1123 322.835 20.3988 111.522 571.683 39.4402 57.6456 136.878 35.9108 154.239 24.0518 41.0531 129.672 108.997 66.3793 +SDSL 195.005 977.587 1304.7 384.973 850.021 1117.53 477.414 1113.1 1257.4 506.183 830.789 2125 1978.51 1069.22 4054.28 1073.08 901.83 1295.19 3048.63 2830.6 +SEBOX 0 0 0.5925 0 0 0 0 0 1.0571 0 0 0 0 0 1.0748 0 0 0 0 0.431 +SEC11A 2439 1600.46 2261.59 1530.6 1853.73 2031.69 3712.81 1432 2823.47 4750.81 2652.67 1515.17 3424.77 1531.81 4092.97 2125.81 2023.2 2096.11 3139.3 1754.74 +SEC11C 662.344 819.353 1169.01 367.932 805.871 909.346 172.814 358.339 1195.56 543.611 482.188 775.485 671.946 1103.2 1040.98 694.727 738.956 678.871 1265.21 557.328 +SEC13 1941.88 2698.83 2692.34 2108.44 1432.91 1600.48 3682.14 1515.29 3047.04 1714.6 2424.3 2841.02 2265.84 2393.28 4435.31 2568.92 2073.63 2324.18 1935.17 1360.34 +SEC14L1 3697.41 4557.78 1915.57 972.889 4523.94 2578.02 2503.11 3751.34 1130.55 2689.54 1680.03 3083.13 2535.07 2040.74 1490.8 2625.35 1995.09 1549.2 2120.27 3057.76 +SEC14L2 2.4015 11.2737 337.313 274.702 279.602 49.4545 871.678 29.6837 115.328 610.992 34.9873 304.108 36.1991 232.347 96.7352 113.784 326.564 31.2738 53.089 155.448 +SEC14L3 0 0 0 0 0 0 0 0 0 0 0 0 0 0.7723 0 0 0 0 0 0 +SEC14L4 0 0 0 38.7297 126.861 0.4011 0 0 3.1712 20.4968 0 0 0.5656 246.356 0 11.1008 228.023 0 0.4698 0 +SEC14L5 19.6926 6.4421 170.049 13.1681 7.2651 3.209 3.3154 33.998 45.4545 1.7823 35.6234 61.8932 6.7873 77.9998 13.9729 12.951 128.96 136.537 99.1308 28.4483 +SEC1 1.4409 6.4421 7.116 9.2951 10.0594 17.2483 2.0721 21.4188 15.8562 4.4558 10.8142 18.8107 11.8778 4.6337 13.9729 18.5014 3.1236 3.0511 0.9396 4.7414 +SEC16A 2577.33 2730.64 4514.29 4832.69 2541.68 5625.75 2712.81 2325.46 4115.75 2834.8 1603.05 2277.31 3072.4 6739.65 8980.25 2158.19 6745.2 2021.36 2334.98 2494.83 +SEC16B 240.183 242.106 331.5 153.664 1115.09 233.879 230.448 13.9596 490.592 57.9615 195.483 87.3786 166.29 173.828 596.072 62.8862 38.4962 324.325 791.943 34.3405 +SEC22A 240.634 411.891 279.662 199.845 248.691 256.719 366.349 265.525 294.926 389.44 286.896 469.053 429.299 237.861 314.389 324.699 221.776 173.15 309.138 248.707 +SEC22B 1499.04 1351.63 1427.94 1411.31 1797.28 1252.71 1288.02 1216.11 1844.08 783.781 1244.91 976.942 651.584 1706.34 2053.47 1436.63 946.452 1414.95 1775.43 1837.93 +SEC22C 737.271999999999 928.466 507.777 202.944 938.32 457.28 402.404 558.247 569.239 318.592 471.374 1040.66 432.692 474.177 260.11 687.327 408.3 498.856 602.772 802.155 +SEC23A 1541.79 2115.02 2608.8 888.459 962.91 725.231 1979.69 987.303 1800.21 1240.5 744.911 835.558 1015.84 920.552 2490.39 1429.23 1892.01 613.272 2268.73 2732.33 +SEC23B 1015.85 1279.16 1309.44 182.804 1878.88 1422.38 932.863999999999 1451.72 1584.04 548.958 797.074 1374.39 1694.57 2881.36 2579.07 916.743999999999 754.128 1530.13 1148.7 2174.57 +SEC23IP 637.368 1593.61 1064.73 406.661 651.068 1012.43 730.211 724.498 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85.6361 139.953 162.933 58.6076 317.494 545.934 13.7048 141.481 31.3852 79.556 125.837 243.646 30.1903 59.3836 +SEC61A1 6266.98 18361.6 15010.2 7360.83 4129.87 9389.8 12905.3 8403.55999999999 12847.1 10104.4 6372.68 8888.78 12172.4 10343.8 11236.8 10369 7679.56 6898.47 11751.8 6963.14 +SEC61A2 117.301 286.467 130.955 222.463 82.0569 401.336 67.3726 175.981 197.553 86.2382 160.413 132.257 58.6538 135.627 80.258 105.097 115.623 168.848 103.556 231.603 +SEC61B 3104.23 1461.95 2246.19 5600.31 1835.84 3614.52 2186.08 2500.21 3641.12 3087 2389.31 1884.71 3199.66 3442.03 4991 2475.49 5978.13 2298.25 1711.06 1674.57 +SEC61G 877.521999999999 924.037 3452.53 1199.85 1057.92 1365.42 2886.03 664.661 4288.06 1832.68 1277.35 1255.46 1574.1 1888.6 3148.19 1049.95 2474.34 1536.23 1992.48 965.948 +SEC62 4200.77 5226.95 2717.82 2316.81 2327.08 3996.79 2995.86 3568.77 2415.43 4009.36 3547.07 5353.16 3852.38 3503.04 3063.82 5105.46 2371.71 2624.71 4396.05 4785.78 +SEC63 3250.72 3459 2704.19 1958.95 4346.23 1797.43 4473.27 3289.31 4566.6 1280.16 3423.03 1560.07 2763.01 3397.24 3627.57 2932.47 3240.07 2077.04 4301.62 4677.16 +SECISBP2 1035.54 1240.5 958.673 1037.18 1557.53 1100.28 691.256 900.268000000001 1359.94 558.316 756.361 1683.86 935.52 1172.7 1516.06 449.584 1796.97 806.255 1412.26 747.414 +SECISBP2L 746.398 1347.6 1013.18 877.614 1398.26 1389.09 397.845 1041.36 1531.18 757.046 1056.62 658.374 325.792 691.186 532.581 813.136 448.014 1102.21 1926.24 992.241 +SECTM1 36.9837 31.8078 14.2201 24.0124 112.33 13.6382 1070.87 20.3988 31.7125 6094.24 78.2443 43.0825 76.9231 10.4257 27.9457 85.1064 25.8813 479.786 55.4381 1.7241 +SEH1L 712.296000000001 531.472 488.224 263.362 305.695 340.553 917.944 508.95 460.359 744.124 268.448 472.087 330.317 408.92 378.342 352.451 471.218 554.538 590.557 653.017 +SEL1L2 2.4015 0 0 0 0.5589 0 0 0 0 0 3.1807 0.6068 0 0 2.6871 0 0 0 0.4698 0 +SEL1L3 24.4957 1246.54 655.903 320.682 64.2685 71.3999 1245.75 27.5384 89.3235 716.943 235.369 1827.06 25.4525 905.879 164.45 7037 160.196 675.82 277.19 249.138 +SEL1L 1150.82 6041.07 3190.05 1902.4 1450.79 1041.32 3029.01 1629.87 2565.54 1566.67 1585.24 2022.45 1210.97 1815.62 1553.14 2294.17 1919.68 1167.05 3354.94 1271.98 +SELE 0.9606 63.213 5.925 0 2.7943 4.4124 8.2884 0 3.1712 6.6837 5.7252 15.7767 0 3.4752 18.8096 96.2072 2.6774 12.9672 5.6378 9.9138 +SELENBP1 30.7397 197.289 13.0351 783.114 466.645 19.655 261.5 42.1575 32.7696 3022.39 137.405 79.4903 56.5611 23.1683 15.0477 297.872 591.254 90.7704 487.667 5.6034 +SELK 1414.03 854.784 932.602999999999 1907.05 962.351 714.4 617.074 1117.52 1084.57 621.588 1276.08 1019.42 864.253 771.889 846.433 1231.27 666.22 1292.14 985.671 1089.66 +SELL 27.3775 30.5999 21.9227 7.7459 40.2377 2.8079 332.781 29.2383 16.9133 81.9873 15.2672 47.3301 4.5249 4.6337 12.3606 164.662 53.5475 220.442 36.6455 0.8621 +SELM 130.644 560.059 242.334 783.114 2066.65 63.7786 190.634 111.174 180.233 1195.05 226.463 511.529 229.638 362.583 209.055 313.599 300.312 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851.584 1849.15 191.749 2396.41 96.246 1573.79 26.0922 5291.29 124.336 803.977 24.9769 328.425 1352.4 7771.2 551.724 +SEMG1 1.4409 0 30.8103 2.3238 0 2.4067 0.4144 0 158.034 0 1.9084 134.709 16.9683 1.1584 217.117 549.491 5.3548 1.5256 71.4118 0.431 +SEMG2 0 0 0 0.7746 0 0 0 0 0 0 0 0.6068 0 0 0 0 0 0 0 0 +SENP1 266.09 638.572 352.54 432.223 230.249 291.215 584.749 358.339 466.702 458.505 296.438 298.544 247.738 322.425 413.274 411.656 513.164 399.695 266.855 281.034 +SENP2 483.189 1526.37 594.875 328.428 668.952 1089.85 609.615 623.864 702.96 700.457 521.629 910.801 832.014 544.454 618.03 728.955 503.347 377.574 810.43 1192.67 +SENP3 771.965 1099.02 703.831 327.242 713.096 559.88 1445.45 833.217 874.852 605.151 650.725 1495.19 577.03 684.703 606.105 517.345 744.65 576.598 486.206 729.815 +SENP5 478.386 1246.54 713.376 635.167 378.905 738.067 795.69 620.124 768.498999999999 1332.29 912.849999999999 1049.76 506.787 790.038 493.349 717.854 632.307 721.587 1144.94 583.19 +SENP6 1622.96 1278.35 940.898 1656.86 1268.05 689.531 1069.62 1151.85 1337.74 570.792 1502.54 997.573 838.235 1016.31 730.888 1182.24 772.423 847.444999999999 1899.93 2068.97 +SENP7 268.012 467.856 199.674 367.932 188.894 165.664 234.977 283.543 228.858 219.673 223.919 442.961 80.8824 167.97 174.661 284.921 148.148 298.246 250.411 263.793 +SENP8 44.1883 20.9368 61.6205 43.3772 29.6194 40.1123 14.9192 60.1765 100.951 40.9937 107.506 49.7573 53.1674 76.0691 76.8507 68.4551 62.9183 135.011 157.388 22.8448 +SEP15 3038.9 1455.51 3355.95 1811 3541.47 1906.94 4723.58 3532.05 2997.36 8575.25 2681.3 2146.84 1635.18 3358.24 5023.78 3248.84 2827.31 2479.02 4038.52 2180.17 +SEPHS1 1759.85 1776.81 1262.63 2245.55 793.018 3099.48 670.12 1601.31 848.309 1628.61 1190.2 942.354 839.366 1141.42 1157.06 957.447 1237.84 1342.49 1312.66 1328.88 +SEPHS2 1174.83 1145.48 3205.45 2728.12 1074.12 2572 2068.79 2905.81 3040.17 878.244 2793.89 3565.53 1306 2748.14 4712.62 3161.89 2258.81 2146.45 2074.7 1366.38 +SEPN1 1663.3 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34.0903 37.3045 54.7037 11.2193 2.6427 750.808 3.8168 16.3835 15.2715 3.8614 3.7619 19.4265 25.4351 64.0732 5.6378 5.1724 +SYTL2 804.515 3850.76 1521.55 939.582 138.038 1600.48 485.702 825.472 235.729 54.3611 243.639 59.466 1986.43 1627.57 207.981 115.634 2088.35 140.351 157.858 1612.93 +SYTL3 48.511 10.4684 52.7329 41.828 45.8262 8.0225 200.995 18.3589 87.7378 110.059 43.8931 81.3107 56.5611 30.891 26.8709 40.7031 41.4993 96.8726 94.4327 27.5862 +SYTL4 189.241 45.4972 109.021 208.366 23.472 55.7561 669.291 16.659 62.8964 165.311 69.3384 44.9029 85.4072 46.3365 68.252 43.4783 79.8751 15.2555 83.627 67.6724 +SYTL5 8.6455 25.3657 357.873 3.0984 0 2.0056 0.8288 4.7597 58.1395 1.3367 108.779 477.548 1.6968 102.713 10.2109 483.811 23.2039 150.267 385.718 4.3103 +SYVN1 2678.67 2923.5 5087.84 3740.51 3790.72 4181.31 1481.14 3749.64 3790.7 2669.49 2946.56 1409.59 3673.64 4270.68 2954.72 2506.01 2849.62 3401.22 2604.18 2507.76 +T 0 0 1.185 3.873 0 0.4011 0 0.34 0 2.6735 1.9084 0 0 0.3861 0 0 0.4462 0 0 0 +TAAR1 0 0.4026 1.185 0 0 0 0 1.3599 0 0 0.6361 0.6068 0 0 1.0748 0 0 0 0.4698 0 +TAAR2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +TAAR5 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +TAAR6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +TAAR8 0 0 0 0 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 0 0 0 +TAAR9 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +TAB1 520.605 596.678 476.374 1009.34 533.49 275.287 693.013 567.57 718.478 885.539 327.245 650.673 581.725 737.357 618.718 407.373 1295.6 564.02 490.665 515.784 +TAB2 1826.61 2630.79 904.162 592.564 2236.54 711.191 2276.83 1382.02 1402.75 1046.23 2047.71 1498.79 1176.47 1075.78 943.706 1835.34 963.855 829.901 2302.56 1835.34 +TAB3 1574.93 1171.65 784.476 826.491 337.549 292.419 573.145 396.757 694.503 372.953 979.008 1197.82 172.511 711.652 365.444 443.108 631.414 537.757 1133.19 963.362 +TAC1 1.4409 7.65 8.8876 278.854 0 0 73.7671 0 2.1142 0 8.2697 5.4612 3.3937 20.4653 2.1497 0 3.1236 10.6789 23.4907 0 +TAC3 0 0 0 0 0 1.2034 4.5586 0 0.5285 0 0 0.6068 0 0.3861 0 0 0 2.2883 0 0.431 +TAC4 0 1.2079 1.185 0 3.912 1.2034 0.4144 0.68 0.5285 0 0 0 5.6561 0.3861 0.5374 0.9251 1.3387 0 0.4698 0 +TACC1 1447.17 2403.7 555.769 1295.12 1381.49 1363.82 1787.4 4119.54 1362.58 654.562 1860.69 2127.43 1149.89 1368.86 387.478 1955.6 1228.47 1226.54 1182.99 3365.09 +TACC2 533.141 1906.45 548.067 1006.97 149.774 1294.02 262.743 1099.16 949.789 1116.19 1477.1 1094.05 941.177 1109.76 992.073000000001 418.131 394.913 1646.83 748.884 731.034 +TACC3 286.743 373.238 334.173 2414.41 200.071 1964.7 1562.78 634.743 1959.3 1671.38 797.074 241.505 1482.47 261.801 774.956 259.945 2539.94 556.064 769.086 1924.57 +TACO1 409.222 347.873 449.119 426.801 532.59 357.802 797.762 491.271 736.787 569.901 432.57 2198.42 1066.18 459.504 487.975 773.358000000001 448.461 514.874 696.735 442.672 +TACR1 13.4486 12.0789 0.5925 0 6.1474 0.8022 5.3875 12.2393 0 0 40.0763 20.0243 0 11.9703 1.0748 125.809 0.4462 32.0366 9.3963 0.8621 +TACR2 7.2046 128.842 53.9179 24.787 17.8834 65.7842 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119.984 39.1053 30.9837 21.7954 85.0381 82.8844 33.998 30.6554 112.287 42.6209 23.665 37.8959 32.4356 60.1908 14.8011 25.4351 135.011 36.6455 105.172 +TAF1B 136.888 115.958 163.531 30.9837 113.448 228.64 159.967 134.292 99.8943 384.984 115.14 99.5146 141.403 86.4948 117.157 102.683 145.917 88.4821 93.9629 428.017 +TAF1C 1406.82 978.794 1670.27 5072.81 1327.84 968.311 949.440999999999 1163.07 1339.85 1159.41 1421.76 632.888 1088.24 1537.99 1229.07 864.015 2137.88 1652.94 501.762 964.654999999999 +TAF1D 297.344 570.096 296.839 238.474 315.29 898.688 539.842 117.538 276.628 777.596 357.525 237.603 439.983 304.578 283.09 203.303 289.951 333.814 198.581 697.009 +TAF1L 8.6455 32.6131 27.8477 30.9837 8.9417 10.8303 7.0079 7.4796 13.7421 5.347 11.4504 18.2039 5.0905 15.4455 22.0341 12.951 8.4784 4.5767 16.4435 7.7586 +TAF2 261.767 510.938 484.669 607.281 407.965 377.858 280.564 544.988 388.478 476.328 541.985 594.66 131.787 590.791 427.784 395.93 545.739 492.754 341.085 739.655 +TAF3 141.21 414.709 154.051 155.693 102.83 424.388 151.264 232.547 154.863 171.104 143.766 94.0534 97.8507 178.782 120.382 141.536 147.256 154.844 104.299 194.397 +TAF4 803.074 657.495 298.03 451.588 475.028 336.542 246.581 420.555 354.651 409.045 466.921 314.927 256.787 598.899 424.023 425.532 457.831 684.973 359.408 427.586 +TAF4B 100.384 101.865 139.831 43.3772 43.5908 74.2078 31.0816 171.01 102.008 91.3445 40.0763 100.121 89.9321 200.405 158.001 55.5042 92.8157 89.2449 53.089 56.0345 +TAF5 144.092 107.1 49.7704 127.033 49.1794 176.895 139.66 60.5165 169.662 129.219 104.326 75.2427 67.8733 47.1088 67.1772 73.0805 46.4079 129.672 100.54 202.586 +TAF5L 259.366 540.733 305.733 240.124 392.317 554.352 488.189 308.362 399.577 570.346 326.972 222.694 359.163 237.089 285.906 222.942 300.312 445.462 458.069 722.845 +TAF6 2486.55 2695.21 1480.08 1984.51 1147.33 1212.6 2860.76 1946.05 1621.38 2258.22 934.478 1292.48 999.434 1504.78 1682.65 1312.67 1746.1 2526.32 1460.65 970.69 +TAF6L 795.869 347.873 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607.281 681.246 327.718 607.128 310.062 802.326 1664.7 802.163 383.495 654.977 313.544 598.146 268.27 311.468 623.188 602.302 319.397 +ZFYVE20 523.535 1432.96 592.505 601.859 732.661 396.711 676.751 583.746 709.831 253.537 645.674 1067.35 450.792 518.583 564.289 659.574 505.132 345.538 602.302 678.448 +ZFYVE21 1549.47 620.051 749.519 1110.77 406.289 279.182 665.147 801.673 389.006 746.352 690.204 399.879 526.018 391.157 421.336 948.196000000001 550.201 539.283 1051.44 318.103 +ZFYVE26 604.227 1215.94 1049.33 720.372 644.362 739.27 956.486 1234.81 613.636 673.722 413.486 387.136 699.661 386.138 597.071 530.065 566.711 585.812 1573.88 387.5 +ZFYVE27 1121.52 2797.48 1417.86 2027.89 948.38 2037.71 755.491000000001 1974.95 1822.41 963.796 1639.95 2692.96 1364.82 1813.69 1213.49 938.945 1551.99 1790.24 2725.86 1693.97 +ZFYVE28 268.012 143.739 543.919 1145.62 717.572 133.574 136.345 215.887 199.26 197.393 560.433 578.277 65.6109 958.78 132.205 251.619 792.95 1028.22 567.536 34.0517 +ZFYVE9 519.212 614.817 464.524 226.181 431.996 323.706 263.158 490.932 267.442 528.016 319.975 396.238 273.756 410.078 217.117 301.573 270.861 295.195 292.225 336.207 +ZG16 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.9251 0 0 0 0 +ZG16B 0 153.402 450.896 48.0248 1342.93 761.733 9.5317 0 1659.62 17.3777 85.2417 50.3641 1072.4 4.6337 214.967 4.6253 71.3967 292.906 418.135 231.897 +ZGLP1 24.6398 6.7481 102.26 368.606 40.981 52.1781 54.2893 34.7086 77.4577 24.7611 76.2786 20.7403 46.3066 59.9324 86.2717 15.7539 147.367 50.2136 8.2452 58.944 +ZGPAT 1462.93 1072.88 674.638 858.815 1198.27 865.756 1007.56 864.665 682.093 1101.13 1300.43 955.073 1625.83 1278.98 916.179 980.193999999999 1316.92 2258.09 865.281000000001 708.315 +ZHX1 1025.46 1651.97 391.053 492.641 570.593 529.029 401.989 1440.5 553.383 1158.07 798.982 758.495 489.253 718.988 319.226 922.294 744.757 931.35 508.809 1109.05 +ZHX2 463.497 747.685 507.184 508.908 541.532 494.585 460.423 1473.47 574.524 155.063 723.919 595.874 647.624 560.286 1034.53 544.866 699.688 665.141 645.055 324.569 +ZHX3 2028.34 3584.22 1661.98 1445.39 1408.32 935.017999999999 1142.56 3182.89 1464.59 501.281 2321.88 2178.4 1692.31 2692.54 2611.85 1490.29 2895.58 2081.62 1777.78 1384.91 +ZIC1 11.5274 74.084 49.7704 0 0 0.8022 3.7298 0 4.2283 0 0 0 82.5792 0.3861 42.456 0 309.683 6.865 0 0 +ZIC2 283.862 81.734 37.9203 15.4919 0 52.146 0.8288 10.1994 34.8837 12.4763 1.9084 3.034 58.8235 23.9405 4.8368 0 232.932 1.5256 5.6378 87.069 +ZIC3 0 1.2079 1.185 3.0984 0 0 0 0 3.1712 0 0 0 0 0.7723 0.5374 0 0.4462 0 0.9396 0 +ZIC4 0 24.9631 39.6978 3.0984 0 0 3.3154 0 35.9408 0 0 1.2136 4.5249 0 19.8845 0 96.3855 0.7628 0.9396 0 +ZIC5 93.1796 16.1052 2.9625 0 0.5589 34.4966 0.8288 5.0997 0.5285 4.4558 0 0 15.8371 1.9307 0 0 73.6278 0 0 20.2586 +ZIK1 22.5744 178.768 65.1755 311.387 43.032 154.833 104.849 164.89 208.774 61.9361 208.651 89.8058 133.484 147.505 188.096 112.859 96.8318 54.1571 63.4249 184.914 +ZIM2 0.975 180.898 14.469 9.5662 6.8125 31.4882 0 21.9627 14.0645 0.8912 8.3842 3.1735 5.7296 16.6039 21.0184 0 13.9625 8.566 34.381 15.7629 +ZIM3 0 0 0 0 0 0 0 0 0 0 0 1.2136 0 0 0 0 0 0 0 0 +ZKSCAN1 119.116 1386.66 700.341 458.559 422.496 280.385 172.399 424.635 462.474 166.648 271.628 545.51 104.638 605.464 403.063 243.293 362.338 212.052 771.905 228.017 +ZKSCAN2 317.003 187.626 341.875 210.689 155.362 107.501 158.724 338.96 246.3 95.3548 171.756 277.306 220.023 308.138 209.593 227.567 292.726 188.406 121.682 146.121 +ZKSCAN3 18.2517 98.6444 39.1053 70.488 92.2114 142.8 45.172 55.7568 110.465 35.6467 61.0687 58.8592 104.072 39.386 66.6398 42.5532 18.2954 44.241 92.5534 148.707 +ZKSCAN4 71.5658 86.1629 62.8055 82.1069 138.038 125.552 118.939 79.8954 162.262 106.049 119.593 87.3786 133.484 85.3364 56.4289 118.409 68.2731 70.1754 103.359 136.207 +ZKSCAN5 423.151 440.88 609.095 610.38 371.64 421.58 500.622 496.031 808.668 346.218 332.061 348.301 252.262 532.098 776.569 296.022 601.963 478.261 666.667 324.569 +ZMAT1 121.518 341.431 1298.18 1771.49 237.514 184.918 25.6942 79.5554 910.676999999999 29.8541 444.02 704.49 13.009 611.642 253.661 459.76 879.963999999999 875.667 967.818 23.7069 +ZMAT2 825.648 1311.37 1671.46 1227.73 2732.25 1613.32 1756.32 1478.91 2248.41 2145.93 2158.4 2556.43 2727.94 1627.18 2323.79 2175.76 1819.72 1774.22 2549.68 1288.36 +ZMAT3 197.406 178.365 81.1732 103.021 15.0891 71.801 56.7758 66.6361 41.7548 47.6774 159.669 75.8495 66.1765 77.6137 41.9186 59.2044 79.8751 52.6316 69.0627 66.8103 +ZMAT4 0 0 13.0351 25.5616 1.1177 0.4011 5.8019 6.7996 19.0275 0 11.4504 0 0.5656 1.9307 4.8368 2.7752 19.6341 0 2.8189 0 +ZMAT5 913.535 303.978 324.592 790.55 291.55 160.698 515.284 296.877 318.409 568.8 346.762 343.034 421.635 368.445 308.37 261.693 738.661 1068.22 590.984 390.767 +ZMIZ1 722.381999999999 3774.26 2535.92 4714.18 596.3 2589.25 1354.75 4452.38 2158.03 2248.41 4262.72 5484.83 1290.16 2931.56 3168.61 5127.66 828.202 2210.53 1951.14 1080.17 +ZMIZ2 874.64 2963.36 3644.5 3789.31 2018.59 1426.39 2347.29 676.561 3739.96 2304.56 2097.33 1768.2 567.308 2254.27 1481.66 1021.28 1860.33 2756.67 1894.76 1296.12 +ZMPSTE24 1552.35 1112.47 2166.79 868.319 1612.86 1579.62 1196.85 1657.74 2044.93 1506.52 1445.29 1417.48 1945.14 1429.48 2583.9 1989.82 1161.54 1369.18 1932.35 1995.26 +ZMYM1 135.927 182.794 149.904 249.419 163.745 202.166 167.012 125.453 153.805 296.313 121.501 128.034 112.557 153.683 144.028 113.784 109.326 101.449 148.931 181.897 +ZMYM2 1525.94 2256.34 1417.27 1855.15 724.837 401.123 636.552 1259.97 874.736 640.749 954.835000000001 1029.13 591.063 1140.26 926.508 627.197 717.091 662.09 2012.22 1057.33 +ZMYM3 2979.83 1274.33 3493.41 4233.15 1041.15 1077.82 716.121 1221.21 2234.67 728.083 2767.18 1273.66 779.977 1294.33 1445.65 2429.23 1615.35 1598.78 2902.04 811.207 +ZMYM4 717.099 1031.14 804.029 1147.17 725.396 625.351 849.979 938.005 692.389 1229.81 749.364 483.01 582.014 690.414 750.235 799.26 514.949 706.331 747.475 891.379 +ZMYM5 409.702 322.104 216.857 444.617 255.398 160.449 206.797 504.191 226.744 174.669 274.809 261.529 145.362 249.059 310.627 169.288 255.243 257.818 540.287 265.086 +ZMYM6 777.627 479.138 578.338 816.437 687.394 561.572 307.091 560.631 698.731 298.095 674.3 498.793 427.602 640.216 759.371 478.261 611.343 544.622 591.027 561.638 +ZMYND10 1.4409 4.4289 7.7026 43.3772 3.912 0.8022 12.0182 6.1196 8.9852 33.8643 5.7252 24.2718 9.6154 8.495 10.2109 4.6253 100.848 11.4416 1.4094 6.8966 +ZMYND11 880.884 3071.26 1363.35 1317.58 1056.8 1531.49 808.537 1512.23 854.123 1089.01 1209.92 2214.81 459.842 1375.42 977.563 1481.04 963.409 1458.43 1415.08 1456.03 +ZMYND12 16.3305 24.5605 55.6955 68.9388 58.68 19.2539 4.1442 18.3589 49.1543 10.2484 20.3562 102.549 22.6244 45.1781 19.347 70.3053 51.3164 100.686 141.884 15.5172 +ZMYND15 68.2037 11.6763 46.8079 206.042 22.3543 43.7224 179.445 30.2582 34.8837 71.7389 42.6209 71.6019 35.6335 15.4455 32.7825 56.4292 47.3003 92.296 12.2152 5.1724 +ZMYND17 89.3372 138.505 98.3558 108.443 87.1816 132.772 113.966 52.017 69.2389 120.753 134.86 109.83 101.244 69.1186 112.32 119.334 79.4288 97.6354 46.9814 71.1207 +ZMYND19 744.957 274.191 339.505 1383.42 279.428 479.342 829.258 566.067 576.639 1118.41 387.405 431.432 973.416 608.167 771.194 404.255 1405.18 502.67 234.907 429.31 +ZMYND8 3022.09 1439.81 2628.35 4420.6 1621.24 1173.69 824.699 1716.9 1922.3 647.432 2347.33 2615.9 524.887 5488.95 3187.96 2807.59 2543.95 2604.12 1695.09 967.672 +ZNF100 175.312 96.6313 143.979 554.609 230.249 200.562 106.092 298.163 489.429 83.7696 444.656 166.262 100.679 241.722 146.715 164.662 136.992 157.895 197.792 228.448 +ZNF101 71.0855 65.2261 101.318 116.189 61.4742 94.6651 69.6229 55.7568 133.721 44.1127 107.506 100.121 100.679 96.1483 90.2862 89.7317 60.6872 99.9237 38.055 96.5517 +ZNF107 184.438 285.062 218.634 458.559 153.686 231.047 98.218 244.106 288.584 118.525 213.74 109.83 146.493 363.356 234.851 119.334 199.464 237.986 506.93 393.966 +ZNF10 332.853 260.904 219.819 807.901 171.569 198.155 121.84 555.528 137.949 187.59 628.257 342.84 153.846 251.592 491.2 288.622 238.286 494.279 354.71 201.724 +ZNF114 4.8031 32.6131 76.4331 159.566 2.2354 70.1966 5.3875 60.8565 100.423 65.9463 99.2366 3.6408 72.9638 105.802 49.9798 3.7003 161.535 3.0511 28.1889 22.4138 +ZNF117 2071.03 478.212 1565.36 3354.76 4629.56 1423.13 523.8 1073.3 1255.8 107.305 1582.69 1891.86 222.285 4190.74 549.209 3224.78 687.626 622.426 1327.68 1685.77 +ZNF121 37.9443 32.2104 66.3605 25.5616 28.5017 47.7337 13.2615 55.7568 47.0402 20.4968 31.1705 41.8689 34.5023 52.1286 40.8437 12.951 27.22 48.8177 10.8057 46.9828 +ZNF124 19.2123 34.2236 10.6651 2.3238 9.5006 10.0281 41.4422 9.5194 7.9281 21.8336 8.2697 24.2718 8.4842 20.4653 12.898 5.5504 9.3708 10.6789 9.8661 23.2759 +ZNF12 519.212 661.924 1209.3 804.028 628.155 464.902 725.653 534.449 959.302 514.649 666.667 754.854 346.719 1044.5 885.664 536.54 943.329 807.018 1134.6 549.569 +ZNF131 314.121 415.112 578.877 1309.84 302.341 411.151 551.596 892.108 681.29 539.156 664.758 473.908 444.005 692.345 919.522 441.258 702.811 628.528 597.134 551.724 +ZNF132 55.2354 145.35 244.112 232.378 206.218 102.286 70.0373 295.783 195.56 19.6057 307.252 177.791 151.018 191.138 281.07 209.066 176.261 145.69 123.561 105.172 +ZNF133 298.271 166.689 347.8 1045.7 474.469 245.487 302.114 394.377 379.493 219.673 836.514 329.49 394.231 636.741 489.587 490.287 248.55 823.799 184.637 122.845 +ZNF134 38.1124 262.233 215.417 157.777 178.275 222.282 112.308 293.199 317.918 124.763 246.819 231.814 154.412 287.275 325.17 177.789 131.232 128.978 132.995 240.948 +ZNF135 6.7243 407.865 66.3605 381.875 196.159 11.2314 99.4613 228.127 137.421 81.0961 253.181 181.432 3.9593 264.504 201.532 300.647 177.599 150.267 37.5852 87.5 +ZNF136 371.278 177.963 289.735 489.543 267.134 274.769 139.246 558.587 387.421 64.6096 483.461 246.359 222.285 473.019 441.22 331.175 285.587 306.636 174.771 408.621 +ZNF137 23.5351 18.1184 24.2927 127.808 19.56 58.564 29.8384 45.2174 97.2516 95.3548 78.8804 62.5 27.7149 72.5939 64.4901 41.6281 53.5475 99.9237 29.5983 31.8966 +ZNF138 165.226 146.558 460.969 421.379 163.745 345.367 145.876 421.916 383.721 125.654 489.822 140.777 263.575 368.375 580.948 251.619 365.908 277.651 497.534 169.828 +ZNF140 436.599 505.704 705.673 1683.19 331.961 335.74 555.74 855.39 507.4 397.906 1049.62 558.859 275.452 625.157 1085.05 790.934 655.957 815.408 867.747 349.569 +ZNF141 79.731 45.8999 35.5503 219.21 26.2663 49.7393 41.0278 121.373 59.1966 31.1908 71.883 87.3786 44.1176 56.7622 30.6328 64.7549 42.3918 54.9199 85.5062 41.8103 +ZNF142 487.032 438.867 426.603 461.658 369.404 942.238000000001 326.564 377.038 399.577 439.345 346.056 233.617 464.932 363.356 274.62 407.956 254.949 373.76 247.592 406.034 +ZNF143 1123.92 370.42 138.054 215.337 193.364 230.245 264.816 255.325 181.29 416.62 190.204 185.68 151.018 206.197 124.681 172.063 214.636 239.512 197.322 305.603 +ZNF146 712.296000000001 1258.62 1615.17 2014.72 923.231 1104.69 1144.22 2325.12 1883.19 1740.45 1659.67 1344.05 769.796 1849.21 2628.51 1315.45 1511.83 1067.89 907.681999999999 990.085999999999 +ZNF14 201.729 138.907 104.873 324.555 182.187 164.46 61.3344 303.262 269.556 77.9771 328.88 229.369 173.643 263.346 227.328 169.288 215.083 163.234 140.005 159.914 +ZNF148 1227.19 2699.23 788.623999999999 535.244 592.388 687.124 552.839 1272.89 532.77 838.142 615.776 1128.03 889.14 677.672 736.8 841.813 762.606 488.177 953.254 1523.71 +ZNF154 79.2507 128.439 4.1475 28.66 55.3268 17.6494 9.1173 15.2991 6.3425 25.8438 42.6209 17.5971 59.9548 69.1186 4.2993 65.6799 9.3708 72.4638 16.4435 48.2759 +ZNF155 722.891 136.456 312.842 466.367 191.129 202.84 162.453 405.967 249.445 167.539 186.215 235.57 251.697 388.454 384.356 281.221 228.867 323.417 195.913 123.009 +ZNF157 0.9606 4.4289 0 0.7746 1.1177 0.8022 0.8288 1.0199 0 0 1.9084 0 0.5656 1.5446 0 0.9251 2.6774 3.0511 0 0.8621 +ZNF160 645.053 1028.72 1983.11 2333.08 2995.47 1924.19 309.159 1156.95 2656.45 477.665 1856.23 732.403 916.855 2168.55 2351.2 1449.58 842.035 1523.26 1074.47 1672.84 +ZNF165 42.8242 24.1578 30.4784 37.1108 47.6481 83.0205 12.0182 33.3351 69.7886 45.142 267.15 48.7197 46.6968 82.6103 31.6055 51.8039 35.5154 53.3944 106.404 41.0086 +ZNF167 62.9203 105.087 75.2481 88.3036 107.859 32.8921 87.0286 92.4746 57.611 40.1025 83.3333 69.7816 86.5385 54.0593 10.7484 104.533 60.241 131.198 86.9157 60.3448 +ZNF16 139.769 159.039 206.784 374.903 171.569 164.46 226.274 346.1 173.89 389.885 477.735 251.214 173.643 373.781 326.75 250.694 396.252 344.012 154.099 211.207 +ZNF169 51.8732 46.3025 36.7353 61.9675 23.472 52.9483 36.8835 47.9372 43.8689 28.9629 19.7201 84.3447 13.009 50.584 38.1567 29.6022 77.6439 42.7155 19.7322 50.431 +ZNF174 209.894 307.207 343.06 435.322 168.216 184.517 235.806 298.163 459.831 166.648 368.957 375 228.507 384.593 367.056 332.1 414.101 275.362 324.172 234.483 +ZNF175 71.5658 126.829 176.566 257.165 99.4765 116.326 96.5603 288.983 172.304 123.872 213.74 197.815 96.7195 212.762 205.294 185.939 126.283 212.052 94.4327 106.897 +ZNF17 60.5187 74.4866 111.983 378.002 99.4765 133.975 81.6411 259.405 172.833 100.256 185.751 151.699 129.525 177.237 144.565 160.962 143.24 170.862 93.9629 120.69 +ZNF177 97.5024 48.6176 217.295 958.172000000001 58.1211 82.6314 46.0008 122.097 173.346 20.4968 270.846 169.903 52.6018 228.98 231.562 117.484 115.493 100.686 134.25 89.7026 +ZNF180 657.061 134.881 264.257 348.567 188.894 237.064 90.7584 374.998 252.643 146.597 298.346 180.218 130.656 306.979 288.593 176.688 188.755 157.132 194.033 206.035 +ZNF181 517.291 222.655 415.346 418.28 318.548 385.88 128.885 414.776 387.421 118.525 469.466 439.927 167.421 617.048 677.684 384.829 350.29 383.677 274.841 159.914 +ZNF182 230.975 111.017 183.084 541.441 89.4171 121.941 184.003 80.5481 333.409 118.048 325.064 241.505 49.7738 236.675 125.218 236.818 203.842 215.866 143.914 102.155 +ZNF184 308.357 156.623 93.0233 75.1356 100.594 249.097 154.579 148.911 404.863 127.437 174.936 71.6019 243.213 149.821 113.933 124.884 162.874 122.044 136.716 158.621 +ZNF185 102.305 1829.96 23.1077 264.911 748.868 34.4966 118.939 13.2592 39.6406 305.224 24.173 862.864 33.9367 32.8217 23.109 2012.03 38.822 64.0732 168.194 33.1897 +ZNF18 408.261 128.036 235.817 202.169 201.188 113.518 198.923 172.03 198.732 94.018 187.023 266.384 109.728 194.227 218.192 306.198 120.482 312.738 238.196 64.6552 +ZNF187 182.997 289.894 221.004 362.51 333.637 371.039 171.985 297.823 303.383 238.833 499.364 202.063 332.014 254.465 155.851 451.434 165.105 286.041 341.085 517.241 +ZNF189 2157.54 698.966 1978.37 23568.6 1142.86 1953.87 351.015 3676.21 4001.06 358.694 1842.24 1133.5 1003.39 2362.78 3671.64 1301.57 1563.59 1081.62 3456.42 994.828 +ZNF192 63.8809 387.733 207.377 55.7707 92.2114 188.528 33.5682 310.062 213.002 49.0141 138.677 191.748 13.009 158.316 69.3269 140.611 85.2298 83.9054 171.952 264.224 +ZNF193 189.241 103.879 108.428 321.456 302.9 323.305 140.903 170.67 269.027 185.363 296.438 112.864 356.335 100.396 111.783 215.541 154.842 226.545 192.154 308.621 +ZNF195 222.863 147.363 191.379 328.428 136.361 178.5 161.625 196.849 209.302 318.146 188.931 131.068 198.529 201.178 124.144 132.285 195.002 145.69 229.739 195.259 +ZNF197 243.516 691.719 318.768 565.453 353.197 342.96 291.753 419.196 357.822 233.04 631.043 417.476 336.538 359.494 372.968 492.137 207.05 283.753 407.799 328.017 +ZNF19 119.597 39.0592 58.735 78.8459 32.9725 23.5299 52.4244 66.6089 80.1956 37.8746 60.3181 74.7816 53.1674 81.2125 114.653 55.3839 107.876 82.2197 21.0571 51.7241 +ZNF200 399.616 107.905 295.66 565.453 164.304 267.148 219.229 253.965 394.292 241.06 276.718 180.218 223.982 286.128 379.417 213.691 313.253 260.107 243.364 261.207 +ZNF202 356.868 221.447 204.414 343.145 171.569 281.588 233.32 147.551 198.203 238.387 178.753 139.563 196.833 207.742 123.069 120.259 195.002 297.483 115.574 250.431 +ZNF204P 195.965 128.036 47.9929 7.7459 337.549 2.8079 4.5586 3.3998 127.378 49.4597 179.389 71.6019 91.629 122.019 3.2245 36.0777 93.7082 28.9855 67.6533 19.8276 +ZNF205 382.238 292.511 284.361 1207.23 183.786 105.038 506.37 186.669 457.463 246.84 483.422 461.08 614.253 518.15 31.7076 430.102 312.445 687.986 210.43 249.095 +ZNF20 182.498 101.451 89.4682 205.105 149.975 140.794 64.6415 140.976 164.234 61.4905 191.234 146.845 124.434 187.516 93.5107 129.713 109.772 149.512 62.4853 185 +ZNF207 2512.97 1776.41 2240.85 1615.8 2153.83 2515.44 2157.89 2567.53 2179.18 2305 2514.63 2291.26 1931.56 2138.43 2643.02 2291.4 2375.28 1919.15 2459.01 3593.1 +ZNF208 3.3622 51.9393 0 6.1967 5.5886 2.0056 14.9192 3.0598 8.9852 0.4456 389.313 97.0874 1.6968 8.1089 4.2993 30.5273 4.0161 266.972 5.168 0.8621 +ZNF211 194.356 203.61 359.313 1573.44 249.809 199.699 113.137 389.821 398.256 162.638 763.995 209.327 167.986 537.901 379.385 465.134 303.396 336.316 253.192 284.914 +ZNF212 269.452 396.188 523.182 580.17 347.609 417.168 675.922 577.286 593.552 426.869 246.819 380.461 320.701 516.652 568.588 294.172 738.063 398.169 450.552 197.845 +ZNF213 848.703 780.7 949.193 1277.3 369.963 380.265 654.787 553.828 799.154 382.31 577.608 754.248 355.204 861.473 733.038 1135.06 624.721 1139.59 492.365 359.914 +ZNF214 14.8895 20.9368 30.2177 25.5616 15.648 4.8135 5.3875 31.2782 18.4989 20.9424 17.1756 27.3058 1.1312 32.4356 23.109 37.9278 27.6662 19.8322 16.9133 0.431 +ZNF215 39.8655 31.0025 220.412 102.246 62.5919 40.5134 6.6308 53.0369 118.922 2.2279 64.8855 20.0243 4.5249 13.1287 4.8368 18.5014 37.4833 5.3394 138.125 0.8621 +ZNF217 245.917 451.349 204.414 393.493 657.774 73.0044 682.553 199.908 157.505 998.997 400.127 629.248 48.0769 384.593 115.545 790.934 153.949 365.37 185.577 253.879 +ZNF219 1860.23 686.485 6022.81 4356.31 1079.15 2861.61 504.351 4918.15 2510.04 970.926 4701.65 1629.25 2303.17 3185.64 2713.96 2154.49 4120.48 2681.92 3985.91 1434.05 +ZNF221 32.1806 26.171 39.6978 30.9837 10.0594 18.4517 12.8471 44.5374 26.4271 6.6837 31.8066 18.2039 13.5747 61.3959 33.8573 14.8011 5.801 51.106 6.1076 15.0862 +ZNF222 105 52.9459 80.7169 146.948 86.5837 116.205 79.7886 112.873 114.693 38.7657 158.537 99.1808 124.378 137.689 184.872 112.859 40.1606 83.1426 58.257 61.6552 +ZNF223 72.9011 85.6475 97.9647 167.095 90.3168 125.255 65.6361 191.409 163.319 57.4802 168.002 94.7573 117.24 140.099 112.858 135.985 73.1816 100.686 117.454 65.7974 +ZNF224 426.345 121.373 343.149 775.229 193.7 160.381 107.377 202.02 292.949 121.359 478.899 244.83 163.331 345.682 181.642 278.048 155.377 275.965 92.1024 175.823 +ZNF225 127.281 66.434 128.573 188.226 102.271 89.8516 46.0008 115.253 113.108 42.3304 131.043 93.4466 50.3394 131.287 95.6604 93.432 52.2088 100.686 71.4118 69.3966 +ZNF226 1656.1 376.057 584.21 834.237 779.046000000001 578.821 314.546 827.512 705.602 213.434 788.168 604.369 710.973 1004.34 743.786 402.405 456.493 463.005 722.575 331.897 +ZNF22 205.226 189.413 411.103 887.08 396.492 297.698 473.896 974.804999999999 572.463 713.869 341.05 299.248 472.851 356.424 44.0683 439.769 297.947 708.101 277.284 21.7845 +ZNF227 644.572 172.318 389.276 389.62 326.931 374.645 195.462 470.111 500.439 228.584 499.364 292.124 290.158 557.969 542.249 324.699 295.35 399.535 307.738 160.776 +ZNF229 736.792 246.812 344.245 538.342 253.162 447.653 101.948 579.666 415.433 192.046 568.702 291.869 211.538 471.474 556.227 322.849 213.298 227.307 260.747 232.328 +ZNF230 166.667 98.6444 143.979 277.304 111.213 116.326 88.6863 247.506 210.359 87.7799 344.148 200.85 123.303 228.207 200.457 176.688 111.557 243.326 69.5325 96.5517 +ZNF232 126.321 100.658 89.4682 215.337 90.5348 111.913 149.192 74.4557 143.235 105.158 105.598 192.961 104.638 97.6928 95.6604 134.135 85.2298 138.062 70.0023 51.7241 +ZNF233 203.17 53.5498 18.3676 69.7134 106.183 48.937 8.7029 57.4567 26.4271 19.6057 55.9796 54.6117 45.8145 63.3266 22.5715 16.6512 11.1557 50.3432 37.1153 23.2759 +ZNF234 413.545 157.429 213.302 206.042 198.953 281.99 105.678 276.744 179.175 98.4739 356.234 288.228 161.199 362.197 221.953 198.89 105.756 212.815 152.22 186.207 +ZNF235 172.911 48.7263 50.3629 135.554 87.7405 112.72 47.3891 82.3568 70.9144 47.6774 78.2443 93.1917 54.8643 126.267 46.7607 61.0546 36.6444 84.0656 84.5572 32.7586 +ZNF236 1004.32 305.596 133.314 347.792 55.3268 107.1 131.372 155.031 143.763 150.607 77.6081 164.442 45.2489 120.861 51.0547 126.734 111.557 178.49 82.6873 167.241 +ZNF23 285.303 177.556 504.737 750.744 201.747 136.919 122.876 309.409 491.686 214.326 413.601 510.777 117.647 564.796 517.351 512.609 440.094 524.188 230.763 101.724 +ZNF238 489.433 512.146 248.26 675.445 131.331 202.567 165.354 207.388 244.715 194.72 317.43 293.689 214.932 393.474 303.641 371.878 226.238 394.356 458.069 390.948 +ZNF239 22.5744 198.094 33.1803 85.2053 68.1805 66.9876 13.6759 125.113 29.5983 161.747 73.1552 47.3301 53.733 93.0592 87.0617 51.8039 47.3003 89.2449 26.7794 84.0517 +ZNF24 2520.17 1297.68 1342.62 1554.61 929.378999999999 1134.38 1148.78 1770.28 1396.41 851.955 1173.03 1115.9 1081.45 1779.71 1159.21 1188.71 1115.13 1485.13 2392.76 2445.69 +ZNF248 383.766 369.615 180.714 457.785 150.891 206.177 171.156 313.462 244.715 177.342 294.529 188.107 120.475 148.663 134.354 179.464 153.057 324.18 121.212 154.31 +ZNF250 210.596 166.19 205.344 556.654 157.145 225.66 110.655 464.923 203.272 269.123 438.766 257.555 293.637 325.719 141.851 154.986 434.627 288.383 82.5511 209.728 +ZNF251 559.078 323.715 366.76 1009.3 269.369 312.876 268.131 456.593 191.332 535.145 686.387 375.607 109.728 282.267 303.641 446.808 249.888 463.005 76.1099 246.121 +ZNF25 409.222 1136.22 284.995 395.817 265.457 227.437 180.274 388.257 267.442 85.9975 353.69 761.529 93.8914 356.405 300.416 299.723 200.803 476.735 204.369 175.862 +ZNF252 518.252 531.875 294.475 405.887 470.557 693.542 258.599 568.447 336.152 426.423 433.206 1277.91 327.489 547.929 290.743 293.247 456.046 489.702 788.818 222.845 +ZNF253 103.746 105.087 214.487 279.628 145.303 225.431 58.4335 265.185 282.77 51.6876 347.328 197.209 167.421 278.791 267.097 241.443 179.384 171.625 198.732 175.862 +ZNF254 216.143 124.735 399.585 237.8 241.309 297.016 121.72 538.638 706.126 78.4761 510.738 311.25 142.302 425.724 344.479 384.727 188.755 332.273 296.335 253.336 +ZNF256 36.9837 98.2418 75.8406 225.407 79.3577 173.285 85.7853 210.108 224.101 87.7799 249.364 137.743 118.213 159.475 172.511 121.184 105.756 112.891 71.8816 125.431 +ZNF257 17.2911 37.042 0 31.7583 11.736 0.4011 2.4865 74.4557 57.0825 8.0205 99.2366 18.8107 2.2624 2.3168 1.0748 30.5273 1.3387 19.8322 38.5248 27.1552 +ZNF259 403.458 568.917 499.482 158.792 477.822 482.551 738.5 516.43 551.797 1455.27 548.982 438.714 528.28 330.534 740.024 259.019 452.03 464.531 582.57 486.207 +ZNF260 186.359 321.299 486.447 562.355 418.025 496.189 330.294 600.405 575.053 328.395 712.468 545.51 317.873 578.434 656.187 639.223 320.839 487.414 303.97 528.448 +ZNF263 892.464 650.622 1155.1 2025.02 601.894 465.303 622.18 969.335 1551.15 588.17 1259.95 1076.46 668.959 1664.28 1994.89 899.573999999999 1223.9 1125.91 987.503 442.603 +ZNF264 349.183 463.428 927.27 934.16 510.236 800.241 341.069 1392.22 826.638999999999 478.111 1261.45 623.786 453.054 1218.26 885.664 1086.03 642.57 909.23 419.544 860.345 +ZNF266 953.89 269.762 715.153 1256.39 585.123 671.881 500.207 1221.55 1053.91 208.978 1840.97 539.442 511.878 930.592 793.229 958.372 840.25 1630.82 395.584 860.776000000001 +ZNF267 68.2037 129.647 166.494 138.652 102.271 79.4224 257.77 101.314 353.065 186.699 168.575 211.772 67.3077 147.118 126.293 226.642 110.665 254.767 148.461 149.138 +ZNF26 137.848 249.631 263.665 479.473 162.068 137.986 450.062 277.084 239.429 248.19 230.28 186.286 136.312 129.356 283.219 259.945 311.914 219.68 295.043 190.086 +ZNF268 256.484 562.475 517.849 448.49 350.962 148.817 295.897 435.855 263.742 188.927 325.305 250 142.534 280.12 624.479 413.506 257.028 175.439 645.525 330.603 +ZNF271 979.347 516.172 420.086 631.294 370.522 467.308 723.166 444.354 643.763 362.705 257.634 625.607 699.661 548.316 548.703 499.538 524.766 315.027 669.955 964.654999999999 +ZNF273 50.9126 91.7997 108.428 246.321 41.9143 114.721 116.453 181.549 235.729 68.6198 119.593 64.3204 75.7919 276.861 115.545 120.259 174.922 94.5843 91.6138 78.0172 +ZNF274 281.46 505.704 308.695 1215.34 743.838 756.518 423.539 1174.63 918.605 469.645 1385.5 985.437 316.742 1070.37 1052.8 949.121 531.459 722.349 429.41 693.534 +ZNF275 14582.1 4589.99 8946.23 47299 3993.03 6942.24 263.987 13358.8 19238.4 372.953 29610.7 10297.9 4332.58 18167.4 11234.7 8064.75 5984.38 15614 25238 1954.74 +ZNF2 109.99 89.7866 134.499 82.8815 135.802 109.908 111.065 116.953 79.2812 94.4636 101.781 67.3544 131.787 122.792 133.817 111.933 78.9826 144.165 137.186 117.672 +ZNF276 1249.82 356.718 847.329 2535.1 387.131 323.847 454.753 345.457 568.139 1004.66 506.858 831.214 379.649 682.471 675.475 342.081 649.978 772.365 163.444 325.987 +ZNF277 236.311 492.82 763.739 244.772 340.903 368.231 362.619 326.381 478.33 368.052 302.163 365.898 243.213 519.741 803.439 382.979 443.552 200.61 465.116 200.431 +ZNF280A 12.488 91.3971 12.4426 57.3199 0 2.8079 2.4865 0 7.9281 0 24.173 0.6068 0 10.0396 3.2245 24.9769 4.0161 60.2593 33.8266 434.483 +ZNF280B 296.35 217.018 247.075 130.132 73.7691 81.0269 4.9731 90.4347 306.554 109.168 80.7888 62.5 200.226 203.881 131.667 148.011 360.553 334.096 298.802 493.966 +ZNF280C 25.9366 62.0051 183.084 177.382 29.6194 112.716 64.2354 95.1945 87.7378 188.036 125.954 65.534 60.5204 124.722 80.6127 90.6568 216.421 68.6499 124.501 115.948 +ZNF280D 318.948 819.876 812.751 1049.35 429.873 495.142 263.684 716.403 621.184 678.543 740.07 382.785 330.373 981.987 826.774 463.099 385.337 1024.34 857.797 484.595 +ZNF281 18.2517 177.963 109.613 46.4756 48.0617 83.4336 95.317 108.454 87.7378 80.6506 55.9796 80.7039 20.9276 98.8512 60.7282 36.0777 28.1124 74.7521 83.1572 106.897 +ZNF282 716.138 810.495 841.357 862.122 602.447 760.529 1187.73 1301.44 796.512 1048.9 480.28 639.563 690.611 849.503 1258.09 529.14 1025.44 628.528 477.801 443.966 +ZNF283 108.069 45.8999 24.2927 71.2626 29.0605 89.8516 33.1538 56.0967 63.4249 36.9834 75.6997 45.5097 27.7149 63.7127 73.6262 38.8529 44.1767 41.1899 28.6587 45.6897 +ZNF284 43.5255 48.6337 12.6974 102.688 15.3406 28.0947 17.0286 35.3579 35.4123 21.388 47.5064 33.0036 17.4321 33.8218 11.8232 34.2276 11.602 27.46 13.1548 45.3879 +ZNF285 314.601 60.3946 76.4331 96.0496 71.5337 97.874 36.0547 110.154 89.852 62.3816 115.776 114.078 62.7828 147.891 134.892 111.933 96.8318 148.741 95.8421 43.1034 +ZNF286A 268.972 126.426 247.075 223.083 153.127 166.065 191.048 185.629 188.161 102.484 211.196 256.675 126.131 215.465 168.212 235.893 164.212 162.471 183.697 101.293 +ZNF286B 32.1806 8.8579 12.4426 13.1681 19.0011 4.0112 7.0452 16.999 22.1987 12.4763 17.8117 29.1262 10.181 13.901 9.6735 34.2276 11.1557 13.73 13.1548 10.3448 +ZNF287 125.841 134.076 249.445 266.46 153.686 108.704 128.056 208.068 169.662 52.5788 174.936 404.126 139.706 268.366 204.219 298.797 320.393 154.081 214.705 63.7931 +ZNF28 71.0855 297.544 298.03 173.509 183.864 398.716 128.885 234.926 334.567 172.886 203.562 287.621 143.1 324.742 330.512 157.262 159.304 154.081 371.153 266.81 +ZNF292 543.708 664.34 728.188 698.683 509.677 257.922 408.206 483.792 882.135 361.368 650.763 398.665 272.059 412.781 253.661 500.462 514.949 448.513 764.388 497.845 +ZNF295 581.652 455.778 810.547 281.952 330.284 319.294 262.329 707.499 747.886 422.413 389.949 389.563 396.493 429.771 816.875 449.584 715.752 644.546 531.83 326.724 +ZNF296 12.0077 6.8447 36.7353 126.259 22.9131 12.4348 6.6308 27.8784 61.3108 72.1845 40.7125 15.1699 29.4118 41.3167 56.9663 54.5791 94.1544 45.0038 8.4567 7.7586 +ZNF300 113.833 225.473 7.1101 116.189 15.0891 74.2078 274.762 88.3949 75.0529 42.3304 178.753 106.189 50.3394 130.128 19.347 325.624 66.4882 135.011 10.8057 200.862 +ZNF302 592.219 415.112 1159.53 2035.63 953.968000000001 951.464 583.092 1576.49 933.404 595.299 1024.17 942.961000000001 576.923 1482 1549.91 1010.18 1131.19 1172.39 583.979 405.172 +ZNF304 157.541 321.702 390.461 841.208 223.543 539.511 138.002 607.545 392.706 151.498 732.824 317.354 298.642 595.038 442.295 419.981 333.333 696.415 243.364 401.724 +ZNF30 95.5812 79.7208 105.466 208.366 155.362 158.845 58.4335 154.011 107.822 69.0654 137.405 137.743 64.4796 212.762 165.525 129.51 152.61 90.7704 81.2779 64.2241 +ZNF311 40.8261 89.7866 26.0702 90.6274 65.3862 73.0044 1.6577 28.2184 115.222 20.0512 75.0636 37.0146 96.7195 49.0395 47.2928 83.2562 70.5042 39.6644 62.4853 2.5862 +ZNF317 477.426 595.893 856.762 1163.44 518.06 821.901 620.39 1167.15 1062.37 382.756 900.127 926.578 538.462 1017.86 1189.31 702.128 858.098999999999 770.404 474.982 706.034 +ZNF318 341.499 868.474 584.802 494.19 394.553 664.26 704.103 334.541 864.693 290.966 555.343 395.631 290.158 347.138 314.927 385.754 304.328 380.625 569.415 640.948 +ZNF319 692.123 386.928 834.247 832.688 224.66 342.158 310.402 638.823 589.323 375.627 480.916 459.952 286.199 880.008 680.908 753.006 628.291 567.506 314.776 246.983 +ZNF320 225.744 514.562 319.36 459.334 193.923 479.743 262.743 388.937 852.009 290.966 350.509 611.65 148.19 640.216 304.178 416.281 513.61 349.352 298.802 342.241 +ZNF321 11.0471 31.079 13.0351 23.2378 35.9792 48.4156 39.3701 33.998 50.814 47.6774 49.6183 50.0728 32.2398 52.1286 22.0341 21.4246 39.2682 35.8505 15.0763 30.2457 +ZNF322A 714.697 730.774 559.324 411.309 516.384 562.375 334.024 824.792 808.139 555.197 817.43 341.019 334.276 625.929 465.941 598.52 407.407 519.451 951.844 726.724 +ZNF322B 27.8578 38.2499 26.6627 21.6886 26.2663 32.0899 11.1894 48.2772 25.37 41.8848 33.715 18.8107 33.9367 15.4455 25.2586 45.3284 12.0482 15.2555 67.6533 36.6379 +ZNF323 50.4323 56.3683 87.0982 74.361 114.007 85.8404 24.0365 100.974 214.588 101.147 157.125 75.8495 66.1765 76.0691 79.0004 178.538 471.664 80.8543 275.781 64.6552 +ZNF324 68.684 201.718 356.688 321.456 150.891 252.708 142.976 497.051 282.241 156.845 343.512 223.301 256.787 404.672 405.75 159.112 342.704 246.377 93.0233 140.948 +ZNF324B 48.9914 108.308 181.306 151.82 97.2411 91.4561 96.5603 233.226 231.501 78.4226 146.947 154.126 96.1538 182.643 197.232 75.8557 201.696 108.314 43.2229 84.9138 +ZNF326 308.357 178.365 491.779 791.634 203.983 434.416 219.229 492.971 396.406 544.948 416.031 227.548 182.127 347.91 428.322 309.898 443.998 405.797 420.014 206.035 +ZNF32 879.923 1058.52 648.793 1626.65 565.563 862.415 652.3 970.984 599.894 807.842 1646.31 1606.8 959.842 781.543 711.004 1159.11 556.894 1263.16 661.968 398.707 +ZNF329 89.3372 325.728 279.662 340.046 336.432 267.148 238.707 319.241 487.315 168.876 466.921 425.971 228.507 540.593 552.465 401.48 346.274 239.512 279.07 279.741 +ZNF330 665.226 917.996999999999 734.706 695.585 767.869 736.462 714.049 810.853000000001 887.421 380.082 666.667 1881.67 847.285 1825.27 1054.41 1100.83 1099.51 888.635 1256.75 849.138 +ZNF331 1655.62 527.848 394.608 1081.33 347.05 319.695 431.828 2098.7 569.767 1196.84 802.163 526.092 173.077 537.504 476.152 373.728 410.977 721.587 396.993 325.862 +ZNF333 196.446 572.54 357.28 503.486 105.065 159.246 156.237 307.002 193.975 49.9053 284.351 296.116 67.3077 284.197 230.015 233.118 232.039 280.702 113.695 215.086 +ZNF334 228.146 128.439 64.583 315.26 279.428 60.1685 61.3344 466.113 12.685 3.1191 459.288 202.67 238.122 89.5839 2.6871 560.592 237.84 493.516 53.5588 271.983 +ZNF335 815.082 727.956 434.306 786.987 352.639 498.997 650.642 660.242 255.814 615.796 720.102 418.082 596.154 679.988 557.84 519.889 550.647 690.313 345.314 481.897 +ZNF337 560.658 193.971 412.099 841.703999999999 580.445 252.21 190.841 510.246 430.079 251.006 757.144 667.027 449.621 732.692 488.599 459.13 634.07 584.928 184.524 692.224 +ZNF33A 992.795 1432.96 526.144 632.068 575.063 1042.52 205.139 1127.03 568.71 418.403 1041.35 1036.41 308.824 937.542 511.084 572.618 467.202 795.576 552.972 726.724 +ZNF33B 957.733000000001 1387.06 268.997 270.333 357.668 378.66 63.821 811.193 226.744 348 538.168 399.272 184.955 610.097 234.314 339.5 302.543 305.873 354.71 221.121 +ZNF341 102.305 112.334 93.6158 178.931 197.835 128.359 152.922 141.432 86.6808 129.219 270.992 105.582 217.195 167.198 100.497 181.314 138.777 271.548 121.212 114.224 +ZNF343 327.089 149.779 218.042 274.206 400.7 116.326 176.958 292.723 211.417 127.437 288.168 263.349 152.715 357.95 325.138 153.561 173.583 272.311 219.403 66.3793 +ZNF345 47.5504 41.4709 87.0982 133.23 76.5634 49.7393 55.947 93.1546 110.465 58.817 99.8728 91.0194 34.5023 85.7226 58.0411 92.5069 72.2892 55.6827 17.8529 41.3793 +ZNF346 710.375 341.833 444.971 599.535 367.728 519.856 313.303 569.807 444.503 394.341 620.229 405.947 953.62 428.613 529.356 443.108 600.178 265.446 444.444 315.517 +ZNF347 39.8655 232.318 129.166 170.411 194.482 190.132 45.172 99.2742 242.072 89.1166 168.575 99.5146 69.5701 164.881 202.069 152.636 97.7242 128.909 108.057 126.724 +ZNF34 699.328 52.7446 71.1006 388.846 148.656 45.728 99.8757 261.105 149.049 180.016 234.733 189.32 123.303 181.485 135.967 164.662 224.9 171.625 76.5798 114.224 +ZNF350 129.203 174.339 215.672 367.932 181.07 192.138 165.354 254.305 393.763 180.016 388.677 226.942 212.104 381.118 359.532 221.092 285.141 234.935 197.792 261.207 +ZNF354A 426.993 250.034 178.344 632.843 59.2388 133.173 131.372 211.128 266.385 290.966 410.305 132.282 108.032 323.583 210.668 239.593 230.254 154.844 141.414 115.086 +ZNF354B 142.651 94.2155 85.9132 411.309 53.0914 80.2246 38.9557 58.8166 57.611 91.3445 133.588 89.8058 34.5023 93.4453 76.8507 47.1785 81.2137 108.314 70.4722 52.5862 +ZNF354C 0.4803 61.1998 2.9625 12.3935 3.3531 8.0225 5.3875 33.658 11.0994 5.7926 27.9898 44.9029 3.3937 33.9801 8.5987 24.9769 16.0643 17.5439 1.4094 23.2759 +ZNF35 138.809 177.157 133.906 139.427 51.4148 110.71 152.922 102.334 108.351 66.3919 178.117 114.684 184.389 94.6037 120.919 171.138 103.525 125.095 130.139 145.259 +ZNF358 1170.03 1488.52 1821.95 4096.82 1697.25 1318.09 2462.08 3783.3 2126.85 1046.23 2382.95 2042.48 1523.19 2295.59 3030.5 3827.94 1979.03 2160.95 433.169 1152.59 +ZNF362 779.059 666.756 434.306 879.938 217.954 359.406 1143.8 720.418 454.017 908.544 371.501 325.849 732.466 257.94 704.555 629.047 337.349 489.702 336.857 310.345 +ZNF365 1.9212 198.094 81.7657 79.7831 0 1.2034 371.736 381.118 48.6258 6.2382 126.59 29.733 1.6968 170.673 72.014 65.6799 265.06 4.5767 42.7531 0.8621 +ZNF366 2.8818 32.6131 7.1101 12.3935 18.4423 21.2595 9.1173 41.8176 5.814 1.7823 5.7252 12.7427 1.6968 5.0198 5.3742 15.7262 2.2311 9.1533 14.5642 3.4483 +ZNF367 79.731 243.189 90.0607 390.395 34.6491 634.978 254.041 242.406 708.245 473.655 182.57 245.146 428.167 88.4255 375.655 151.711 1137.88 70.1754 193.094 1480.6 +ZNF3 525.884 580.223 605.09 769.171 564.239 557.914 508.91 740.708 699.144 430.473 384.542 567.925 336.476 832.965 729.034 424.607 874.101 569.657 570.115 305.172 +ZNF37A 327.57 681.653 325.285 660.728 252.603 749.298 213.842 257.365 306.025 317.701 448.473 454.49 138.575 423.979 268.709 222.942 210.174 218.917 225.041 323.707 +ZNF37B 575.408 464.635 121.463 747.483 188.894 347.373 144.633 315.842 149.049 176.005 270.992 330.704 69.0045 303.89 74.1636 187.789 131.638 250.953 84.0968 305.603 +ZNF382 39.3852 69.6551 13.6276 79.7831 44.1497 64.5808 33.1538 76.8355 47.0402 12.9219 75.6997 108.617 28.8462 119.703 22.0341 79.556 39.2682 80.8543 31.0078 96.5517 +ZNF383 49.952 65.6288 100.726 128.583 90.5348 115.523 60.0912 103.694 88.2664 73.0756 133.588 80.0971 57.1267 105.416 87.5991 56.4292 54.44 95.3471 46.0418 56.0345 +ZNF384 1767.05 2331.63 1507.92 2930.29 915.407 980.746 1795.28 1664.88 1372.09 1137.57 1655.85 1004.85 946.266999999999 1355.73 1679.97 1310.82 1407.85 1312.74 719.286 939.224 +ZNF385A 209.894 3205.34 1637.68 1677.77 205.1 381.468 898.881 306.322 726.744 781.998 4673.66 1063.11 436.652 1810.99 486.363 509.713 9634.98 5980.17 9661.72999999999 1302.16 +ZNF385B 7.6849 3.221 81.1732 6.9713 1124.98 0.8022 72.1094 8.8395 127.378 0 105.598 227.548 2.2624 276.861 49.9798 584.644 112.896 50.3432 59.6664 209.914 +ZNF385D 1.9212 2.8184 3.555 0.7746 15.0891 0 14.0903 0 1.5856 0.8912 0 11.5291 2.2624 4.2475 5.3742 7.4006 0.4462 12.9672 0 0 +ZNF389 53.3141 16.9105 1.7775 22.4632 28.5017 9.2258 3.3154 21.4188 10.5708 3.1191 26.0814 23.665 15.2715 9.6534 9.1361 8.3256 14.2793 16.7811 11.2755 16.3793 +ZNF391 9.1258 41.4709 27.2552 26.3362 15.648 29.282 5.3875 28.2184 32.7696 11.5852 11.4504 15.7767 11.3122 27.8019 16.1225 24.0518 14.7256 7.6278 26.3096 30.6034 +ZNF394 407.781 383.304 444.971 720.372 586.241 424.789 546.208 675.881 591.438 579.258 528.626 458.738 301.471 743.315 708.317 314.524 654.619 668.955 490.486 200 +ZNF395 1585.97 995.705 1951.66 1456.24 1443.49 834.396 2033.15 1537.05 2367.34 810.961 2277.59 1753.03 592.76 773.048 605.132 1048.1 1457.83 1112.01 1144 1064.66 +ZNF396 21.1335 16.5078 13.6276 23.2378 25.1486 17.6494 14.5048 19.3789 17.4419 8.9117 10.1781 29.1262 14.1403 30.891 15.5851 24.0518 17.8492 16.7811 17.8529 40.0862 +ZNF397 170.509 219.2 244.704 87.529 145.862 141.195 101.948 232.207 272.199 40.1025 78.2443 232.403 138.009 205.626 253.575 133.848 169.121 192.22 224.101 202.586 +ZNF397OS 195.485 346.093 171.234 429.899 121.272 142.399 217.571 278.104 237.315 103.821 129.135 221.481 167.986 253.878 144.651 196.401 186.524 256.293 263.566 443.534 +ZNF398 341.499 374.446 596.06 384.198 327.49 433.614 346.871 316.182 678.118 316.81 377.226 348.301 174.208 477.652 569.663 222.017 589.469 524.79 433.639 246.121 +ZNF404 1120.08 93.0076 127.981 1127.03 58.1211 156.839 68.3796 250.225 330.867 62.8272 456.107 69.1748 126.131 360.653 322.451 444.958 288.264 341.724 106.178 46.9828 +ZNF407 297.791 359.146 152.274 130.906 187.776 171.681 318.69 242.066 184.461 161.301 130.407 185.073 178.167 159.475 173.586 128.585 150.826 133.486 189.805 171.121 +ZNF408 250.72 200.913 181.899 404.338 293.959 303.65 519.685 273.684 248.943 406.817 244.275 205.097 493.778 244.425 230.015 241.443 276.662 265.446 156.448 185.345 +ZNF410 966.311 1014.74 1172.47 1465.44 807.855 1172.54 938.446 1072.35 1148.36 1000.37 764.434 499.957 1293.27 694.588 1511 578.807 1401.42 616.728 1084.2 824.547 +ZNF414 459.654 308.415 351.948 535.244 319.107 310.469 326.564 759.176 481.501 158.182 590.331 348.908 375 462.979 376.192 464.385 514.503 337.147 217.054 521.983 +ZNF415 335.255 494.833 251.815 571.65 1083.62 736.462 160.381 268.924 692.389 147.488 610.687 473.301 283.371 678.444 144.565 610.546 48.639 564.455 599.483 341.379 +ZNF416 77.8098 109.918 185.454 206.816 117.36 161.653 90.344 201.948 234.672 90.0078 321.883 152.306 170.815 287.286 213.355 184.089 167.336 168.574 116.984 109.052 +ZNF417 34.5821 126.426 119.686 198.296 61.4742 120.337 52.2172 134.292 135.835 47.6774 174.3 142.597 85.4072 191.524 146.715 159.112 132.084 96.8726 43.6927 128.017 +ZNF41 92.6993 166.286 261.295 356.313 45.2674 96.2696 159.967 172.71 232.03 209.424 195.929 219.66 30.543 206.197 122.531 213.691 136.992 151.792 209.067 51.7241 +ZNF418 61.9597 92.2024 2.37 113.091 46.944 133.574 29.424 65.9562 64.482 40.5481 145.038 88.5922 93.8914 99.2374 104.796 64.7549 87.461 102.212 24.9002 83.1897 +ZNF419 101.825 162.26 393.423 903.95 215.719 245.086 145.876 301.223 439.218 139.468 678.117 276.699 248.869 396.95 421.336 235.893 294.065 330.282 206.249 204.741 +ZNF420 59.0778 103.073 167.086 57.3199 118.478 111.512 46.0008 114.233 229.915 75.3036 150.127 155.34 41.8552 195.772 187.559 100.833 85.676 93.0587 120.272 81.0345 +ZNF423 112.392 120.386 488.817 465.531 335.314 46.1292 43.5143 1688 507.4 13.8131 1317.43 154.733 66.1765 364.514 303.104 481.961 294.065 530.892 279.54 59.0517 +ZNF425 37.9443 175.547 80.5807 43.3772 92.2114 137.184 34.8114 121.373 49.1543 56.1435 62.341 36.4078 32.2398 59.0791 193.47 50.8788 41.9456 162.471 62.9551 39.6552 +ZNF426 23.5351 97.0339 51.5479 58.0945 41.3554 63.3775 32.7393 153.671 84.0381 16.4866 81.4249 72.2087 31.1086 105.802 104.259 67.5301 37.037 35.8505 49.8003 102.586 +ZNF428 2435.42 638.242 877.417 2866.46 589.94 818.66 694.496 1165.72 1228.87 828.045 1730.55 1153.09 967.613 970.252 1209.48 1309.91 1052.78 934.447 289.232 558.034 +ZNF429 38.9049 107.502 167.086 166.538 86.0639 83.0325 33.5682 112.194 227.801 18.7145 68.7023 181.432 41.8552 159.089 233.777 157.262 116.912 99.9237 193.094 64.2241 +ZNF430 45.6292 96.2287 128.573 73.5864 60.3565 103.49 35.6403 196.849 395.877 18.7145 89.6947 72.8155 28.8462 103.871 117.157 63.8298 51.3164 41.1899 95.8421 127.586 +ZNF431 190.202 111.126 68.7306 120.837 374.434 127.958 41.4422 128.512 504.757 57.0346 143.766 115.898 81.448 97.6928 66.6398 105.458 75.4128 65.5988 162.556 124.569 +ZNF432 40.3458 108.308 271.96 473.276 43.032 210.189 33.1538 155.031 354.123 42.3304 449.109 178.398 41.2896 294.623 246.137 129.51 67.3806 198.322 93.9629 146.983 +ZNF433 46.1095 58.784 10.0726 112.316 72.6514 48.937 48.9018 71.3958 7.9281 23.1703 101.145 101.942 84.8416 80.3166 9.6735 106.383 5.3548 68.6499 22.5511 93.5345 +ZNF434 350.144 201.718 516.072 816.421 162.068 196.55 199.751 410.016 497.357 180.016 442.748 392.597 182.127 520.9 452.506 425.532 395.359 430.206 456.19 271.983 +ZNF436 667.488 308.326 360 1488.57 478.689 621.167 559.548 532.494 496.808 263.491 445.293 472.706 140.837 303.118 237.109 454.209 206.252 2302.2 292.685 199.569 +ZNF43 298.271 260.099 283.81 678.544 310.724 425.592 144.633 796.234 724.63 69.0654 815.522 437.5 295.249 649.097 427.247 639.223 270.415 163.234 456.19 478.879 +ZNF438 49.952 225.07 75.8406 107.668 239.75 180.505 300.87 125.793 84.5666 305.224 164.122 263.956 112.557 210.445 133.28 181.314 117.358 155.606 77.9892 100 +ZNF439 217.099 130.05 10.6651 687.064 283.899 253.51 32.3249 9.8594 12.1564 46.7862 260.178 91.6262 132.353 231.297 4.2993 98.9824 18.7416 173.913 75.1703 74.1379 +ZNF440 89.3372 121.192 125.019 474.051 98.3588 173.686 65.8931 177.13 172.304 105.158 312.341 242.112 58.2579 267.207 82.2249 273.82 32.5747 200.61 79.8685 209.914 +ZNF441 206.052 214.602 363.205 560.031 208.453 174.89 78.3257 469.853 399.577 43.2216 445.929 385.922 125 596.197 253.661 278.446 174.03 199.847 139.065 203.448 +ZNF442 24.0154 58.3814 34.3653 99.1479 35.208 14.4404 16.1625 47.5972 75.5814 10.694 74.4275 81.3107 40.1584 59.8513 16.1225 37.9278 34.8059 31.2738 23.9605 9.0517 +ZNF443 141.21 112.334 47.9929 240.899 60.9154 74.6089 30.6672 105.394 60.7822 20.9424 163.486 66.1408 50.905 113.525 58.0411 123.034 61.5797 102.212 34.7663 106.034 +ZNF444 469.26 395.383 741.223 1749.03 1275.87 619.334 531.289 1394.6 1003.7 735.212 1327.61 569.782 1530.54 712.038 740.024 794.635 1074.97 1174.68 468.875 731.897 +ZNF44 183.468 252.482 215.672 491.867 214.042 226.635 99.8757 246.101 306.459 91.7901 273.193 220.898 237.579 280.849 253.661 123.025 225.448 152.555 89.2647 245.694 +ZNF445 382.325 755.737 388.091 482.572 178.834 247.894 406.962 426.675 270.613 265.568 494.275 556.432 227.941 279.564 250.437 651.249 261.49 577.422 190.275 342.241 +ZNF446 248.132 205.414 663.048 880.418 349.28 403.767 237.024 670.876 704.302 313.076 627.964 388.647 551.482 877.316 814.107 388.298 751.999 797.635 141.593 273.185 +ZNF449 590.788 278.491 414.339 373.393 179.952 220.489 100.854 160.562 334.693 52.1332 287.462 326.286 108.999 515.312 222.846 288.742 391.397 300.595 483.157 340.759 +ZNF451 947.152 530.357 488.224 463.981 1123.3 568.793 341.484 655.516 797.04 645.65 1030.88 435.68 471.154 638.884 416.499 666.05 495.315 582.197 1333.8 798.707 +ZNF454 15.8501 5.6368 2.37 96.0496 2.2354 0.8022 5.8019 40.4576 6.871 0 73.1552 12.1359 5.6561 8.495 4.2993 40.7031 36.5908 12.2044 4.2283 0.431 +ZNF45 592.699 210.978 303.363 406.661 152.568 356.599 153.336 394.377 399.577 153.726 347.328 237.864 226.81 356.405 311.165 260.87 211.066 203.661 201.081 291.379 +ZNF460 17.2911 49.9262 56.8805 33.3075 21.7954 48.1348 39.7845 77.5155 62.8964 29.4085 24.8092 21.2379 26.5837 32.0494 81.1501 31.4524 24.0964 22.8833 22.5511 50.8621 +ZNF461 48.0307 93.0076 144.571 325.329 65.9451 129.964 89.5151 130.892 180.761 72.6301 185.751 167.476 69.0045 220.099 162.3 150.786 117.805 218.917 77.9892 105.172 +ZNF462 349.183 625.285 491.779 472.502 139.155 638.989 92.8305 783.314 489.958 258.438 377.863 201.456 332.014 683.85 893.188 284.921 626.952 179.252 337.797 652.155 +ZNF467 110.951 214.199 282.032 1701.01 64.2685 589.25 206.797 648.342 221.987 102.484 711.196 919.296 46.3801 714.355 377.805 810.361 334.672 293.669 534.649 37.5 +ZNF468 95.1009 242.786 543.327 166.538 197.835 462.495 182.76 271.644 460.888 153.726 213.74 289.442 168.552 493.098 375.118 205.365 248.996 293.669 431.29 307.328 +ZNF469 469.26 1087.1 145.756 989.156 211.248 660.249 523 3364.1 241.015 44.5583 246.819 981.189 865.385 496.187 1985.22 117.484 514.056 48.0549 27.7191 125.862 +ZNF470 107.589 166.286 808.177 452.363 70.4159 138.387 76.2536 363.099 411.734 127.437 424.3 275.485 70.1357 356.791 289.668 353.377 228.469 152.555 185.107 208.621 +ZNF471 80.6916 254.06 318.768 1203.72 138.596 84.637 33.1538 227.787 342.495 45.4495 417.303 557.646 53.733 375.326 276.77 561.517 170.46 224.256 135.776 179.741 +ZNF473 119.116 212.992 296.252 433.772 272.163 522.262 175.715 403.217 560.782 180.016 515.267 236.65 392.534 428.999 692.194 169.288 403.391 277.651 217.994 249.569 +ZNF474 0.9606 1.6105 4.1475 13.1681 0 1.6045 11.6038 2.0399 6.3425 4.0102 3.1807 0.6068 0.5656 4.6337 11.2858 2.7752 4.0161 0.7628 5.168 3.8793 +ZNF479 0 0 0 0 0 0 0.8288 0 0.5285 0 0 0 0 0 0 0 0 0 0 0 +ZNF480 197.887 198.899 371.5 516.654 253.721 403.53 144.633 458.633 371.565 280.717 907.761 548.544 261.878 511.632 448.206 541.166 328.871 564.455 284.707 287.069 +ZNF48 57.6369 147.765 337.728 328.428 80.4754 127.958 151.264 223.367 254.228 103.821 188.931 336.772 90.4977 261.801 212.817 213.691 303.882 247.14 74.2307 112.5 +ZNF483 24.0154 29.392 17.1826 100.697 43.5908 4.4124 4.5586 63.5763 59.1966 6.6837 81.4249 104.369 1.6968 100.782 28.4831 42.5532 175.368 67.8871 101.48 15.5172 +ZNF484 36.9837 41.4709 52.7329 78.2339 44.7085 57.3606 44.3431 74.1157 73.9958 57.0346 34.3511 54.0049 36.7647 71.8216 69.8643 44.4033 124.052 35.8505 39.4644 56.4655 +ZNF485 67.7233 69.2524 31.9953 49.574 22.3543 41.7168 29.424 30.5982 24.8414 57.9258 52.1628 52.1845 23.7557 69.1186 45.6805 28.6772 22.3115 61.0221 30.5379 23.7069 +ZNF486 6.7243 21.3394 1.185 7.7459 16.7657 24.8696 18.649 6.1196 31.1839 3.5647 15.2672 12.7427 6.2217 28.188 6.449 14.8011 8.4784 3.0511 16.4435 40.9483 +ZNF487 24.976 36.6394 18.3676 33.3075 25.1486 33.6943 18.649 66.6361 28.5412 39.6569 19.7201 23.0583 12.4434 52.5147 30.6328 27.7521 29.4511 51.8688 15.9737 30.6034 +ZNF488 2.4015 128.439 8.8876 5.4222 6.7063 10.4292 2.901 14.6191 1.5856 194.274 1.2723 1.2136 2.8281 19.693 11.2858 7.4006 7.1397 1.5256 0.9396 12.069 +ZNF490 124.4 199.705 205.007 190.55 297.871 142.399 158.724 325.701 253.7 119.416 356.234 217.233 194.005 315.474 299.879 235.893 272.646 253.242 151.28 169.828 +ZNF491 33.6215 37.042 56.8805 204.493 38.0023 68.1909 6.2163 23.4586 23.2558 9.3572 68.0662 76.4563 28.2805 143.643 25.2586 77.7058 4.0161 93.8215 25.8398 70.6897 +ZNF492 0.4803 4.0263 0 23.2378 6.1474 0.4011 2.4865 34.338 66.5962 0.8912 26.7176 9.7087 0.5656 2.3168 30.0954 16.6512 0 0.7628 0 0 +ZNF493 233.429 88.5787 119.686 561.58 157.598 168.071 63.4065 145.851 323.467 31.1908 308.524 316.748 82.0136 210.059 153.164 206.291 150.379 232.647 175.711 132.759 +ZNF496 120.557 504.093 198.489 110.767 70.4159 280.385 169.499 172.71 120.507 112.287 104.962 87.3786 264.14 109.277 218.729 61.0546 139.224 68.6499 72.8212 193.535 +ZNF497 15.1681 52.6157 88.4906 272.858 76.8596 46.9635 19.2996 192.279 146.105 42.4329 134.428 69.7148 72.1154 107.875 226.172 115.708 119.406 95.9573 16.8475 25.2328 +ZNF498 247.358 434.036 652.348 785.438 278.87 261.933 425.197 499.771 540.698 189.373 251.908 328.884 154.977 494.642 429.397 254.394 547.077 303.585 387.597 196.983 +ZNF500 214.217 242.786 279.662 213.013 166.539 162.455 188.976 315.162 343.023 114.96 201.018 309.466 151.584 323.969 293.43 103.608 279.786 155.606 143.763 170.259 +ZNF501 27.8578 117.165 5.3325 82.8815 22.3543 68.9932 95.7315 49.6371 113.108 9.8028 68.7023 74.6359 49.2081 66.4157 88.6739 103.608 65.1495 45.7666 11.7454 59.4828 +ZNF502 113.353 209.368 190.787 236.251 92.7702 107.902 162.868 133.612 212.474 4.9014 221.374 263.349 141.968 196.158 232.702 224.792 216.421 163.234 154.099 172.414 +ZNF503 1817.96 1425.4 2136.93 891.433 242.924 1427.34 879.644 749.361 986.184 1074.18 2404.15 2010.92 1042.42 1107.75 584.173 3529.84 1102.93 758.566 224.101 1982.85 +ZNF506 281.46 215.81 21.3302 575.523 209.012 327.317 205.139 583.406 474.101 74.4124 557.252 288.835 244.91 426.682 658.337 448.659 360.553 361.556 226.92 325 +ZNF507 183.958 667.561 494.741 768.397 563.886 537.906 409.449 723.478 508.457 405.926 424.936 425.364 305.43 539.82 400.914 421.832 504.685 392.83 313.836 361.638 +ZNF510 266.571 258.489 232.854 1312.94 195.041 269.956 160.796 316.862 407.505 148.825 277.354 308.252 186.086 579.207 489.587 271.97 496.207 225.782 240.075 283.19 +ZNF511 1096.38 481.969 494.818 816.886 484.562 778.692 677.012 656.203 532.188 1117.6 867.207 674.545 657.851 458.226 364.686 654.699 548.179 872.601 462.405 889.948 +ZNF512 760.5 520.601 108.428 355.538 728.749 442.9 561.127 520.51 237.954 574.802 452.926 347.087 419.762 295.009 392.315 555.042 379.741 462.365 286.587 553.668 +ZNF512B 1487.6 1783.19 609.599 957.281 671.198 446.245 1173.8 1323.08 713.515 620.372 1114.6 1196.05 1108.67 825.794 1010.24 611.989 880.103 702.799 612.506 659.129 +ZNF513 1210.37 418.333 386.313 1237.8 354.874 282.391 589.308 556.888 323.996 482.121 437.023 246.966 752.828 286.128 386.941 537.465 395.805 512.586 396.054 838.362 +ZNF514 661.864 241.981 93.0233 1216.89 79.3577 107.1 100.29 61.1964 57.611 164.866 110.687 186.893 39.5928 75.2968 69.3269 86.0315 118.251 102.212 42.7531 148.276 +ZNF516 209.414 68.0445 199.674 134.779 251.486 245.888 171.571 318.221 125.793 168.876 113.232 157.767 266.968 165.267 149.402 141.536 250.781 96.8726 194.033 234.483 +ZNF517 496.158 177.56 207.377 513.555 2937.91 167.669 150.435 479.032 309.197 226.356 335.878 447.815 283.937 539.82 182.185 178.538 380.187 343.249 203.43 243.965 +ZNF518A 836.215 615.219 676.048 2766.85 414.113 689.13 144.633 659.562 364.693 185.808 644.402 453.277 208.145 423.593 310.627 792.784 405.623 1160.18 357.529 1163.79 +ZNF518B 255.524 408.267 571.767 978.311 345.373 591.657 45.172 1047.14 409.62 194.274 659.669 112.257 376.131 796.988 425.635 954.672 713.074 636.918 679.352 349.138 +ZNF519 40.3458 47.913 10.6651 34.8567 6.1474 42.9202 44.3431 40.7976 38.055 11.1396 13.3588 21.8447 18.6652 17.3762 20.9593 32.3774 18.7416 28.9855 12.2152 43.9655 +ZNF521 1032.66 1892.77 1058.21 457.785 468.322 297.633 691.256 526.969 416.49 7.1293 163.486 106.189 1581.45 919.78 1129.11 506.013 902.722 360.031 366.455 1628.45 +ZNF524 342.94 235.136 475.781 846.63 335.873 379.462 412.764 218.607 587.209 542.72 660.942 576.456 452.489 439.811 547.629 528.215 445.337 534.706 149.871 152.155 +ZNF525 108.549 258.489 319.36 342.37 144.744 325.712 48.0729 190.389 368.393 148.379 228.371 194.782 123.869 272.999 380.492 189.639 349.844 232.647 156.448 137.931 +ZNF526 124.88 235.136 328.248 432.223 271.046 369.033 261.086 404.577 357.822 355.575 358.142 267.597 335.407 387.682 424.56 325.624 270.415 425.629 138.595 189.224 +ZNF527 81.6523 95.4234 141.016 242.448 99.4765 134.777 67.5508 147.551 223.573 76.6403 244.275 160.801 97.8507 221.643 212.28 146.161 116.02 142.639 101.01 100 +ZNF528 134.966 223.46 285.587 214.562 102.271 173.686 245.338 201.948 425.476 105.603 461.832 189.32 173.643 262.96 365.444 311.748 145.024 302.822 204.369 214.224 +ZNF529 238.713 291.102 216.264 799.38 329.725 407.14 219.229 539.076 434.989 245.071 653.944 635.801 256.787 637.444 547.629 474.561 354.752 426.392 211.417 557.328 +ZNF530 20.1729 69.6551 79.9881 172.665 28.5017 96.0289 45.0435 79.297 175.301 44.7633 142.557 108.119 86.5385 119.919 147.177 76.8455 78.4739 57.7727 68.3533 105.603 +ZNF532 847.743 1049.66 393.423 738.188 145.862 180.104 740.572 599.045 162.262 520.887 255.725 348.908 82.5792 390.771 77.3881 278.446 282.017 193.745 268.264 36.6379 +ZNF534 7.6849 3.221 10.0726 6.9713 5.0297 5.2146 6.2163 2.7198 14.2706 11.5852 12.7226 8.4951 7.3529 2.3168 9.6735 11.1008 6.2472 13.73 5.168 5.6034 +ZNF536 281.46 5.6368 52.1404 274.206 1.1177 151.223 0 145.512 265.328 0 201.018 29.1262 86.5385 42.089 89.2113 11.1008 254.351 166.285 57.3174 257.328 +ZNF540 134.006 166.226 71.071 501.549 136.92 149.619 23.2076 287.304 312.495 26.2894 485.299 283.459 148.19 263.755 222.201 155.143 279.491 287.963 84.5666 132.03 +ZNF541 9.6061 17.3131 83.5432 216.112 265.457 69.7954 5.3875 22.4387 15.8562 5.7926 40.0763 32.1602 14.1403 60.6236 91.8984 87.8816 51.3164 19.0694 22.0813 11.2069 +ZNF542 181.556 289.894 112.576 237.026 282.223 224.228 87.443 632.363 100.951 127.882 625.954 453.277 218.326 692.345 130.055 549.491 370.817 439.359 368.804 456.897 +ZNF543 48.9914 122.4 133.906 127.808 88.8582 177.296 63.4065 147.891 188.161 47.6774 140.585 122.573 140.272 130.514 141.341 126.734 125.391 114.416 67.6533 136.638 +ZNF544 226.225 293.985 735.891 919.543 493.331 659.342 217.986 424.163 512.458 596.377 568.76 520.595 425.713 842.332 587.21 333.488 475.016 227.452 404.228 454.595 +ZNF546 206.532 44.2893 98.3558 185.902 125.184 60.9707 25.6942 95.1945 35.9408 57.0346 91.6031 117.112 52.6018 131.287 64.4901 116.559 92.3695 96.1098 57.3174 49.569 +ZNF547 52.1278 21.8387 145.904 655.244 28.6191 150.357 30.1119 108.923 131.39 26.6637 237.99 76.7718 105.413 183.338 142.362 106.975 111.124 297.986 51.6984 58.806 +ZNF548 109.51 227.889 247.667 899.303 201.747 230.245 154.579 411.036 325.053 249.081 276.718 229.976 148.19 241.336 254.199 242.368 258.813 199.847 167.724 356.034 +ZNF549 91.7387 183.6 204.414 322.231 116.242 162.455 92.0017 209.499 238.901 89.1166 295.165 179.612 87.1041 211.217 232.702 190.564 192.325 198.322 129.669 165.086 +ZNF550 71.0855 190.847 124.426 305.964 121.831 251.103 78.3257 188.958 293.869 139.913 247.456 277.306 208.145 309.682 630.391 151.711 231.147 237.986 65.774 209.052 +ZNF551 46.926 86.1629 46.2154 54.9961 41.9143 77.0156 35.2839 82.6152 77.167 53.7373 59.1603 50.4126 46.9457 105.416 74.1636 51.8039 52.9942 56.1404 27.1976 83.1681 +ZNF552 26.4169 69.2524 54.5104 36.4059 77.1222 97.4729 57.1902 31.9581 32.241 80.6506 46.4377 69.1748 76.3575 46.7227 9.6735 22.2017 31.6823 38.1388 29.5983 68.9655 +ZNF554 31.22 121.594 158.791 345.469 224.101 154.833 80.3978 124.093 330.338 37.8746 284.351 333.131 139.706 206.197 237.539 195.19 180.723 176.201 80.3383 213.362 +ZNF555 44.6686 66.8366 87.6907 137.878 338.108 77.4168 40.6133 75.4756 142.178 25.8438 150.127 101.942 107.466 107.346 135.429 93.432 76.7515 46.5294 36.1757 98.7069 +ZNF556 0 0 0.5925 0.7746 1.1177 0.8022 1.6577 0 0.5285 0 1.9084 0 0.5656 0.7723 0.5374 0 0 0.7628 0.4698 0 +ZNF557 183.958 117.971 295.66 222.308 159.833 238.668 102.362 242.406 294.397 90.4534 279.898 182.039 207.579 328.989 253.124 178.538 311.468 281.464 105.238 147.414 +ZNF558 562.92 323.312 535.624 610.38 308.489 371.841 132.615 502.831 273.784 129.665 423.664 419.296 158.937 547.543 321.913 335.8 224.453 464.531 198.732 378.448 +ZNF559 526.897 360.858 183.831 493.416 372.199 238.668 291.753 599.341 476.76 171.549 384.37 359.223 268.099 528.622 382.168 271.97 279.866 226.545 140.592 528.832 +ZNF560 84.0538 91.3971 0 320.682 0.5589 187.325 7.0452 296.803 123.15 0 333.333 11.5291 13.5747 0.7723 263.335 206.291 4.9085 95.3471 6.1076 261.207 +ZNF561 469.26 482.351 920.16 1056.55 637.655 624.95 274.347 897.208 902.22 233.931 950.382 570.995 403.281 1004.73 1490.8 876.041 543.061 657.513 396.993 437.931 +ZNF562 220.941 262.918 358.465 370.256 249.25 364.621 195.193 373.978 442.918 163.529 307.888 323.422 276.018 349.841 501.411 194.265 307.898 347.826 229.739 312.5 +ZNF563 77.3295 85.3576 77.6181 87.529 85.5051 66.9876 60.5056 82.6152 114.165 19.6057 133.588 167.476 179.299 145.188 23.6464 91.5819 53.5475 80.8543 50.74 76.7241 +ZNF564 181.556 255.268 219.819 471.727 380.022 214.2 135.101 317.541 270.085 102.93 360.687 402.306 285.634 276.861 365.444 217.391 248.55 173.913 147.052 216.379 +ZNF565 32.6609 43.8907 85.9132 81.3323 46.944 65.7842 56.3614 105.394 92.4947 40.1025 108.142 66.7476 49.2081 110.435 154.776 63.8298 73.6278 102.975 31.4776 59.0517 +ZNF566 116.715 125.621 317.583 381.875 171.569 221.821 143.39 521.53 288.055 143.923 518.448 301.578 153.846 463.751 361.682 418.131 257.028 282.99 160.207 210.776 +ZNF567 62.44 87.7734 136.869 247.095 87.7405 105.094 77.0825 113.553 146.406 151.944 148.855 129.248 66.1765 148.663 139.729 121.184 108.434 159.42 62.0155 104.741 +ZNF568 58.3718 122.315 64.583 96.5531 102.019 83.4336 90.2569 165.451 148.118 47.2318 143.219 123.586 66.4536 182.257 125.772 105.458 77.3003 78.749 53.5588 70.4052 +ZNF569 71.0855 121.594 121.463 274.206 197.835 194.144 67.9652 158.091 397.484 167.094 463.104 221.481 143.665 228.98 158.538 281.221 219.545 274.599 189.335 142.672 +ZNF570 18.2517 58.3814 13.6276 34.8567 36.8845 50.5415 28.5951 46.9173 94.5877 14.7042 33.715 41.2621 28.8462 59.8513 9.6735 38.8529 27.22 32.7994 27.2492 50.8621 +ZNF57 125.841 50.7314 101.911 128.583 998.677 292.419 44.3431 110.154 150.106 29.8541 126.59 152.306 417.421 193.455 127.905 75.8557 114.235 62.5477 60.1362 289.224 +ZNF571 115.274 68.0445 174.196 216.112 155.362 90.2527 44.7576 144.492 97.2516 53.0244 198.473 133.495 65.0452 151.366 159.076 159.112 102.633 228.833 81.7477 62.069 +ZNF572 96.5418 43.4841 0.5925 36.4059 19.56 31.6887 30.6672 58.4766 31.7125 62.8272 45.8015 75.8495 22.6244 40.1583 5.9116 24.9769 95.9393 57.971 1.8793 0.8621 +ZNF573 9.6061 25.3657 11.8501 18.5902 6.7063 22.864 2.4865 18.019 19.556 2.6735 8.2697 20.6311 4.5249 32.0494 7.5238 12.0259 10.2633 6.1022 10.8057 8.1897 +ZNF574 353.026 396.591 908.31 1143.3 530.355 823.907 413.593 1497.95 793.869 588.17 944.657 526.092 947.398 675.741 611.044 536.54 939.759 993.898 370.684 519.397 +ZNF575 93.6599 39.4578 40.8828 44.9264 20.6777 37.3045 50.9739 26.5185 48.0973 26.2894 36.2595 84.9515 39.5928 48.2672 87.5991 122.109 38.3757 45.7666 41.3437 16.8103 +ZNF576 587.176 278.218 495.334 497.661 347.609 447.653 269.789 491.839 750 285.619 536.145 608.331 497.172 564.919 1290.79 473.635 435.966 489.702 330.279 197.414 +ZNF577 334.294 182.392 155.236 1224.63 325.813 337.345 123.498 422.595 347.78 40.5481 400.763 228.155 187.217 339.029 516.996 412.581 203.927 277.651 45.572 283.19 +ZNF578 14.4092 117.568 17.1826 79.0085 26.2663 36.9033 103.606 122.733 313.954 50.3509 203.562 66.7476 102.941 23.5544 58.0411 302.498 95.9393 99.1609 96.7818 72.8448 +ZNF579 127.281 250.839 213.302 1075.14 195.041 190.132 405.305 614.344 347.78 401.47 614.504 332.524 404.412 274.544 289.668 566.143 340.919 429.443 81.7477 214.655 +ZNF580 416.907 301.57 458.006 1707.2 313.519 138.387 436.386 385.878 614.709 352.456 748.728 629.248 644.231 415.079 509.327 531.915 441.321 488.94 175.241 278.573 +ZNF581 139.289 392.967 379.796 875.29 380.581 460.89 368.421 644.263 523.769 469.199 521.629 371.359 739.819 551.81 1221.7 540.24 552.432 458.429 134.367 480.047 +ZNF582 32.1806 60.3946 87.0982 85.2053 66.5039 96.2696 47.6585 98.2543 100.951 14.7042 106.234 84.3447 35.6335 126.653 190.246 57.3543 64.7033 51.8688 59.1966 80.1724 +ZNF583 26.8972 86.9682 102.503 94.5004 74.3279 71.3999 69.2085 87.3749 138.478 25.3982 124.682 104.369 41.8552 133.99 133.817 86.0315 65.5957 48.0549 132.018 113.793 +ZNF584 108.549 197.691 652.94 372.579 217.395 543.522 186.904 617.744 566.596 203.631 648.219 458.131 717.76 416.642 604.058 213.691 524.766 331.045 188.865 588.362 +ZNF585A 121.037 199.302 105.466 190.55 140.273 194.946 131.786 116.273 198.203 99.365 190.204 143.811 146.493 117.386 141.341 82.3312 65.5957 97.6354 105.238 132.759 +ZNF585B 79.2507 89.3839 82.3582 136.328 74.8868 54.5527 45.5864 67.996 92.4947 35.2011 68.0662 49.1505 29.4118 56.7622 77.9256 61.9796 33.4672 64.836 27.7191 43.5345 +ZNF586 65.3218 218.226 37.9203 88.3036 144.185 91.8572 102.777 125.793 103.895 127.437 52.799 59.466 128.959 77.1773 138.116 56.4292 113.342 78.566 35.2361 171.983 +ZNF587 113.9 388.591 473.299 477.986 206.335 443.373 203.32 537.38 501.152 317.812 413.893 409.011 228.145 684.676 582.33 312.562 383.369 258.612 154.188 395.815 +ZNF589 268.972 359.146 219.227 487.219 382.258 182.11 131.372 231.526 248.414 144.369 363.232 439.32 267.534 309.296 699.718 225.717 304.328 295.195 223.162 206.035 +ZNF592 901.537 1413.23 648.2 536.019 527.561 538.708 1084.54 842.471 1004.76 954.439 1224.55 686.893 1003.96 564.533 873.841 513.413 434.627 1151.79 1105.94 501.293 +ZNF593 696.446 268.555 513.109 574.748 454.909 541.917 641.111 500.451 727.273 908.99 1075.7 509.102 917.986 462.207 900.175 453.284 485.498 666.667 455.72 265.086 +ZNF594 95.5812 90.1892 129.759 201.394 45.8262 103.49 61.3344 164.89 146.935 84.2152 109.415 155.34 53.1674 83.0196 89.7488 134.135 114.235 84.6682 54.9683 34.0517 +ZNF595 108.549 58.784 247.075 423.703 91.6525 166.466 64.2354 232.547 165.433 56.1435 203.562 158.374 98.4163 150.208 153.164 142.461 213.298 272.311 298.802 92.6724 +ZNF596 103.266 64.4209 165.309 348.567 129.096 99.0774 21.9644 157.411 128.435 33.4187 171.756 112.864 53.1674 151.752 167.674 90.6568 153.057 171.625 135.776 22.8448 +ZNF597 42.2671 5.6368 57.473 41.828 48.6205 33.6943 49.7306 58.4766 51.797 3.1191 41.3486 47.3301 33.9367 77.2275 59.1159 30.5273 36.1446 41.9527 3.2887 32.3276 +ZNF598 609.51 1349.21 1671.46 1603.41 466.087 558.764 1118.94 894.827999999999 1690.8 666.147 650.763 831.311000000001 631.222 1417.51 2009.94 518.964 1524.77 1044.24 572.234 633.19 +ZNF599 147.935 109.918 55.1029 158.792 65.9451 96.6707 88.6863 113.553 113.108 36.0922 120.865 129.248 78.6199 115.841 169.287 104.533 123.606 84.6682 29.5983 60.7759 +ZNF600 52.8338 167.494 247.667 119.287 93.8879 314.882 65.0642 108.114 284.355 177.788 191.476 154.126 214.367 317.019 163.912 130.435 126.283 183.066 101.01 184.052 +ZNF605 668.108 1005.37 299.807 1063.52 484.529 310.068 564.443 470.193 318.71 293.639 654.58 732.403 329.185 333.237 530.431 741.906 346.72 514.874 579.281 292.672 +ZNF606 216.763 256.419 332.988 724.245 278.87 326.47 125.615 450.953 316.596 174.695 524.809 371.359 188.348 423.454 514.674 486.882 379.688 414.188 155.039 226.849 +ZNF607 52.3535 107.1 216.264 319.132 82.1519 181.709 101.119 171.69 235.729 110.505 316.158 273.665 138.575 247.514 123.606 260.87 190.986 184.592 119.333 80.6034 +ZNF608 542.267 1017.04 1752.04 324.555 723.719 530.686 183.589 390.977 419.662 9.8028 112.595 324.029 118.778 696.592 291.28 958.372 791.165 235.698 225.041 649.138 +ZNF609 949.087 1507.05 399.348 390.395 625.919 592.86 854.952 1087.94 784.883999999999 888.493000000001 866.412 605.582 566.742 576.89 449.281 651.249 543.061 925.248 1010.57 980.603 +ZNF610 13.9289 74.8893 46.2154 135.554 91.0936 60.1685 72.1094 138.032 225.159 13.8131 317.43 113.471 67.3077 98.4651 148.327 220.167 61.5797 83.1426 138.125 70.6897 +ZNF611 28.8184 155.415 149.904 121.611 45.8262 93.8628 69.6229 92.8146 170.19 116.743 88.4224 83.1311 39.0271 119.317 75.2385 85.1064 115.573 68.6499 67.6533 112.931 +ZNF613 60.5187 103.073 176.566 235.476 78.7988 158.845 75.8392 129.192 208.245 89.1166 270.356 137.136 140.837 139.01 164.987 123.959 116.912 106.026 125.441 105.172 +ZNF614 100.865 154.61 229.892 333.85 99.4765 181.308 96.5603 391.997 341.966 161.747 506.361 192.961 114.253 208.514 97.2726 271.97 154.395 275.362 159.737 145.259 +ZNF615 129.203 195.276 154.644 518.977 137.479 217.008 79.569 388.937 280.655 117.188 458.651 189.32 135.181 252.92 188.634 408.881 130.299 270.023 128.729 220.69 +ZNF616 174.352 271.776 654.718 1180.48 229.131 464.902 101.948 789.434 830.867 97.1371 620.865 214.806 245.475 342.118 895.338 296.022 201.249 221.205 701.903 260.776 +ZNF618 621.998 1135.42 644.053 2768.4 144.185 1007.22 625.777 1440.16 1233.62 641.64 839.695 518.204 417.986 1397.82 632.541 550.416 2277.55 646.072 559.079 471.121 +ZNF619 4.8031 105.892 29.0327 8.5205 31.8548 32.0899 23.622 16.659 24.8414 14.7042 13.3588 32.1602 19.2308 23.9405 22.5715 20.3515 17.8492 14.4928 21.1416 25.431 +ZNF620 20.1729 56.7709 17.7751 42.6026 59.2388 70.5977 6.2163 21.0788 46.5116 20.0512 68.0662 30.9466 55.9955 43.6336 32.7825 16.6512 30.7898 43.4783 30.5379 52.1552 +ZNF621 726.705 951.818 572.36 783.889 415.789 476.133 361.376 321.621 330.867 139.468 668.575 704.49 194.57 472.246 335.886 530.065 344.043 577.422 373.972 571.983 +ZNF622 207.012 453.362 731.151 439.194 1040.59 873.245 1236.63 1365.36 1150.63 591.289 1595.42 1074.03 1026.02 916.691000000001 1046.35 758.557 958.947 515.637 1042.05 492.241 +ZNF623 503.842 418.736 190.194 377.227 215.719 216.607 146.705 479.372 239.429 337.306 250 315.534 148.756 415.484 242.375 217.391 413.208 323.417 208.128 309.483 +ZNF624 58.1172 53.9525 42.0678 32.5329 73.2102 41.3157 68.3796 46.5773 55.4968 47.2318 57.888 60.6796 25.4525 49.4256 57.5037 92.5069 58.9023 53.3944 44.1626 40.0862 +ZNF625 19.7118 19.741 13.0351 40.4415 13.2114 16.446 12.8554 27.994 19.6987 6.6837 32.0483 27.3058 22.6244 48.8001 0.5374 15.5227 9.817 7.6201 16.4435 31.3793 +ZNF626 265.13 170.715 370.315 481.797 288.37 213.799 56.7758 440.614 469.345 61.4905 609.415 405.947 169.118 422.048 550.316 438.483 263.722 311.213 363.166 142.672 +ZNF627 113.353 324.923 369.723 498.063 225.778 295.628 169.084 623.524 481.501 95.3548 506.998 459.952 246.041 401.969 521.833 333.95 344.935 212.052 170.543 304.31 +ZNF628 103.746 262.918 232.262 299.768 150.891 208.584 208.04 454.894 238.901 144.815 302.799 229.369 228.507 311.227 183.797 205.365 347.166 172.387 113.695 230.172 +ZNF629 640.73 1165.21 975.855 2518.98 832.697 673.085 725.238 1950.81 1865.22 692.436 1410.94 1853.76 1032.81 1632.98 1821.31 973.172999999999 1840.7 1234.94 1234.67 632.328 +ZNF630 62.0125 84.2585 81.7657 222.308 16.7657 37.3045 62.9921 71.423 166.591 60.1849 126.59 43.0825 23.19 118.571 28.4831 82.3312 164.297 170.862 130.928 27.1552 +ZNF638 2455.33 1356.86 1878.24 2676.22 1759.84 1499.4 1533.78 1787.62 1450.85 2825 1730.92 1103.16 1332.01 1290.86 1690.72 1704.9 1451.14 1763.54 1488.37 2333.62 +ZNF639 1118.64 1018.65 411.791 498.838 328.608 590.453 413.179 468.493 394.82 799.822 487.277 863.471 417.421 424.365 342.335 607.771 433.735 340.961 430.82 665.086 +ZNF641 765.13 821.769 193.157 257.165 134.685 416.767 66.7219 256.685 134.778 29.4085 138.041 260.922 50.905 201.564 240.763 86.0315 123.606 174.676 223.162 209.483 +ZNF642 165.226 89.3839 8.2951 81.3323 17.8834 134.777 109.822 35.3579 24.3129 94.4636 123.41 20.0243 313.348 43.2474 9.6735 95.2821 39.7144 56.4455 12.685 51.2931 +ZNF643 18.2517 32.2104 10.0726 20.1394 10.6183 33.6943 52.2172 19.0389 20.0846 18.2689 22.2646 8.4951 22.6244 28.5742 25.796 18.5014 5.3548 7.6278 8.4567 12.5 +ZNF644 562.44 558.448 405.866 377.227 375.552 304.051 464.981 657.182 559.725 1145.59 412.214 354.369 244.344 337.484 590.622 442.183 295.85 384.439 483.439 421.552 +ZNF645 0 0 0 1.5492 0 0 0 0 0.5285 0 0 0 0 0 0 0 0.4462 0 0 0 +ZNF646 236.311 449.336 754.258999999999 796.282 296.753 271.159 569.416 544.988 934.989 282.945 431.298 546.723 388.009 559.9 1105.47 604.995 625.614 523.265 244.304 252.155 +ZNF648 0 1.6105 0 0 0 0 10.775 1.0199 0 0 0 0 0.5656 0.3861 0 0 4.0161 0.7628 1.4094 0 +ZNF649 49.952 231.11 104.281 165.763 174.922 188.528 169.499 149.931 344.08 33.4187 388.041 148.058 138.575 173.762 170.899 207.215 104.864 243.326 89.7346 199.138 +ZNF652 1189.24 833.847 939.713000000001 839.659 556.621 733.253 723.166 1030.48 622.622 536.928 631.679 959.345 676.471 867.651 530.969 1049.95 659.973 669.718 566.126 994.828 +ZNF653 200.288 108.308 367.353 457.785 119.595 168.071 174.472 460.333 380.021 86.8887 369.593 191.748 184.389 330.534 306.865 190.564 394.021 240.275 113.225 278.448 +ZNF654 266.571 264.125 351.948 243.997 230.808 99.8797 178.201 131.232 301.269 199.621 251.908 404.733 133.484 161.792 146.715 187.789 194.556 209.763 295.043 200 +ZNF655 1057.16 1549.32 1088.43 958.947 907.024 564.38 1076.67 1278.67 1267.44 870.669 520.992 1361.65 342.76 1188.92 1152.76 481.961 1448.01 922.96 943.387 774.569 +ZNF658 78.2901 57.1735 24.8852 150.271 40.7965 42.1179 21.1355 59.8365 73.9958 28.5173 45.8015 108.617 57.6923 98.8512 108.021 61.9796 145.024 40.4272 49.8003 47.4138 +ZNF660 10.0865 51.1341 5.3325 5.4222 4.4709 6.0168 4.9731 12.9192 2.6427 3.1191 3.1807 8.4951 7.3529 0 0 2.7752 5.3548 3.8139 5.168 11.2069 +ZNF662 10.0865 248.02 111.983 285.825 121.272 107.902 8.7029 150.951 7.9281 22.2792 141.857 89.199 2.2624 82.6335 3.2245 16.6512 78.0901 116.705 26.7794 0.8621 +ZNF664 1703.17 3585.42 2560.21 2331.53 990.853 1273.97 1745.55 2360.82 1718.29 1420.96 1890.59 3031.55 1002.83 3330.82 1689.1 1995.37 2220.88 1999.24 2708.95 1319.83 +ZNF665 7.2046 40.6657 44.4379 27.8854 8.3829 4.0112 9.5317 20.0588 41.7548 21.8336 34.9873 27.9126 6.7873 51.3563 27.4083 24.0518 43.2842 35.0877 28.6587 29.3103 +ZNF667 97.5024 177.56 541.549 494.19 135.802 159.246 4.5586 462.033 258.985 102.038 254.453 324.029 90.4977 345.593 316.002 248.844 219.991 106.789 93.4931 119.397 +ZNF668 409.222 188.431 534.439 718.823 252.044 285.199 694.157 678.941 557.611 361.813 664.758 350.728 468.326 682.691 699.18 759.482 567.604 754.386 192.624 270.259 +ZNF669 47.0701 112.334 55.6955 67.3896 31.8548 138.789 92.4161 74.7957 68.1818 24.0615 48.9822 41.8689 163.462 101.168 103.184 64.7549 65.5957 48.8177 39.4644 93.5345 +ZNF670 20.6532 70.0577 13.0351 29.4345 25.1486 56.1452 88.2636 63.2295 36.4482 21.388 43.2443 40.6553 44.0837 56.3761 44.0683 42.5532 27.22 55.6827 37.5852 51.7155 +ZNF671 304.035 208.16 25.4777 523.625 281.105 420.377 142.147 340.66 166.49 180.907 395.674 72.2087 391.403 353.316 47.8302 273.82 74.5203 279.939 106.648 333.621 +ZNF672 748.799 745.672 715.746 824.942 511.913 1084.24 738.5 848.591 783.298 886.265 681.298 671.116 1308.26 772.275 923.284 365.402 850.067 1355.45 583.04 983.190000000001 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0 0 +ZNF680 279.539 350.288 260.702 255.616 185.54 385.88 210.941 523.909 726.744 177.788 271.628 254.854 371.606 615.117 274.62 183.164 237.84 210.526 947.146 382.759 +ZNF681 40.8261 81.734 10.6651 80.5577 39.6788 77.4168 38.5412 97.5743 366.808 21.388 242.366 43.0825 162.896 172.603 7.5238 52.729 4.9085 157.132 67.6533 206.465 +ZNF682 61.9597 57.1735 27.2552 324.555 35.7668 83.4336 53.046 161.831 224.101 28.0717 189.567 109.83 63.3484 111.208 127.368 83.2562 80.3213 38.1388 69.5325 116.81 +ZNF683 3.8425 0.8053 0 12.3935 0.5589 0 40.1989 8.1595 3.1712 60.5993 17.8117 32.1602 0 1.5446 1.0748 39.778 4.9085 11.4416 11.2755 0 +ZNF684 130.163 85.7603 69.9156 232.378 142.508 221.019 59.2623 81.9352 186.575 38.3202 188.295 80.7039 95.5882 230.91 207.443 67.5301 98.6167 174.676 116.044 122.845 +ZNF687 852.181 2496.37 721.392 485.67 684.627 1361.09 604.646 869.408 715.819 1290.09 645.674 631.675 1365.4 633.092 695.585 441.258 617.202 968.726 580.268 960.569 +ZNF688 356.868 159.039 497.704 896.979 345.932 210.59 421.882 421.575 552.854 147.934 551.527 672.937 301.471 630.949 436.378 950.045999999999 600.625 519.451 195.443 196.552 +ZNF689 44.6686 169.105 158.791 34.0821 136.92 131.97 128.056 148.571 153.805 16.4866 101.781 172.937 43.552 159.475 186.484 61.9796 125.391 61.7849 139.065 97.8448 +ZNF691 224.784 130.452 157.014 271.882 219.631 176.895 210.112 168.97 237.315 377.854 187.023 154.733 391.968 141.713 238.076 230.342 166.89 254.005 139.065 131.897 +ZNF692 928.434 364.38 299.215 927.963 388.405 411.552 351.844 359.019 191.861 663.919 552.163 288.228 373.869 308.91 327.825 189.639 410.977 728.452 117.923 421.983 +ZNF695 15.3698 31.4052 0 27.1108 0.5589 48.1468 6.639 26.8652 16.4059 28.0717 13.3715 0.6068 22.6584 6.5643 0 10.1758 17.8492 4.5767 1.4094 48.7155 +ZNF696 493.756 221.447 385.721 551.51 245.897 209.787 119.353 686.42 241.543 366.715 312.341 246.966 161.765 518.197 194.008 310.823 372.155 340.198 101.01 262.5 +ZNF69 146.974 26.171 1.185 266.46 195.6 133.975 34.397 5.7797 28.5412 31.1908 268.448 53.3981 85.4072 118.158 3.2245 26.827 2.6774 83.9054 36.1757 67.2414 +ZNF697 85.4947 411.891 106.058 109.992 62.0331 68.5921 742.644 63.2363 252.114 46.7862 129.771 127.427 222.285 140.94 115.545 119.334 70.9505 121.281 237.726 306.897 +ZNF699 7.6849 27.7815 23.7002 10.8443 3.3531 12.0337 2.901 19.0389 7.9281 0.8912 5.0891 15.1699 2.8281 30.1187 11.2858 12.0259 4.4623 5.3394 7.9868 12.931 +ZNF700 238.232 221.447 289.735 872.967 356.551 447.252 172.814 254.645 363.636 191.155 429.389 291.869 242.081 384.207 378.342 308.048 152.61 332.571 139.065 681.897 +ZNF701 33.6215 116.36 98.3558 97.5988 64.8274 119.535 58.0191 78.1955 216.702 54.8067 132.315 113.471 49.7738 195.386 157.463 119.334 66.0419 78.566 70.4722 152.155 +ZNF702P 10.0865 93.4102 17.1826 33.3075 77.6811 38.5078 9.5317 8.4995 65.5391 47.6774 138.041 42.4757 3.9593 20.8514 10.2109 146.161 4.4623 34.3249 48.8607 3.0172 +ZNF703 216.138 541.135 183.084 302.866 484.529 683.514 406.548 575.927 345.137 26.2894 1181.3 75.2427 662.33 393.088 60.7282 55.5042 390.451 401.22 321.823 670.259 +ZNF704 98.9433 163.065 120.278 122.386 56.4445 153.63 14.9192 167.61 184.461 12.4763 195.293 141.383 51.4706 239.792 177.885 49.0287 152.164 151.792 166.784 200 +ZNF705A 2.4015 0.8053 2.37 1.5492 0 0 0 0.34 2.1142 0 1.9084 0.6068 1.1312 0 0 0 0.4462 0 0.4698 0 +ZNF705D 0 0 0 0 0 0 0 0 0 0 0 0 2.8281 0 0.5374 0 0 0 0 0 +ZNF706 1356.39 713.058 892.312 1684.74 1501.65 1007.22 1162.45 1432.34 1138.48 1305.56 1991.09 1779.13 1348.98 1365.38 729.276 1997.22 1365.02 1530.13 949.025 1249.57 +ZNF707 286.743 158.636 282.032 539.117 405.73 198.957 193.949 515.41 303.383 419.739 372.137 325.243 385.181 330.534 166.062 161.887 391.789 336.384 162.556 409.483 +ZNF70 102.786 121.997 122.056 102.246 72.6514 68.5921 110.651 63.2363 158.034 121.644 44.5293 54.6117 65.6109 102.326 83.2997 28.6772 219.099 91.5332 59.6664 95.2586 +ZNF708 93.6599 72.0708 211.524 238.575 140.832 214.2 66.7219 257.025 310.254 65.9463 295.801 105.582 124.434 113.138 133.28 99.9075 93.7082 122.807 132.958 200.431 +ZNF709 110.951 101.865 88.2832 229.28 118.478 64.9819 36.0547 155.371 94.6089 26.2894 181.934 141.383 47.5113 130.128 77.3881 122.109 88.7996 128.909 56.3777 98.7069 +ZNF710 39.8655 213.797 148.719 96.0496 54.2091 138.789 108.579 169.65 127.378 97.1371 126.59 115.898 44.6833 74.5246 156.389 62.9047 152.164 228.07 241.015 103.879 +ZNF711 2784.34 2872.77 928.455 546.088 1.1177 397.112 109.822 2310.85 253.171 155.954 1196.56 33.3738 386.878 1185.06 161.225 34.2276 1950.91 2551.49 261.217 1921.12 +ZNF713 25.4083 29.1102 42.6959 24.787 12.2948 40.6137 99.8384 23.1187 48.4619 21.388 13.9949 21.0983 13.009 47.1435 41.9831 31.4524 37.9295 19.8322 23.1994 12.1336 +ZNF714 252.642 137.297 147.534 130.132 127.419 215.403 89.1007 157.411 322.939 50.3509 178.753 216.019 153.846 122.406 135.967 132.285 95.4931 57.2082 173.831 165.086 +ZNF71 55.2354 201.315 244.112 181.255 171.569 182.511 246.167 304.962 329.281 231.258 281.807 168.083 138.009 174.534 186.484 206.291 221.776 263.921 110.406 167.672 +ZNF716 0 0.8053 0 0 0 0 0 0 0 0 1.2723 0 0 0 0 0 0.8925 0.7628 0 0 +ZNF717 22.0941 107.905 15.4051 22.4632 14.5303 11.2314 1.6577 22.0987 35.9408 11.5852 9.542 70.3883 5.6561 13.1287 20.9593 20.3515 12.0482 16.7811 29.5983 22.8448 +ZNF718 22.0941 81.3313 53.9179 76.6847 22.9131 145.207 40.1989 133.612 81.3953 24.9527 64.2494 61.2864 28.8462 59.4652 60.7282 49.9537 66.0419 52.6316 64.3646 67.2414 +ZNF720 86.4553 253.255 336.543 292.796 92.7702 106.699 160.796 280.144 373.679 90.0078 180.025 333.131 54.8643 325.514 181.11 244.218 201.696 164.76 240.075 285.776 +ZNF721 396.556 241.784 458.587 1113.97 236.396 409.876 205.189 959.336 624.831 222.168 593.117 598.374 272.534 622.11 493.14 633.534 932.432 890.13 692.967 259.901 +ZNF727 1.4409 17.3131 1.185 0 0 1.2034 0 0 2.1142 0 0.6361 12.7427 0 0 0 1.8501 0 0 0 0 +ZNF732 2.4015 15.7026 5.3325 24.787 0.5589 18.4517 1.6577 9.5194 6.3425 0.8912 12.7226 12.1359 1.1312 5.7921 2.1497 17.5763 3.5698 9.9161 7.0472 6.0345 +ZNF735 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +ZNF737 318.444 248.826 346.615 536.019 456.027 320.096 93.2449 318.562 939.218 24.0615 891.221 447.815 315.045 529.395 582.561 438.483 155.288 294.432 299.742 193.965 +ZNF738 184.918 157.026 56.8805 677.769 84.3874 259.126 136.759 123.413 530.127 91.3445 439.567 137.743 172.511 103.871 60.7282 162.812 86.1223 93.8215 140.475 348.276 +ZNF740 510.567 720.708 913.642 1021.69 718.131 915.764 893.078999999999 947.525 1006.87 628.718 932.57 839.806 691.742 754.513 1147.39 503.238 979.473 691.838 706.601 449.569 +ZNF746 336.215 616.024 694.416 742.06 448.203 344.565 573.145 662.282 561.839 535.145 370.865 517.597 173.643 674.969 597.609 456.059 581.883 541.571 574.583 213.793 +ZNF74 348.223 217.018 248.852 450.813 199.512 214.2 198.094 150.951 171.247 196.057 148.219 149.272 143.665 271.455 263.335 105.458 274.877 270.023 146.582 233.19 +ZNF747 187.546 208.377 445.99 368.706 211.482 121.312 236.44 434.104 172.463 163.556 323.842 457.178 194.287 466.628 486.127 456.383 498.76 372.212 136.641 169.806 +ZNF749 13.4486 28.1841 104.281 153.369 31.8548 83.0325 23.2076 62.2164 72.4101 21.388 68.0662 58.8592 55.9955 93.0592 58.0411 41.6281 68.2731 57.2082 31.0078 60.3448 +ZNF750 2.4015 3.6237 1.7775 0.7746 5.5886 3.6101 0 0.68 0.5285 81.9873 2.5445 2.4272 0.5656 1.1584 0.5374 0 2.2311 0 0.9396 0.431 +ZNF75A 296.83 163.871 757.814 2298.99 271.604 436.422 278.906 665.681 767.442 373.844 831.425 412.621 378.394 944.493000000001 1186.08 774.283 626.06 798.627 582.57 500 +ZNF75D 531.21 830.353 1213.27 2096.79 255.398 883.803 168.935 1305.77 1165.84 151.944 830.223 928.568 284.666 2252.91 873.486 596.549 1758.54 504.897 1097.3 697.172 +ZNF761 109.03 158.234 572.36 1553.06 189.452 357 138.002 266.204 570.824 199.621 590.331 406.553 93.8914 562.989 393.39 536.54 489.96 472.159 218.464 214.224 +ZNF763 62.9203 39.4578 34.3653 162.665 114.007 49.3381 22.7932 21.0788 62.8964 6.2382 101.781 138.956 61.086 143.257 48.905 74.9306 11.602 35.8505 54.0287 46.9828 +ZNF764 268.972 172.728 242.927 483.346 163.745 143.201 267.716 286.943 377.378 125.209 393.13 297.937 203.054 403.9 229.477 475.486 225.346 265.446 125.441 192.672 +ZNF765 104.227 141.323 280.847 453.137 193.923 321.3 85.3709 311.762 480.444 145.706 393.766 277.913 85.9729 484.603 328.9 344.126 224.453 186.118 135.307 177.586 +ZNF766 133.525 281.439 378.611 632.068 371.081 339.751 299.213 551.108 735.729 279.381 534.987 421.116 414.593 456.801 634.153 355.227 481.481 371.472 273.432 430.172 +ZNF76 579.731 522.212 665.383 1028.66 743.279 875.652 596.353 740.817 952.431 685.753 1114.5 707.524 1142.53 724.394 664.786 618.871 681.838 803.204 1327.7 965.085999999999 +ZNF767 314.121 199.302 181.306 528.273 124.625 190.935 199.751 140.752 258.457 183.135 224.555 229.976 58.2579 169.514 218.729 98.9824 273.092 273.837 92.0836 62.069 +ZNF768 2310.05 1551.92 1656.81 4014.72 941.439 1389.72 1396.8 2134.11 2111.89 1000.75 2469.41 2190.88 1632.07 2316.27 2431.51 3378.95 1730.16 2376.07 785.605 1121.57 +ZNF770 566.422 991.345 707.16 596.383 671.058 361.039 413.075 730.057 962.442 509.453 819.307 599.053 341.725 756.103999999999 708.069 582.831 493.182 853.188 1505.92 425.147 +ZNF771 72.0461 56.7709 104.281 374.129 93.3291 68.1909 205.968 346.78 201.374 29.8541 324.428 275.491 118.213 149.821 245.6 654.024 357.43 274.599 62.4853 68.9655 +ZNF772 136.888 250.034 141.609 241.673 127.978 241.877 78.7402 439.934 237.844 161.301 227.735 205.097 167.986 209.673 216.042 288.622 176.261 126.621 120.272 229.741 +ZNF773 64.8415 153 180.121 212.239 130.214 143.602 114.795 224.047 190.275 59.2626 265.267 169.296 119.909 234.386 211.743 118.409 156.18 189.931 120.272 139.655 +ZNF774 2.4015 28.1841 28.4402 6.9713 93.8879 32.8921 7.4596 9.1795 8.4567 12.4763 8.2697 32.767 35.0679 19.3069 12.898 8.3256 8.4784 7.6278 10.3359 13.7931 +ZNF775 81.6523 142.934 52.1404 68.9388 97.7999 97.0718 236.22 139.052 97.2516 58.817 47.0738 155.34 147.624 104.257 96.7352 75.8557 170.013 103.738 83.1572 75.8621 +ZNF7 641.306 299.259 239.87 762.44 365.727 233.879 331.069 590.359 283.388 587.034 412.265 518.343 292.313 551.242 315.453 238.187 590.857 399.405 197.548 327.987 +ZNF77 68.684 59.5893 130.944 199.845 93.8879 154.432 55.1181 149.251 163.848 29.8541 107.506 88.5922 127.262 127.425 143.49 84.1813 131.191 121.281 38.5248 181.897 +ZNF776 219.097 333.849 426.846 587.94 309.64 439.655 167.642 663.502 479.065 202.402 534.402 355.03 183.071 533.152 450.915 387.909 229.723 356.148 174.658 483.155 +ZNF777 408.261 845.121 622.723 669.249 374.993 429.202 720.265 700.699 679.176 511.084 435.115 654.733 274.887 781.156999999999 745.936 583.719 652.387 1006.87 402.631 263.793 +ZNF778 34.5821 38.6525 92.4308 75.1356 43.5908 32.8921 29.8384 94.1745 62.8964 45.4495 55.9796 94.6602 46.9457 95.376 56.9663 62.9047 59.7947 74.7521 37.5852 33.6207 +ZNF780A 534.582 148.168 274.33 250.968 296.194 227.838 180.274 344.4 278.541 280.717 398.219 250.607 142.534 351.385 240.226 229.417 239.625 230.358 250.881 209.052 +ZNF780B 1036.5 252.047 410.606 875.29 219.072 378.259 159.552 546.688 321.882 120.753 730.28 601.335 147.624 466.84 259.035 364.477 263.722 207.475 225.981 157.759 +ZNF781 41.3064 42.6788 5.925 68.9388 44.7085 18.4517 15.3336 71.7358 35.4123 39.6569 46.4377 41.2621 54.8643 23.5544 19.8845 64.7549 36.5908 18.3066 3.2887 58.1897 +ZNF782 48.0307 43.0815 35.5503 224.632 37.4434 59.7673 23.2076 29.2383 91.9662 34.3099 30.5344 50.9709 26.0181 98.4651 74.7011 39.778 136.546 22.1205 28.6587 48.2759 +ZNF784 111.431 94.2155 272.552 478.699 260.427 287.605 149.192 502.491 245.772 120.308 568.066 231.189 545.249 257.94 281.607 236.818 267.291 261.632 182.288 295.69 +ZNF785 215.024 165.763 390.632 245.624 171.01 207.926 192.744 275.19 319.736 84.888 194.905 335.558 143.558 304.883 357.377 264.801 256.595 183.829 112.474 88.5259 +ZNF786 92.6993 111.931 253 267.235 108.418 192.94 118.939 161.831 188.689 241.06 131.043 129.854 103.507 225.118 249.362 123.959 188.309 192.982 175.241 89.2241 +ZNF787 538.425 899.074 1127.54 2664.6 576.181 1469.31 992.955 1707.72 1185.52 1185.7 1793.26 891.384 1725.11 1454.97 1753.06 1072.16 1521.64 1456.14 494.245 1332.33 +ZNF788 109.99 63.213 20.1452 122.386 37.4434 150.02 79.1546 89.7548 35.9408 114.96 173.028 57.6456 82.5792 60.2375 13.9729 68.4551 10.2633 97.6354 63.8948 12.5 +ZNF789 83.0932 63.213 59.843 205.267 68.1805 105.495 60.0912 48.6172 106.765 106.049 51.5267 75.8495 68.4389 50.584 55.8914 57.3543 105.756 66.3616 51.6796 81.4655 +ZNF790 50.4323 63.6156 210.339 108.443 112.33 75.4112 53.4604 134.292 132.135 89.1166 152.672 115.291 127.262 155.227 145.103 159.112 84.7836 184.592 83.627 63.7931 +ZNF791 57.1566 373.641 210.339 123.935 96.1234 167.268 51.3883 276.064 225.687 28.5173 148.855 185.073 36.1991 268.752 233.239 140.611 154.842 114.416 85.976 176.724 +ZNF792 43.2277 78.5129 33.1803 60.4183 106.742 86.6426 64.6498 39.0977 54.4397 41.4392 69.3384 81.9175 51.4706 56.7622 6.9864 93.432 21.8652 47.2921 27.7191 34.4828 +ZNF793 98.463 128.036 213.894 417.506 46.3851 62.5752 22.3788 237.646 180.761 55.2523 298.982 143.811 60.5204 245.97 158.538 186.864 171.798 142.639 61.5457 81.4655 +ZNF79 94.1402 73.2787 111.391 159.566 53.0914 123.546 103.606 153.331 186.575 110.95 104.962 143.811 161.199 252.92 163.912 84.1813 278.893 100.686 55.4381 93.9655 +ZNF799 204.611 181.989 104.281 327.653 92.2114 136.783 97.8036 149.251 133.192 54.8067 265.267 145.631 101.81 205.039 76.3133 197.04 80.7675 222.731 62.4853 229.31 +ZNF800 226.705 473.493 503.037 144.849 281.664 220.618 210.941 323.661 438.161 253.537 220.102 310.073 67.3077 360.266 356.845 238.668 315.038 368.421 380.08 162.931 +ZNF804A 2.4015 3.221 2.9625 0.7746 0 1.2034 20.3067 2.3799 1.5856 2.2279 0 15.1699 1.1312 0.3861 3.7619 1.8501 0 6.865 0 0 +ZNF804B 0 6.0395 0 0 0 0 0 0 0 0 0 3.6408 0 0 1.0748 0.9251 0 0 0 0 +ZNF805 204.131 179.573 623.908 796.282 320.225 448.055 273.518 1024.02 510.042 321.711 738.55 333.131 350.679 802.78 796.453 571.693 502.008 741.419 224.571 307.328 +ZNF80 0 2.0132 3.555 17.8156 1.1177 0.8022 6.2163 3.3998 4.7569 1.7823 1.2723 6.6748 0 0.7723 1.0748 5.5504 4.9085 11.3196 0 0 +ZNF808 59.0778 146.558 98.9483 117.738 105.065 103.49 94.0738 82.6152 193.975 170.213 145.674 199.029 107.466 130.128 151.014 93.432 127.622 113.654 87.3855 111.207 +ZNF813 5.7637 63.213 10.0726 15.4919 26.8251 38.9089 31.4961 36.0379 56.0254 31.6364 18.4478 47.9369 5.0905 40.9306 42.9934 22.2017 24.9888 17.5439 46.5116 62.931 +ZNF81 45.6292 107.502 103.688 87.529 27.9428 40.9146 65.8931 54.0569 90.9091 33.8643 68.0662 43.6893 9.0498 69.5048 33.3199 87.8816 73.1816 109.84 73.7609 28.0172 +ZNF814 273.295 148.973 458.942 1314.67 268.251 563.293 163.721 560.821 540.28 170.939 856.648 431.905 293.874 630.644 786.602 613.321 511.825 609.062 142.875 191.931 +ZNF815 11.5274 44.2893 47.9929 28.66 54.2091 44.1235 50.9739 30.2582 60.7822 15.1498 27.3537 41.8689 10.7466 69.8909 76.8507 18.5014 35.6983 14.4928 36.1757 30.1724 +ZNF816A 39.3852 134.805 98.3558 85.2053 116.589 160.971 77.9113 71.7358 223.499 98.0283 199.745 137.427 79.7511 205.811 147.252 103.46 90.5846 106.026 109.894 84.4095 +ZNF821 165.706 109.419 154.051 601.859 43.5908 52.6274 276.834 245.119 174.487 92.2357 209.587 72.2087 353.507 311.613 99.4223 152.636 199.911 416.278 97.4677 146.983 +ZNF823 53.3141 39.4578 50.9554 185.128 82.1519 107.902 29.0095 87.0349 131.078 25.3982 117.048 79.4903 77.4887 94.2176 68.252 82.3312 17.8492 56.4455 31.0078 141.81 +ZNF826 59.5581 10.0658 2.37 33.3075 8.9417 178.099 9.1173 2.0399 83.5095 24.5071 60.4326 27.9126 42.4208 30.891 6.449 50.8788 1.7849 27.46 90.2044 74.569 +ZNF827 243.516 349.483 120.871 243.997 5.0297 63.3775 41.4422 229.827 100.423 12.0307 62.341 163.228 11.8778 172.217 96.7352 110.083 49.9777 104.5 131.548 96.9828 +ZNF828 206.052 475.104 446.749 502.711 296.194 197.353 283.879 514.73 420.719 289.183 260.178 239.685 147.059 444.831 302.566 144.311 345.382 228.833 971.576 540.086 +ZNF829 0.4803 24.9631 7.1101 5.4222 11.736 9.627 3.7298 12.9192 17.4419 1.7823 16.5394 10.3155 4.5249 18.9207 23.6464 7.4006 6.6934 18.3066 7.9868 8.6207 +ZNF830 237.272 194.47 199.082 396.592 237.514 168.472 392.043 307.342 310.254 225.019 202.926 336.772 302.036 236.316 271.396 288.622 281.125 237.986 255.579 277.586 +ZNF831 1.4409 7.65 0.5925 0.7746 3.912 0 29.0095 2.0399 0 14.7042 3.8168 12.1359 0.5656 0.7723 2.6871 12.951 6.2472 79.3288 1.4094 0 +ZNF833 15.3698 9.6631 2.9625 122.386 16.7657 44.5247 19.4778 19.0389 35.4123 4.4558 36.2595 17.5971 17.5339 11.5841 13.9729 17.5763 19.6341 6.1022 16.9133 75.431 +ZNF83 845.821 744.866 1504.37 5563.13 2643.39 1870.44 354.745 835.331 1956.66 489.25 1809.16 1208.13 559.955 2434.6 1717.59 1574.47 1203.03 1599.54 386.188 854.31 +ZNF835 0.9606 28.5868 47.9929 18.5902 31.296 1.6045 2.4865 4.4197 11.6279 16.041 49.6183 44.2961 0 56.3761 36.5444 41.6281 7.1397 21.3577 22.0813 0.431 +ZNF836 143.132 394.175 719.301 996.127000000001 203.424 917.77 61.3344 1450.7 1179.7 38.7657 2164.76 123.18 442.308 361.811 1707.38 72.1554 251.673 190.694 258.868 902.155 +ZNF837 8.1652 57.9788 97.1708 85.9799 53.0914 130.766 62.1633 215.887 121.564 34.3099 138.041 115.291 137.443 153.683 117.695 139.685 208.389 150.267 35.7059 61.6379 +ZNF839 183.958 288.283 495.334 905.5 280.546 348.977 446.747 294.083 491.543 339.089 274.173 350.728 301.471 307.752 415.961 337.65 634.538 317.315 934.931 187.069 +ZNF841 108.549 162.663 412.976 690.937 123.507 164.862 119.768 160.811 522.727 151.053 388.677 221.481 97.8507 409.306 362.219 247.919 188.309 220.442 156.918 140.086 +ZNF843 0 14.0921 51.5479 6.1967 9.5006 1.2034 2.901 11.2193 19.0275 1.3367 3.1807 6.068 5.6561 3.0891 15.0477 8.3256 16.5105 5.3394 11.2755 2.1552 +ZNF844 87.8963 291.907 72.2856 308.288 163.745 142.399 47.6585 237.646 242.072 24.0615 225.191 320.388 67.3077 293.079 116.62 109.158 15.618 106.789 83.1572 102.586 +ZNF845 33.1412 101.06 148.126 173.509 114.007 129.162 99.8757 77.5155 235.201 135.903 111.323 111.044 61.6516 155.613 152.627 121.184 136.1 82.3799 97.7214 92.2414 +ZNF846 72.5264 47.913 111.983 109.992 121.831 41.3157 47.6585 51.677 75.0529 51.6876 80.1527 94.0534 73.5294 100.782 210.13 74.0056 59.7947 70.9382 31.0078 101.724 +ZNF84 771.854 851.966 740.631 1858.25 478.94 476.534 594.695 708.859 531.712 499.944 1006.36 887.743 248.303 548.316 993.685 691.952 789.826 900.839 807.141 423.276 +ZNF853 179.635 610.79 88.2832 129.357 136.92 55.355 94.4882 207.048 21.6702 7.5749 57.2519 165.048 384.615 54.0593 43.5308 41.6281 438.644 204.424 108.527 189.224 +ZNF85 40.8261 102.671 78.2106 312.161 82.1519 225.03 61.7489 362.079 353.065 73.0756 303.435 105.582 100.679 316.247 98.8849 167.438 67.8269 173.15 117.454 245.259 +ZNF860 6.7243 46.3025 12.4426 12.3935 7.2651 3.209 2.0721 2.0399 1.0571 24.0615 8.2697 7.2816 0 13.5148 5.3742 24.0518 6.2472 8.3905 10.8057 15.5172 +ZNF862 390.97 893.034 792.179 1618.9 377.787 483.353 437.63 578.306 653.806 189.818 491.73 1162.01 95.0226 935.225 553.54 562.442 839.356999999999 1135.01 607 194.397 +ZNF8 38.3045 56.6581 92.887 138.226 55.4609 66.2014 77.2192 117.402 132.706 116.493 89.9618 76.0922 68.2862 101.913 100.476 87.2248 74.8282 77.0557 41.5175 121.978 +ZNF876P 5.2834 32.6131 5.925 56.5453 13.9714 32.0899 31.0816 27.1984 15.8562 1.3367 12.0865 28.5194 12.4434 20.0792 17.1974 16.6512 3.5698 15.2555 40.404 43.9655 +ZNF878 4.3228 1.6105 2.9625 30.9837 2.7943 7.2202 1.2433 1.0199 7.3996 1.3367 12.7226 13.9563 3.3937 10.8119 6.9864 0.9251 0.8925 4.5767 2.3491 4.7414 +ZNF879 73.0067 74.8893 2.37 250.194 65.9451 46.9314 20.7211 68.676 56.5539 20.4968 139.949 93.4466 49.7738 61.0097 77.3881 133.21 54.44 62.5477 8.9265 54.3103 +ZNF880 77.8098 167.494 91.8382 93.7258 35.208 131.167 27.7663 315.842 582.981 8.9117 301.527 106.189 174.208 122.019 134.892 94.3571 84.7836 48.0549 272.962 38.7931 +ZNF883 4.8031 190.042 12.4426 203.718 89.4171 17.2483 7.4596 280.484 46.5116 57.0346 138.677 126.82 169.683 162.178 192.933 506.013 37.037 54.9199 3.7585 44.8276 +ZNF90 146.013 76.9024 257.147 237.8 35.208 195.347 132.201 104.374 349.894 100.256 200.382 60.6796 87.6697 84.9503 228.403 102.683 166.444 33.5622 125.91 216.81 +ZNF91 204.611 227.889 287.365 294.346 310.724 339.751 93.6593 449.454 464.059 77.9771 525.445 311.286 240.95 301.187 278.382 308.048 180.277 363.082 407.799 157.759 +ZNF92 271.854 260.904 288.55 222.308 172.687 437.625 156.237 435.175 455.074 156.4 248.092 177.791 255.09 495.801 470.24 155.412 310.576 282.99 612.168 316.379 +ZNF93 18.732 29.392 45.6229 79.7831 5.0297 119.535 48.9018 123.073 170.19 37.429 83.3333 29.1262 27.7149 55.2177 60.7282 24.9769 29.4511 35.8505 36.1757 148.276 +ZNF98 0 5.6368 0 3.0984 3.3531 0.4011 0.8288 8.1595 16.9133 0 2.5445 4.2476 0 0.3861 3.2245 6.4755 0.4462 3.0511 0 0.431 +ZNF99 0 2.0132 0 0 0.5589 0 0 0 2.6427 0 0.6361 0.6068 0.5656 0 1.0748 0 0 1.5256 0 0 +ZNFX1 478.866 1253.79 793.364 560.806 1227.81 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"target-arrow-color": "black", + "width": 0.5, + "curve-style": "bezier" + } + }, { + "selector" : "edge[interaction = 'peptide']", + "css" : { + "line-color" : "rgb(0,0,0)", + "line-style" : "dashed", + "target-arrow-shape": "none" + } + }, { + "selector" : "edge[interaction = 'interacts']", + "css" : { + "line-color" : "rgb(0,0,0)", + "target-arrow-color" : "rgb(0,0,0)", + "source-arrow-color" : "rgb(0,0,0)" + } + }, { + "selector" : "edge:selected", + "css" : { + "line-color" : "rgb(255,0,0)" + } + } ] +} ] diff --git a/apps/iatlas/app/inst/markdown/about.markdown b/apps/iatlas/app/inst/markdown/about.markdown new file mode 100644 index 0000000000..08842da5bc --- /dev/null +++ b/apps/iatlas/app/inst/markdown/about.markdown @@ -0,0 +1,73 @@ +The iAtlas portal serves as an interactive tool for exploring and analyzing immuno-oncology data. + +## About the CRI iAtlas + +The Cancer Research Institute (CRI) iAtlas is an interactive web platform and a set of analytic tools for studying interactions between tumors and the immune microenvironment (Eddy et al., F1000Research 2020). These tools allow researchers to explore associations between a variety of genomic characterizations of immune response, clinical phenotypes, germline genetics, and response to immunotherapy. Immune checkpoint inhibitor analysis modules allow for interactive exploration of the relationship between possible biomarkers of immune response and the outcome of response to checkpoint blockade, by direct comparison and using multivariable statistical models. Underlying these modules is a harmonization of primary sequencing data from 12 immuno-oncology trials with genomics data and matched clinical data available in the public domain. iAtlas also allows researchers to identify how tumor-intrinsic alterations, including mutations, copy-number alterations, and neoantigens relate to the immune microenvironment as evidenced in cancer genomic studies. The initial version of CRI iAtlas was based on an analysis performed by **The Cancer Genome Atlas (TCGA) Research Network** on the TCGA data set comprising over 10,000 tumor samples and 33 tumor types (Thorsson et al., Immunity 2018). In this analysis, each tumor sample was scored for a variety of readouts for immune response, including immune cell composition, adaptive cell receptor repertoire, cancer-immune subtypes, neoantigen load, and expression of genes coding for immunomodulatory proteins. iAtlas has now expanded to share immune characterization of data from another large consortium: Pan-Cancer Analysis of Whole Genomes (PCAWG). Work is underway to incorporate additional immuno-oncology data sets and immune-related aspects of The Human Tumor Atlas Network (HTAN). CRI iAtlas is made possible through a collaboration between the Cancer Research Institute, Sage Bionetworks, the Institute for Systems Biology, and the Vincent Lab at the UNC Lineberger Comprehensive Cancer Center. + +### How to Cite Us + +Please cite the [CRI iAtlas paper](https://f1000research.com/articles/9-1028/v1) (PubMed: [33214875](https://www.ncbi.nlm.nih.gov/pubmed/33214875)) when you use the CRI iAtlas app. + +``` +Eddy JA, Thorsson V, Lamb AE, Gibbs DL, Heimann C, Yu JX, Chung V, Chae Y, Dang K, Vincent BG, Shmulevich I, Guinney J. CRI iAtlas: an interactive portal for immuno-oncology research. F1000Research 2020, 9:1028. +``` + +### About CRI iAtlas Explorer + +The main feature of the iAtlas web tool is the **CRI iAtlas Explorer**, which provides several *Analysis Modules* to explore and visualize results on immune response in cancer. Each module presents information organized by theme, with multiple views and interactive controls: + +**Immune Checkpoint Inhibition Analysis Modules:** + + +These modules allow you to explore the relationship between possible biomarkers of immune response and the outcome of response to ICI, based on publicly available datasets that we have processed for use in iAtlas: + ++ *Datasets Overview:* Explore categories and groups of the available datasets. ++ *Clinical Outcomes:* Plot survival curves based on immune characteristics and identify variables associated with outcome. ++ *Hazard Ratio:* Create Cox Proportional Hazard Regression Models and visualize Hazard Ratio in a heatmap and a forest plot. ++ *Immune Features:* See how immune readouts vary across your groups and ICI datasets. ++ *Immunomodulators:* Explore the expression of genes that code for immunomodulating proteins, including checkpoint proteins. ++ *Machine Learning:* Train and run multivariable models with cross-validation on ICI genomics and immunogenomics data. + + +**Cancer Genomics Analysis Modules:** + ++ *Cell-Interaction Diagram:* Explore cell and protein abundance on an illustration. ++ *Clinical Outcomes:* Quantify the relationship between immune response and disease outcome, in terms of either overall survival (OS) or progression free interval (PFI). ++ *CNV Associations:* Explore associations of microenvironment with gene copy number. ++ *Driver Associations:* Explore associations of microenvironment with cancer driver mutations. ++ *Extracellular Networks:* Explore the extracellular networks modulating tumoral immune response. ++ *Germline Analysis:* Explore the germline genetic contribution to the immune landscape of cancer. ++ *Immune Feature Trends:* Visualize how immune readouts vary across sample groups. ++ *Immunomodulators:* Explore the expression of genes that code for immunomodulating proteins, including checkpoint proteins. ++ *IO Targets:* Explore the expression of genes that code for immuno-oncological (IO) targets. ++ *TIL Maps:* Explore the characteristics of maps of tumor infiltrating lymphocytes obtained from analysis of H&E images. ++ *Tumor Microenvironment:* Explore the immune cell proportions in sample groups. + +--- + +### Key Publications + +* [Eddy JA, Thorsson V, Lamb AE et al. CRI iAtlas: an interactive portal for immuno-oncology research. F1000Research 2020, 9:1028](https://doi.org/10.12688/f1000research.25141.1) + +* [Thorsson V, Gibbs DL, Brown SD, et al., Immunity, Volume 48, Issue 4, p812 - 830.e14, 17 April 2018](https://www.cell.com/immunity/abstract/S1074-7613(18\)30121-3) + +* [Gibbs DL, Robust classification of Immune Subtypes in Cancer, bioRxiv 2020.01.17.910950](https://doi.org/10.1101/2020.01.17.910950) + +--- +## iAtlas Partners + +### About the Cancer Research Institute + +The Cancer Research Institute (CRI), established in 1953, is the world’s leading nonprofit organization dedicated exclusively to transforming cancer patient care by advancing scientific efforts to develop new and effective immune system-based strategies to prevent, diagnose, treat, and eventually cure all cancers. Guided by a world-renowned Scientific Advisory Council that includes Nobel laureates and members of the National Academy of Sciences, CRI has invested over $445 million in support of research conducted by immunologists and tumor immunologists at the world’s leading medical centers and universities, and has contributed to many of the key scientific advances that demonstrate the potential for immunotherapy to change the face of cancer treatment. Learn more at www.cancerresearch.org. + +### Sage Bionetworks + +Sage Bionetworks is a nonprofit biomedical research and technology development organization that was founded in Seattle in 2009. Our focus is to develop and apply open practices to data-intensive research for the advancement of human health. Data-intensive research has become an important component of biomedicine, but it’s not always easy to understand how to apply computational approaches appropriately or how to interpret their results. Sage believes open practices can help. Our interdisciplinary team of scientists and engineers work together to provide researchers access to technology tools and scientific approaches to share data, benchmark methods, and explore collective insights, all backed by Sage’s gold-standard governance protocols and commitment to user-centered design. Sage is a 501c3 and is supported through a portfolio of competitive research grants, commercial partnerships, and philanthropic contributions. More information is available at www.sagebionetworks.org. + +### Institute for Systems Biology + +ISB was created in 2000 as the first-ever institute dedicated to systems biology. ISB is a collaborative and cross-disciplinary nonprofit biomedical research organization based in Seattle. ISB focuses on some of the most pressing issues in human health, including brain health, cancer, sepsis and aging, as well as many chronic and infectious diseases. ISB is an affiliate of Providence St. Joseph Health, one of the largest not-for-profit health care systems in the USA. ISB serves as the ultimate environment where scientific collaboration stretches across disciplines and across academic and industrial organizations, where researchers have the intellectual freedom to challenge the status quo, and where grand visions for breakthroughs in human health inspire a collective drive to achieve the seemingly impossible. Learn more at www.isbscience.org. + +### UNC Lineberger Comprehensive Cancer Center + +The UNC Lineberger Comprehensive Cancer Center is a cancer research and treatment center at the University of North Carolina at Chapel Hill. One of the leading cancer centers in the nation, UNC Lineberger Comprehensive Cancer Center is located in Chapel Hill, North Carolina. As one of only 51 National Cancer Institute-designated Comprehensive Cancer Centers, UNC Lineberger was rated as exceptional – the highest category – by the National Cancer Institute. The center brings together some of the most exceptional physicians and scientists in the country to investigate and improve the prevention, early detection and treatment of cancer. With research that spans the spectrum from the laboratory to the bedside to the community, UNC Lineberger faculty work to understand the causes of cancer at the genetic and environmental levels, to conduct groundbreaking laboratory research, and to translate findings into pioneering and innovative clinical trials. Learn more at www.unclineberger.org. diff --git a/apps/iatlas/app/inst/markdown/cell_type_fractions.markdown b/apps/iatlas/app/inst/markdown/cell_type_fractions.markdown new file mode 100644 index 0000000000..6fc28598e5 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/cell_type_fractions.markdown @@ -0,0 +1,7 @@ +This allows you to draw barplots for the estimate proportion of different cell types in the immune compartment. +Cellular proportions are estimated using CIBERSORT. +In addition to the original CIBERSORT estimates (22 cell fractions), estimates combining related cell types are provided. +(In the associated manuscript, these are referred to as Aggregates 1, 2, and 3.) + +Manuscript context: These bargraphs are similar to Figure 2A, and Figure S2A, but with a different arrangement of bars. + diff --git a/apps/iatlas/app/inst/markdown/cellimage.markdown b/apps/iatlas/app/inst/markdown/cellimage.markdown new file mode 100644 index 0000000000..17c268bafa --- /dev/null +++ b/apps/iatlas/app/inst/markdown/cellimage.markdown @@ -0,0 +1,3 @@ +For each panel, select the desired type of visualization and group of interest. The "Illustration" option generates a figure depicting the interaction of tumor cells and representative innate and adaptive cells in the microenvironment. The "Network" option displays these relationships in a network layout (similar to that of the related module "Extracellular Networks"). + +Abundance estimates are in the range 0 to 1. In both visualization options, the figure displays the estimated abundance of cells, receptors and ligands using intensities of color, where lighter colors correspond to lower values of abundance. Check the legend for the color ranges of each type. diff --git a/apps/iatlas/app/inst/markdown/clinical_outcomes.markdown b/apps/iatlas/app/inst/markdown/clinical_outcomes.markdown new file mode 100644 index 0000000000..cb595df1c2 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/clinical_outcomes.markdown @@ -0,0 +1,2 @@ +Plot survival curves based on immune characteristics and identify variables associated with outcome. + diff --git a/apps/iatlas/app/inst/markdown/clinical_outcomes_heatmap.markdown b/apps/iatlas/app/inst/markdown/clinical_outcomes_heatmap.markdown new file mode 100644 index 0000000000..3525927227 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/clinical_outcomes_heatmap.markdown @@ -0,0 +1,12 @@ +Here, you can explore which variables are associated with improved or +diminished survival within your sample groups. Select a variable class, +and you will get a heatmap, with one row for each variable in that class. +For a given variable (row) and sample group (column) red denotes decreased +survival, and blue increased survival as the variable is increased. + +Manuscript context: Selecting variable class "Core Expression Signature", +you can generate Figure 3B. +Figures 3C, and Figures S3B, S3C, and S3C can also be generated with +different selection options. + + diff --git a/apps/iatlas/app/inst/markdown/clinical_outcomes_survival.markdown b/apps/iatlas/app/inst/markdown/clinical_outcomes_survival.markdown new file mode 100644 index 0000000000..20382696cd --- /dev/null +++ b/apps/iatlas/app/inst/markdown/clinical_outcomes_survival.markdown @@ -0,0 +1,4 @@ +In the CG Cohort Selection, select your dataset of interest and a grouping variable to be used to stratify patients in survival curves. You can also select an outcome in terms of either overall survival (OS) or progression free interval (PFI) endpoints to generate a Kaplan-Meier plot. + +Manuscript Context: In Cohort Selection, select TCGA as Dataset and group samples by immune subtypes to obtain Figure 3A for (OS), and Figure S3A for (PFI). + diff --git a/apps/iatlas/app/inst/markdown/cohort_dataset_selection.markdown b/apps/iatlas/app/inst/markdown/cohort_dataset_selection.markdown new file mode 100644 index 0000000000..32211e2f62 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/cohort_dataset_selection.markdown @@ -0,0 +1 @@ +Select a dataset from the dropdown below. Not all analysis modules are availble to every dataset. diff --git a/apps/iatlas/app/inst/markdown/cohort_filter_selection.markdown b/apps/iatlas/app/inst/markdown/cohort_filter_selection.markdown new file mode 100644 index 0000000000..f4a8bf95cd --- /dev/null +++ b/apps/iatlas/app/inst/markdown/cohort_filter_selection.markdown @@ -0,0 +1,7 @@ +Filter the samples from the slected dataset below. + +Click on the add group filter button to add a filter that is catgeorical, then select from the possible values the samples kept will have. + +Click on the add numeric filter button to add a filter that is a range of values, then select the range the samples kept will have. + +Click on the remove button to remove the selected filter. diff --git a/apps/iatlas/app/inst/markdown/cohort_group_selection.markdown b/apps/iatlas/app/inst/markdown/cohort_group_selection.markdown new file mode 100644 index 0000000000..8177fae979 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/cohort_group_selection.markdown @@ -0,0 +1,5 @@ +Select a group from the dropdown below. This group will be used to divide the samples from the selected dataset into subgroups plotting in analysis modules. + +If Immune feature bins are selected, the samples will be binned into a number of groups of your choice, using their value of the selected immune feature. + +If driver mutations are selected, the samples will be grouped by their mutaiton status of the selected mutaton. diff --git a/apps/iatlas/app/inst/markdown/cohort_selection1.markdown b/apps/iatlas/app/inst/markdown/cohort_selection1.markdown new file mode 100644 index 0000000000..8e02d00d7e --- /dev/null +++ b/apps/iatlas/app/inst/markdown/cohort_selection1.markdown @@ -0,0 +1,2 @@ +This module is used to create your own custom cohort, or upload your own. Plots in other modules will reflect the samples chosen, and way they are grouped. + diff --git a/apps/iatlas/app/inst/markdown/cohort_selection2.markdown b/apps/iatlas/app/inst/markdown/cohort_selection2.markdown new file mode 100644 index 0000000000..5b97f31b4b --- /dev/null +++ b/apps/iatlas/app/inst/markdown/cohort_selection2.markdown @@ -0,0 +1,4 @@ +Users have two options for picking their cohort. + +Cohort Selection: Manually go through group selection and filtering of samples. +Cohort Upload: Upload a csv file of pre-made groups. diff --git a/apps/iatlas/app/inst/markdown/cox_regression.markdown b/apps/iatlas/app/inst/markdown/cox_regression.markdown new file mode 100644 index 0000000000..1e5c95875b --- /dev/null +++ b/apps/iatlas/app/inst/markdown/cox_regression.markdown @@ -0,0 +1,69 @@ +**Title:** Cox Proportional Hazard Ratio Models + +**1. Univariable Cox Proportional Hazard Model:** + +In this case, a Cox Proportional Hazard model for each combination of dataset and feature is created, using the `coxph` function of the R package `survival` (Thermeau et al., 2020). + +To correct for multiple testing, Benjamini-Hochberg method is computed on p-values from all the models of the same dataset. This step uses the `p.adjust` function from the R package `stats` (R Core Team, 2019). + +In this analysis, the Hazard Ratio coefficients are independent, ie., the computed values are not changed if you add or delete features. + +Example + +* User Selection: + + *Survival endpoint*: Overall Survival (OS) + + *Datasets selected*: Gide 2019, Van Allen 2015 + + *Features selected*: Wound Healing, IFN-gamma signature + +* Models created: + + For samples from Gide 2019: + + Model1. OS ~ Wound Healing + + Model2. OS ~ IFN-gamma signature + + For samples from Van Allen 2015: + + Model3. OS ~ Wound Healing + + Model4. OS ~ IFN-gamma signature + + +* Benjamini-Hochberg False Discovery Rate correction: + + p-values from Model1 and Model2 -> p.adjust() + + p-values from Model3 and Model4 -> p.adjust() + +--- + +**2. Multivariable Cox Proportional Hazard Model:** + +In this option, it is computed, for each dataset, a Cox Proportional Hazard model of time to survival outcome considering all the selected features as predictors. As a consequence, the inclusion or exclusion of features can change the computed values for coefficients in a model. This analysis also uses the `coxph` function of the R package `survival` (Thermeau et al., 2020). + +Example + +* User Selection: + + *Survival endpoint*: Overall Survival (OS) + + *Datasets selected*: Gide 2019, Van Allen 2015 + + *Features selected*: Wound Healing, IFN-gamma signature + +* Models created: + + For samples from Gide 2019: OS ~ Wound Healing + IFN-gamma signature + + For samples from Van Allen 2015: OS ~ Wound Healing + IFN-gamma signature + +
    +**References:** + +R Core Team (2019). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. + +Therneau T (2020). A Package for Survival Analysis in R. R package version 3.1-12, . diff --git a/apps/iatlas/app/inst/markdown/data_info.markdown b/apps/iatlas/app/inst/markdown/data_info.markdown new file mode 100644 index 0000000000..c0ce02fcf2 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/data_info.markdown @@ -0,0 +1,5 @@ +Each row in the table corresponds to a variable for which data are available +for exploration in CRI iAtlas. +Variables are organized into classes, as displayed in the Variable Class column. +In a number of CRI iAtlas modules the Variable Class will appear in drop-down +selections for variables. diff --git a/apps/iatlas/app/inst/markdown/data_info_readouts.markdown b/apps/iatlas/app/inst/markdown/data_info_readouts.markdown new file mode 100644 index 0000000000..d28ee4f5ef --- /dev/null +++ b/apps/iatlas/app/inst/markdown/data_info_readouts.markdown @@ -0,0 +1,4 @@ +Select a row in the table to view more details about variables in the same +class. + +Use the class selector to filter on the Variable class column. diff --git a/apps/iatlas/app/inst/markdown/docs.markdown b/apps/iatlas/app/inst/markdown/docs.markdown new file mode 100644 index 0000000000..5373c3df2a --- /dev/null +++ b/apps/iatlas/app/inst/markdown/docs.markdown @@ -0,0 +1,7 @@ +The current version of the **CRI iAtlas Portal** was built in R using code +hosted at +[https://github.com/CRI-iAtlas/iatlas-app] +(https://github.com/CRI-iAtlas/iatlas-app/) +The details below are copied directly from the **README** +for the code repository. + diff --git a/apps/iatlas/app/inst/markdown/driver.markdown b/apps/iatlas/app/inst/markdown/driver.markdown new file mode 100644 index 0000000000..ec1b000ee7 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/driver.markdown @@ -0,0 +1,23 @@ +This module displays the degree of association between driver mutation in samples and an immune readout. + +Every point in the scatter plot corresponds to a comparison of the values of that immune readout in samples in which a particular driver gene is mutated to the values in samples in which is not. +This comparison is made within each cohort among the Sample Groups. +Each point thus corresponds to a single driver gene and cohort. +The driver-cohort combination can be seen by hovering on a point (separated by a dot). + +- The x-axis show the effect size, defined as the ratio of the mean readout value in mutated vs non-mutated samples. +- The y-axis represents the P-value of the significance test comparing the readout in mutated vs non-mutated samples. A line is drawn for P=0.05, with the more significant values above that line. + +Click on a point to see a violin plot for the immune readout value distribution in mutated vs non-mutated samples for the selected cohort and driver. + +A statistical test is performed in a group only when the number of mutant and wild type samples exceed the parameter. In rare instances all (or all but one) samples within a group contain the mutation and a test cannot be performed. + +There are two sections: + +- Single Variable +- Mulit-variable + +See each section for more specifics. + +Driver mutations from Bailey, Tokheim, Porta-Pardo et al. (2018), +[Comprehensive Characterization of Cancer Driver Genes and Mutations, Cell 173.](https://doi.org/10.1016/j.cell.2018.02.060) diff --git a/apps/iatlas/app/inst/markdown/driver_multi.markdown b/apps/iatlas/app/inst/markdown/driver_multi.markdown new file mode 100644 index 0000000000..8fe635e7be --- /dev/null +++ b/apps/iatlas/app/inst/markdown/driver_multi.markdown @@ -0,0 +1,15 @@ +This section displays mulit-variable models of the form: + +Response ~ Mutation Status + transformation(Covariate1) ... + transformation(CovariateN) + +Across group mode: sampels are not spliut by group, instead pvalues are calculated across all groups. +By group mode: This works identically to the single variable models above. + +Add covriates by clicking the two add covariate functions. +- You must select atleast one covariate. +- Each added covariate comes with a remove button. +- Numerical covariates come with an optional transformation selection. + +Once satisfied with the formula for the lnear model press the calculate button, this will take a few seconds. + +Click on a point to see a violin plot for the immune readout value distribution in mutated vs non-mutated samples for the selected cohort and driver. diff --git a/apps/iatlas/app/inst/markdown/driver_single.markdown b/apps/iatlas/app/inst/markdown/driver_single.markdown new file mode 100644 index 0000000000..afbc97b1bd --- /dev/null +++ b/apps/iatlas/app/inst/markdown/driver_single.markdown @@ -0,0 +1,7 @@ +This section displays pre-caclulated single variable models of the form: + +Response ~ Mutation Status + +Manuscript context: This allows you to display distributions such as those shown in Figure 4D. + +Click on a point to see a violin plot for the immune readout value distribution in mutated vs non-mutated samples for the selected cohort and driver. diff --git a/apps/iatlas/app/inst/markdown/explore1.markdown b/apps/iatlas/app/inst/markdown/explore1.markdown new file mode 100644 index 0000000000..6ae29e0ded --- /dev/null +++ b/apps/iatlas/app/inst/markdown/explore1.markdown @@ -0,0 +1,5 @@ +Explore immune response in tumor tissue samples from **single-cell RNA-seq** datasets, **Immune Checkpoint Inhibitor (ICI)** studies or **Cancer Genomics (CG)** studies, using CRI iAtlas Analysis Modules for interactive visualization. + +Begin by selecting either a cohort from available studies on molecular response to ICI (**ICI Cohort Selection**) or a CG cohort (**CG Cohort Selection** for [TCGA](https://www.cancer.gov/about-nci/organization/ccg/research/structural-genomics/tcga) or [PCAWG](https://dcc.icgc.org/pcawg)). + +More information about the available datasets is available at **Dataset Overview** on the left navigation bar. You can also select **Data Description** on the left navigation bar to learn which immune readouts are available. diff --git a/apps/iatlas/app/inst/markdown/explore2.markdown b/apps/iatlas/app/inst/markdown/explore2.markdown new file mode 100644 index 0000000000..2ded82b480 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/explore2.markdown @@ -0,0 +1,4 @@ +Each module presents information organized by theme, with multiple views and interactive controls. +Within each module, you can find a **“Manuscript Context”** describing how that module can generate figures analogous to those in the manuscript +[Thorsson et al., The Immune Landscape of Cancer, Immunity (2018).](https://www.cell.com/immunity/abstract/S1074-7613(18\)30121-3) + diff --git a/apps/iatlas/app/inst/markdown/explore3.markdown b/apps/iatlas/app/inst/markdown/explore3.markdown new file mode 100644 index 0000000000..13e43cf2c7 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/explore3.markdown @@ -0,0 +1 @@ +Each module in this section provides visualizations of data from datasets from studies of treatments with Immune Checkpoint Inhibitors (ICI). diff --git a/apps/iatlas/app/inst/markdown/explore4.markdown b/apps/iatlas/app/inst/markdown/explore4.markdown new file mode 100644 index 0000000000..c0178d3201 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/explore4.markdown @@ -0,0 +1 @@ +Each module in this section provides visualizations of single-cell RNA-seq datasets in the context of immune cells. diff --git a/apps/iatlas/app/inst/markdown/extracellular_network.markdown b/apps/iatlas/app/inst/markdown/extracellular_network.markdown new file mode 100644 index 0000000000..459ddb5e7f --- /dev/null +++ b/apps/iatlas/app/inst/markdown/extracellular_network.markdown @@ -0,0 +1,7 @@ +Explore the extracellular networks modulating tumoral immune response, +encompassing direct interaction among cells and communication via soluble proteins such as cytokines to mediate interactions among those cells. +This module uses the network of documented ligand-receptor, cell-receptor, and cell-ligand pairs published by [Ramilowski et al., 2015](https://www.nature.com/articles/ncomms8866) + and retrieved from +[FANTOM5.](http://fantom.gsc.riken.jp/5/suppl/Ramilowski_et_al_2015/) + + diff --git a/apps/iatlas/app/inst/markdown/extracellular_network_main.markdown b/apps/iatlas/app/inst/markdown/extracellular_network_main.markdown new file mode 100644 index 0000000000..4419fa9967 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/extracellular_network_main.markdown @@ -0,0 +1,26 @@ +Select the subset of interest of analysis, depending on the Sample Group selected. The additional parameters required to build a network are: + +- *Abundance threshold (%)*: Nodes in the network are selected if they meet the selected abundance threshold. The abundance threshold, in %, is the frequency of samples in the upper two tertiles of cell abundance or gene expression distributions. For example, for an abundance of 66%, a node (cell or gene) is entered into the subtype-network if at least 66% of samples within a subtype map to mid or high value bins in a tertile distribution of this node across all samples. + +- *Concordance threshold*: Edges in the scaffold network between any two abundant nodes is evaluated for inclusion based on the selected concordance threshold. The concordance threshold is computed based on the contingency table populated with the ternary values of the two nodes of an edge and in terms of the values of ((high,high)+ (low,low))/(1+(low,high)+(high,low)). + A concordance threshold of 2, for example, selects edges that have both nodes simultaneously highly or lowly expressed (concordant) at least twice as frequent than samples with one node highly expressed and the other lowly expressed (discordant). On the other hand, an edge with a concordance score of 0.5 is considered discordant, i.e., samples with one node highly expressed and the other lowly expressed (discordant) are twice as frequent than samples with both nodes simultaneously highly or lowly expressed (concordant). + +In addition, a user can also select a set of cells or genes of interest. This selection will limit the network to the edges in the scaffold with the selected cells and genes that meet the abundance and concordance thresholds. By default, if there is no selection, a network will use all cells and immunomodulator genes (as described in the Immunomodulators module). + +Manuscript context: This module allows you to display networks similar to Figure 7A, 7B, 7C, and S7A. Figure 7C can be generated by the following parameters selection: + +In the CG Cohort Selection: +- *Select Datasets:* TCGA +- *Select or Search for Grouping Variables:* Immune Subtype + +In this module: +- *Select Sample Groups:* Immune Subtype +- *Select Immune Subtype:* select all +- *Set Abundance Threshold (%):* 66.6 +- *Set Concordance Threshold:* 0 +- *Select cells of interest (optional):* T cells CD4 and T cells CD8 +- Hit "GO" +- You may find that changing the layout (in *Select Layout*) to "concentric" improves the visualization of this network. + +If you are still looking at Immune Subtypes, select Immune Subtype C4, 66% abundance threshold, 1.62 for concordance score, and leave the selection of cells and genes in blank to get the extracellular network for C4 present in Figure S7A. + diff --git a/apps/iatlas/app/inst/markdown/germline_gwas.markdown b/apps/iatlas/app/inst/markdown/germline_gwas.markdown new file mode 100644 index 0000000000..9f818eb89a --- /dev/null +++ b/apps/iatlas/app/inst/markdown/germline_gwas.markdown @@ -0,0 +1,8 @@ +GWAS were performed on 33 immune traits that demonstrated nominally significant heritability (p < 0.05) in at least one ancestry group. Here you can visualize the significant (p < 10 -6 ) GWAS hits, as a Manhattan plot. + +*Choose Immune Feature(s)* of interest to select or exclude the GWAS hits associated with trait(s). You can add multiple GWAS tracks, with different selection of immune features, or leave the *Choose Immune Feature(s)* field empty and visualize all available results. + +More information on a particular SNP, including links to external resources, can be obtained by clicking on the Manhattan plot, or by searching on the dropdown menu on the right. + +Manuscript context: For an image similar to Figure 4A, choose "Select" in the *Select or Exclude?* menu, select immune feature “IFN 21978456”, and hit *Add GWAS Track*. Use the IGV navigation bar to select the region of interest. + diff --git a/apps/iatlas/app/inst/markdown/germline_heritability.markdown b/apps/iatlas/app/inst/markdown/germline_heritability.markdown new file mode 100644 index 0000000000..ad82baf308 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/germline_heritability.markdown @@ -0,0 +1,7 @@ +Explore the percentage of variance of immune phenotype traits explained by common genetic variance across different ancestry groups. + +Heritability analyses were performed using genomic-relatedness-based restricted maximum-likelihood (GREML) and provide estimates of the proportion of phenotypic variance explained by the genetic variance, V(Genotype)/Vp. The analyses were conducted separately within each ancestral subgroup, which were derived from ancestry analysis using the genotype data. Each immune trait is assigned to a particular Category and a particular Module, as described in the manuscript. + +Select a subset criteria (*Subset by*) and a group of interest (*Show associated results for*) to generate a bar plot summarizing the V(Genotype)/Vp for the immune traits in that group that have p-values lower than the selected p-value threshold. For a visualization of a single phenotype across different ancestry clusters, select 'Immune Feature' in *Subset by* and the trait of interest in the *Show associated results for* menu. + +For the European ancestry cluster, it is also possible to visualize the percentage of variance of immune traits accounted for by interaction between germline genotypes and immune subtypes (G x Immune Subtype). diff --git a/apps/iatlas/app/inst/markdown/ici_clinical_outcomes.markdown b/apps/iatlas/app/inst/markdown/ici_clinical_outcomes.markdown new file mode 100644 index 0000000000..cb4a47eddd --- /dev/null +++ b/apps/iatlas/app/inst/markdown/ici_clinical_outcomes.markdown @@ -0,0 +1 @@ +In the ICI Cohort Selection, select datasets of interest and a grouping variable to be used to stratify patients in survival curves. You can also select an outcome in terms of either overall survival (OS) or progression free interval (PFI) endpoints to generate a Kaplan-Meier plot. diff --git a/apps/iatlas/app/inst/markdown/ici_hazard_ratio.markdown b/apps/iatlas/app/inst/markdown/ici_hazard_ratio.markdown new file mode 100644 index 0000000000..a83302e956 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/ici_hazard_ratio.markdown @@ -0,0 +1,5 @@ +First, select an outcome in terms of either overall survival (OS) or progression free interval (PFI) endpoints, and variables, such as immune features and predictors of response to immunotherapy. The analysis will use the selection in ICI Cohort Selection, and automatically includes only samples collected before treatment with ICI. + +Then, select whether the models should be univariable or multivariable. The univariable analysis will compute the Cox proportional hazard ratio (HR) for each combination of selected variable and dataset. The multivariable analysis will compute the HR considering all the selected features as predictors of time to survival endpoint. + +The results are summarized in a heatmap of the log10 of Hazard Ratio. For the univariable analysis, when more than one variable is selected, a Benjamini-Hochberg FDR correction is made, and variables with a p-value smaller than 0.05 and BH p-value smaller than 0.05 are indicated in the heatmap according to the plot legend. In addition, a forest plot with the log10 of the Cox Proportional Hazard Ratio with 95th confidence intervals for each variable is displayed. diff --git a/apps/iatlas/app/inst/markdown/ici_immunefeatures.markdown b/apps/iatlas/app/inst/markdown/ici_immunefeatures.markdown new file mode 100644 index 0000000000..f1bfe1686c --- /dev/null +++ b/apps/iatlas/app/inst/markdown/ici_immunefeatures.markdown @@ -0,0 +1 @@ +This displays the value of immune readouts by sample group. Select a variable of interest to see the distribution of values within sample groups of the ICI Datasets selected in ICI Cohort Selection. Samples can be further divided into an additional sub-group based on the availability of those groups for each dataset. Use the plot parameters to adjust the type of plot and choice of scale. A table with the result of statistical tests comparing all pairwise combinations of groups is provided at the bottom of the page. For an A vs B comparison, a positive t-statistics or Wilcox statistics corresponds to an elevated value in the A group over group B (Mean value in A greater than mean in B). The table also includes a comparison of the log2 fold change of groups. diff --git a/apps/iatlas/app/inst/markdown/ici_immunomodulators.markdown b/apps/iatlas/app/inst/markdown/ici_immunomodulators.markdown new file mode 100644 index 0000000000..4ffa15574b --- /dev/null +++ b/apps/iatlas/app/inst/markdown/ici_immunomodulators.markdown @@ -0,0 +1 @@ +Select an immunomodulator gene to see the distribution of gene expression within sample groups of the ICI Datasets selected in ICI Cohort Selection. Samples can be further divided into an additional sub-group based on the availability of those groups for each dataset. Use the plot parameters to adjust the type of plot and choice of scale. A table with statistical tests comparing all pairwise combinations of groups, for each dataset, is provided at the bottom of the page. For an A vs B comparison, a positive t-statistics or Wilcox statistics corresponds to an elevated value in the A group over group B (Mean value in A greater than mean in B). The table also includes a comparison of the log2 fold change of groups. You can view a histogram for any individual distributions by clicking on its distribution plot. diff --git a/apps/iatlas/app/inst/markdown/ici_models.markdown b/apps/iatlas/app/inst/markdown/ici_models.markdown new file mode 100644 index 0000000000..b082bfe883 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/ici_models.markdown @@ -0,0 +1,9 @@ +Drag and drop ICI Datasets of interest in *1. Select training and testing datasets* to be used either for training or testing of the model. In *2. Select predictors*, select features of interest to be included as predictors in your models. You can also select the independent variable in *3. Select Response Variable*. + +Advanced options, such as scaling of numerical predictors and balancing of categorical classes, are optional and available in the *Advanced* box (Click on + to expand the options). You can change the datasets available by changing your selection in ICI Cohort Selection. + +Press *Train Model* for each model that you want to run, and press it again to update the model each time changes in selection are made. Summary of model parameters (when applicable), accuracy over cross validation, and importance of predictors will be shown. + +When you determine that your trained model is ready to be tested against the testing datasets, press *Run model in the test dataset(s)*. You will see a KM plot stratifying patients based on the predicted response, an AUC plot, and a confusion matrix with associated statistics for each one of the datasets selected for testing. + +You can click below for more information on the method for merging the data and running the model. Notebooks replicating the analysis are available in our [iatlas-notebooks](https://github.com/CRI-iAtlas/iatlas-notebooks) repository. diff --git a/apps/iatlas/app/inst/markdown/ici_overview_datasets.markdown b/apps/iatlas/app/inst/markdown/ici_overview_datasets.markdown new file mode 100644 index 0000000000..470b9c39c4 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/ici_overview_datasets.markdown @@ -0,0 +1,8 @@ +All the modules in the Molecular Response to ICI section of CRI-iAtlas provide visualization of immunogenomics features of the datasets described in the table below. + + + + + + + diff --git a/apps/iatlas/app/inst/markdown/immune_features_correlations.markdown b/apps/iatlas/app/inst/markdown/immune_features_correlations.markdown new file mode 100644 index 0000000000..78a70e3754 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/immune_features_correlations.markdown @@ -0,0 +1,7 @@ +Here, you can look at correlation of a response variable, with other variables, within each sample group. Select, the response variable on the right. Select a variable class on the left to specify which other variable you would like to correlate the response variable with. +The result will be a heatmap, with positive correlation shown with a red scale, absence of correlation in white, and negative correlation in blue. +Click on any cell in the heatmap to see the underlying data as a scatterplot. +In the scatterplot, each point represents a tumor sample, the response variable is shown on the Y-axis and the row variable is shown on the X-axis. + +Manuscript context: Select “Leukocyte Fraction” as the response variable, “DNA Alteration” as the variable class, and Spearman correlation. +This will correspond to Figure 4A if you are looking at immune subtypes as your sample grouping. \ No newline at end of file diff --git a/apps/iatlas/app/inst/markdown/immune_features_dist.markdown b/apps/iatlas/app/inst/markdown/immune_features_dist.markdown new file mode 100644 index 0000000000..c47b9bd585 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/immune_features_dist.markdown @@ -0,0 +1,4 @@ +This displays the value of immune readouts by sample group. +Select a variable class to see the distribution of variables within that class displayed as as violin plot. +Manuscript context: +This allows you to display distributions such as those shown in Figures 1C and 1D. diff --git a/apps/iatlas/app/inst/markdown/immunomodulators.markdown b/apps/iatlas/app/inst/markdown/immunomodulators.markdown new file mode 100644 index 0000000000..44125f753d --- /dev/null +++ b/apps/iatlas/app/inst/markdown/immunomodulators.markdown @@ -0,0 +1,2 @@ +Explore the expression of genes that code for immunomodulating proteins, +including checkpoint proteins.", diff --git a/apps/iatlas/app/inst/markdown/immunomodulators_distributions.markdown b/apps/iatlas/app/inst/markdown/immunomodulators_distributions.markdown new file mode 100644 index 0000000000..52b12dec1a --- /dev/null +++ b/apps/iatlas/app/inst/markdown/immunomodulators_distributions.markdown @@ -0,0 +1,13 @@ +Select Immumodulator Gene to see its expression in the data set. +Use Select Immumodulator Category (drop-down menu on the right) to +organize the selection by particular categories. The categories, +will subsequently appear in the left drop-down menu. +The Categories are: + +- *Gene Family*, such as TNF, MHC Class II, Immunoglobulin, or CXC chemokine +- *Super Category*, such as Ligand, Receptor, or Antigen Presentation +- *Immune Checkpoint*, classified as Inhibitory or Stimulatory + +Manuscript context: If you are looking at Immune Subtypes, select EDNRB or CXCL10 to get figure 6B. + +You can view a histogram for any indvidual distributions by clicking on its violin plot. diff --git a/apps/iatlas/app/inst/markdown/immunomodulators_dt.markdown b/apps/iatlas/app/inst/markdown/immunomodulators_dt.markdown new file mode 100644 index 0000000000..6894376722 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/immunomodulators_dt.markdown @@ -0,0 +1,2 @@ +The table shows annotations of the immumodulators, and source. +Use the Search box in the upper right to find an immumodulator of interest. diff --git a/apps/iatlas/app/inst/markdown/io_target.markdown b/apps/iatlas/app/inst/markdown/io_target.markdown new file mode 100644 index 0000000000..2a3afb2282 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/io_target.markdown @@ -0,0 +1,17 @@ +This module allows you to explore the tumor expression of some of the immuno-oncological (IO) targets discussed in +[Cancer Research Institute](href="https://www.cancerresearch.org) +[Clinical Accelerator](https://www.cancerresearch.org/scientists/clinical-accelerator/leadership) publications + +- Comprehensive 2017 IO landscape analysis ([Annals of Oncology](https://academic.oup.com/annonc/article/29/1/84/4693829) December 2017) +- Comprehensive 2018 IO landscape analysis including a comparison to the previous year ([Nature Reviews Drug Discovery](https://www.nature.com/articles/nrd.2018.167) October 2018) +- Comprehensive 2019 IO landscape analysis ([Nature Reviews Drug Discovery](https://www.nature.com/articles/d41573-019-00167-9) September 2019) + +and to connect to additional resources on agents for those targets provided by those studies. + +All displayed targets and descriptions are compiled and annotated by the +[Cancer Research Institute](https://www.cancerresearch.org) +[Clinical Accelerator](https://www.cancerresearch.org/scientists/clinical-accelerator/leadership) +management team using publicly available data, including trade news, company press releases, academic publications, and NCBI. + +For more information about publications and Cancer Research Institute’s IO Landscape, please go to +[Landscape of Immuno-Oncology Drug Development](https://www.cancerresearch.org/scientists/clinical-accelerator/landscape-of-immuno-oncology-drug-development) diff --git a/apps/iatlas/app/inst/markdown/io_target_dist.markdown b/apps/iatlas/app/inst/markdown/io_target_dist.markdown new file mode 100644 index 0000000000..a2aa120768 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/io_target_dist.markdown @@ -0,0 +1,20 @@ +To explore gene expression distributions, vary sample grouping by selecting an option from Explorer Settings in the left panel. +Options include Immune Subtype Groups (default), TCGA Subtype Groups, and TCGA Study. + +For more information about Sample Groups, refer to Sample Group Overview in the left panel. + +Select an IO Target Gene below to see its expression in tumor samples. +By default, IO Target Genes are grouped by therapy type. +To vary IO Target Category, select a different option from IO Target Category (drop-down menu on the right) to re-organize the IO Target Gene list. + +The IO Target Categories are: + +*Therapy Type*, the type of therapy as described in [Annals of Oncology](href="https://academic.oup.com/annonc/article/29/1/84/4693829), December 2017 + +- **T-cell-targeted immunomodulators**, that act on inhibitory or activating molecules expressed by T cells +- **Other immunomodulators**, that act on other immune cells or the tumor immune microenvironment to unleash antitumor immunity +- **Targeted by Other Immuno-Oncology Therapy Type**, (Cancer Vaccine, Cell therapy, Oncolytic Virus, and CD3-targeted bispecific antibody) to unleash antitumoral immunity + +*Pathway*, one of the molecular pathways to which the target protein belongs. +Sourced from [NCBI Biosystems](href="https://www.ncbi.nlm.nih.gov/biosystems/) (e.g. KEGG database, Reactome database, WikiPathways). + diff --git a/apps/iatlas/app/inst/markdown/io_target_dt.markdown b/apps/iatlas/app/inst/markdown/io_target_dt.markdown new file mode 100644 index 0000000000..690bc601c3 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/io_target_dt.markdown @@ -0,0 +1,7 @@ +The table shows annotations of the IO Targets, with columns as described above +and description based on public resources such as NCBI. +Use the Search box in the upper right to find an IO target of interest. + +The last column provides a direct link to target information on the +IO Landscape resource such as number of target agents under active +development, and development stage. diff --git a/apps/iatlas/app/inst/markdown/methods/BCR.markdown b/apps/iatlas/app/inst/markdown/methods/BCR.markdown new file mode 100644 index 0000000000..21c029400a --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/BCR.markdown @@ -0,0 +1,34 @@ +**Title:** BCR Inference from Tumor RNA-Seq Data + +**Description:** We used the VDJer tool (Mose et al., 2016), running + on the ISB Cancer Genomics Cloud , to reconstruct the immunoglobulin + heavy chain for all tumor samples. Paired end mRNASeq FASTQ data + were aligned to human reference genome hg38 using STAR version + 2.4.2a (Dobin et al., 2013). FASTQ files containing more than one + read length were truncated to the shorter length. STAR was + configured to emit unmapped reads within the output BAM files and + samtools was used to generate BAM indices. An estimated insert size + for each sample was calculated by using bwa version 0.7.12 (Li and + Durbin, 2009) to align the first 1,000,000 read pairs of each sample + to a reference human transcriptome and identifying the median bwa + computed insert length. BCR heavy chain contigs and read alignments + were generated using V'DJer version 0.12 run in standard mode. RSEM + version 1.2.21 (Li and Dewey, 2011) was then used to quantify the + BCR contigs. The RSEM reference was generated by running + rsem-prepare-reference against the BCR contig fasta file and + quantification was performed using + rsem-calculate-expression. Expression counts were normalized to the + total mRNASeq count for each sample. Isotypes for each contig were + identified by mapping the trailing 48 bases to the hg38 reference + and using the resultant alignment coordinates to call the + isotype. IMGT/HighV-Quest (Lefranc et al., 2009) + (http://www.imgt.org/IMGTindex/IMGTHighV-QUEST.php) was used to + identify V and J gene segments, CDR3 sequence and V region identity + for each contig. IgH diversity scores (Shannon Entropy, Evenness, + and Richness) are provided in Table S1 of the manuscript and in this + tool. + +[Reference Listing](https://www.cell.com/immunity/references/S1074-7613\(18\)30121-3) + +**Contributors:** Joel Parker, Lisle E. Mose, Sheila M. Reynolds, Benjamin Vincent + diff --git a/apps/iatlas/app/inst/markdown/methods/CI.markdown b/apps/iatlas/app/inst/markdown/methods/CI.markdown new file mode 100644 index 0000000000..d5c3c8935d --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/CI.markdown @@ -0,0 +1,7 @@ +**Title:** Confidence Interval for Prognostic Correlation + +**Description:** To further dissect the prognostic impact of individual gene expression signatures or immune cell types within immune subtypes and tumor types, we used the concordance index (CI) (Pencina and D'Agostino, 2004) to correlate the immune signatures and the cellular fractions with the outcomes (OS and PFI). The concordance index is defined by the relative frequency of accurate pairwise predictions of survival over all pairs of patients for which such a meaningful determination can be achieved. Samples with missing values in the features of interest or the outcomes were excluded from the analysis. Heatmaps were generated in R using the heatmap.2 function from the gplots package. + +[Reference List](https://www.cell.com/immunity/references/S1074-7613\(18\)30121-3) + +**Contributors:** Tai-Hsien Ou Yang, Dimitris Anastassiou diff --git a/apps/iatlas/app/inst/markdown/methods/CIBERSORT.markdown b/apps/iatlas/app/inst/markdown/methods/CIBERSORT.markdown new file mode 100644 index 0000000000..48e4b4b2fb --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/CIBERSORT.markdown @@ -0,0 +1,42 @@ +**Title:** Immune Cellular Fraction Estimates + +**Description:** The relative fraction of 22 immune cell types within the leukocyte compartment were estimated using CIBERSORT (Newman et al., 2015). These proportions were multiplied by LF to yield corresponding estimates in terms of overall fraction in tissue. Further, values were aggregated in various combinations to yield abundance of more comprehensive cellular classes, such as lymphocytes, macrophages and CD4 T cells. More specifically, we applied CIBERSORT to TCGA RNASeq data. CIBERSORT (cell-type identification by estimating relative subsets of RNA transcripts) uses a set of 22 immune cell reference profiles to derive a base (signature) matrix which can be applied to mixed samples to determine relative proportions of immune cells. As several key immune genes used in the signatures are absent from TCGA GAF (Generic Annotation File) Version 3.0, we applied CIBERSORT to a re-quantification of the TCGA data using Kallisto (Bray et al., 2016) and the Gencode GTF (Harrow et al., 2012)(available from https://www.gencodegenes.org/), which includes the missing genes. A version of the entire TCGA RNA-seq data normalized to Gencode with Kallisto was computed on the ISB Cancer Genomics Cloud by Steve Piccolo's group at BYU (https://osf.io/gqrz9/wiki/home/) (Tatlow and Piccolo, 2016). + +In order to relate to results to other estimates in this study, three aggregation schemes were defined as follows + +*Aggregate 1* +(6 classes; Used in Figure 2A, e.g.) Lymphocytes=B.cells.naive+B.cells.memory+T.cells.CD4.naive+T.cells.CD4.memory.resting+T.cells.CD4.memory.activated+T.cells.follicular.helper+T.cells.regulatory..Tregs+T.cells.gamma.delta+T.cells.CD8+NK.cells.resting+NK.cells.activated+Plasma.cells, +Macrophages=Monocytes + Macrophages.M0 + Macrophages.M1 + Macrophages.M2 +Dendritic.cells=Dendritic.cells.resting + Dendritic.cells.activated, +Mast.cells=Mast.cells.resting + Mast.cells.activated, +Neutrophils=Neutrophils, +Eosinophils=Eosinophils, + +*Aggregate 2* +(9 classes; used for cytokine network, including Figure 7A,B,C) +T.cells.CD8=T.cells.CD8, +T.cells.CD4=T.cells.CD4.naive+T.cells.CD4.memory.resting+T.cells.CD4.memory.activated, +B.cells=B.cells.naive + B.cells.memory, +NK.cells=NK.cells.resting+NK.cells.activated, +Macrophage=Macrophages.M0 + Macrophages.M1 + Macrophages.M2, +Dendritic.cells=Dendritic.cells.resting + Dendritic.cells.activated, +Mast.cells=Mast.cells.resting + Mast.cells.activated, +Neutrophils=Neutrophils, +Eosinophils=Eosinophils + +*Aggregate 3* +(11 classes) +T.cells.CD8=T.cells.CD8, +T.cells.CD4=T.cells.CD4.naive+T.cells.CD4.memory.resting+T.cells.CD4.memory.activated+T.cells.follicular.helper+T.cells.regulatory..Tregs, +T.cells.gamma.delta=T.cells.gamma.delta, +B.cells=B.cells.naive + B.cells.memory, +NK.cells=NK.cells.resting+NK.cells.activated, +Plasma.cells=Plasma.cells, +Macrophage=Monocytes + Macrophages.M0 + Macrophages.M1 + Macrophages.M2, Dendritic.cells=Dendritic.cells.resting + Dendritic.cells.activated, +Mast.cells=Mast.cells.resting + Mast.cells.activated, +Neutrophils=Neutrophils, +Eosinophils=Eosinophils + +[Reference List](https://www.cell.com/immunity/references/S1074-7613\(18\)30121-3) + +**Contributors:** Andrew Gentles, Vesteinn Thorsson, Alex J. Lazar, David L. Gibbs diff --git a/apps/iatlas/app/inst/markdown/methods/CNVR-DDR.markdown b/apps/iatlas/app/inst/markdown/methods/CNVR-DDR.markdown new file mode 100644 index 0000000000..a6dac91252 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/CNVR-DDR.markdown @@ -0,0 +1,12 @@ +**Title:** Copy Number and DNA Damage Scores + +**Description:** All purity, ploidy, LOH and CNV calls used to generate the DNA damage scores used in this study and summarized below were generated by the TCGA Aneuploidy AWG using ABSOLUTE (Carter et al., 2012; Taylor et al., 2018). In brief, ABSOLUTE was run, using default parameters, on segmentation data generated from Affymetrix genome-wide human SNP6.0 arrays by hapseg and on SNV and indel calls from the MC3 variant file. All clonality calls for quantifying intratumoral heterogeneity (ITH) were also determined by ABSOLUTE, which models tumor copy number alterations and mutations as mixtures of subclonal and clonal components of varying ploidy. Specifically, for these analyses, ITH score was defined as the subclonal genome fraction (which measures the fraction of tumor genome that is not part of the "plurality" clone), as determined from ABSOLUTE. + +Scores for copy number burden, aneuploidy, loss of heterozygosity, and homologous recombination deficiency (HRD) were derived (Knijnenburg et al., 2018). Copy number burden scores frac_altered and n_segs (fraction altered, and number of segments, respectively) represent the fraction of bases deviating from baseline ploidy (defined as above 0.1 or below -0.1 in log2 relative copy number (CN) space), and the total number of segments in each samples copy number profile, respectively. LOH_n_seg and LOH_frac_altered are the number of segments with LOH events and fraction of bases with LOH events, respectively. HRD score is a measure quantifying defects in homologous recombination that sums 3 separate metrics of genomic scarring: large (>15 Mb) non-arm-level regions with LOH, large-scale state transitions (breaks between adjacent segments of >10 Mb), and subtelomeric regions with allelic imbalance. + +Aneuploidy scores were calculated as the sum total of amplified or deleted (collectively altered) arms (Taylor et al., 2018). To call arm alterations, sample chromosome arms were first stratified by sample tumor type, type of alteration being tested (amplification or deletion), and chromosome arm (1p, 1q, etc.). The samples are then clustered using an n-component Gaussian Mixture Model fitted on that particular arms start coordinate, end coordinate, and percentage length of longest joined segment in that arm for each sample (segments were joined until the joined segment either encompassed the entire chromosome or achieved >20% contamination by segments not of that alteration type) for each sample. For each clustering, number of clusters n was chosen from 2-9 based on lowest Bayesian Information Criterion. Arms were designated as as altered if they belonged to a cluster of arms with mean fraction altered >=80%. Each segment was designated amplified, deleted, or neutral based on its copy number relative to the samples rounded ploidy. + +[Reference List](https://www.cell.com/immunity/references/S1074-7613\(18\)30121-3) + + +**Contributors:** Galen Gao, Andrew Cherniack diff --git a/apps/iatlas/app/inst/markdown/methods/CellImage_method.markdown b/apps/iatlas/app/inst/markdown/methods/CellImage_method.markdown new file mode 100644 index 0000000000..b16fda869c --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/CellImage_method.markdown @@ -0,0 +1,11 @@ +**Title:** Cell, ligand and receptor abundance + +**Description:** To generate the cellular image for display, the figure was drawn in Adobe Illustrator, exported to SVG and transformed into “Cairo” graphic SVG format for import into R as a grid object (using the R package grImport2). The proteins and cells shown in the image were then made available for display as a node-edge network. In the node-edge network directionality of network edges follows that of the related CRI iAtlas module devoted to showing extracellular networks of the tumor microenvironment. + +To yield values for display, the gene expression values for each protein shown were first binned into tertiles (low, medium, high). The binning was performed over all TCGA samples. The ‘abundance’ was computed as the fraction of samples within a the selected subtype that map to the mid and high value bins. The abundance can thus range from 0 to 1. Identical binning was performed to yield cell abundance within the subtype. + +Some details of the value estimation prior to binning are as follows. Immune cell abundance was estimated with CIBERSORT. The T Cell estimate corresponds to the CD8 T Cell estimate from CIBERSORT; Macrophage level is given by the sum of M0, M1, M2 macrophages according to CIBERSORT; Dendritic cells are a combination of CIBERSORT resting and activated Dendritic cells. The Tumor Cells estimate are estimated by TCGA tumor purity. The T cell receptor (TCR) value was approximated by the T Cell estimate. MHC Class I values (MHC) were set to the expression of the single HLA gene HLA-A, and MHC Class II (MHC-II) approximated by the expression of HLA-DPA1. In the network diagram, the TCR and peptide-mediated binding interactions are not shown. ICOSLG codes for the protein ICOSL. + +**Acknowledgment:** The CRI iAtlas team is grateful to Allison Kudla of the Institute for Systems Biology for producing the cell image file and for being patient with multiple requests for modifications. The figure was adapted from *CTLA-4 and PD-1/PD-L1 blockade: new immunotherapeutic modalities with durable clinical benefit in melanoma patients* PA Ott, FS Hodi, and C Robert; Clin Cancer Res. 2013 Oct 1;19(19):5300-9; doi: 10.1158/1078-0432.CCR-13-0143. + +**Contributors:** Vésteinn Thorsson, Carolina Heimann, Allison Kudla, David L. Gibbs, Ilya Shmulevich diff --git a/apps/iatlas/app/inst/markdown/methods/ExpSig.markdown b/apps/iatlas/app/inst/markdown/methods/ExpSig.markdown new file mode 100644 index 0000000000..1432d3ddc4 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/ExpSig.markdown @@ -0,0 +1,7 @@ +**Title:** Tumor Immune Expression Signatures + +**Description:** We undertook an extensive literature search and assembled a collection of 160 immune expression signatures utilizing diverse resources which were considered to be reliable and comprehensive, based on the expert opinions of immune-oncologists in the group. Of these signatures, 83 were derived in the context of studies of the immune response in cancer and the remaining 77 are of general validity for immunity. The 83 signatures that are known to be associated with immune activity in tumor tissue consisted of 68 gene sets collected from earlier studies (Wolf et al., 2014), 9 co-expression signatures derived from computational analysis of all TCGA gene expression data sets (immune metagene attractors), (Cheng et al., 2013a, b), 3 signatures representing the functional orientation of the immune contexture (or Immunologic Constant of Rejection, ICR) (Bedognetti et al., 2016; Galon et al., 2013; Hendrickx et al., 2017), and 3 signatures from a recent study characterizing the immune microenvironment of clear cell renal cell carcinoma (Senbabaoglu et al., 2016). The 77 more general signatures comprised scores of 45 signatures representing individual cell types from two sources (20 from (Gentles et al., 2015) and 25 from (Bindea et al., 2013)) and 32 scores encompassing the dominant modes of scores derived from the ImmuneSigDB (Godec et al., 2016)(Collection C7 of MSigDB, Broad Institute)(Subramanian et al., 2005). The modes were determined as the first 32 principal components of 1888 Immune C7 human gene sets, and were used as the full set was overwhelmingly large and complex. Gene sets were scored using single-sample gene set enrichment (ssGSEA) analysis (Barbie et al., 2009), as implemented in the GSVA R package(Hanzelmann et al., 2013). + +[Reference List](https://www.cell.com/immunity/references/S1074-7613\(18\)30121-3) + +**Contributors:** David L. Gibbs, Denise Wolf, Vesteinn Thorsson, Benjamin Vincent, Ilya Shmulevich diff --git a/apps/iatlas/app/inst/markdown/methods/LENS_Neoantigen.markdown b/apps/iatlas/app/inst/markdown/methods/LENS_Neoantigen.markdown new file mode 100644 index 0000000000..7ecaf39069 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/LENS_Neoantigen.markdown @@ -0,0 +1,28 @@ +**Title:** Prediction of Neoantigens + +**Description:** Neoantigens were predicted using the Landscape of Effective Neoantigens Software (LENS) workflow (Vensko 2023). +LENS is a bioinformatic workflow for predicting tumor-specific and tumor-associated antigens across a variety of tumor antigen sources. + +The classes of neoantigens predicted by LENS are: + +- Somatic SNVs: Somatic single-nucleotide variants (SNVs), or variants present within tumor tissue but absent from germline tissue. These peptides may be a direct result of a somatic variant or may be a downstream coding consequence of the variant. + +- Somatic InDels: Somatic insertion/deletion variants (InDels), or variants present within tumor tissue but absent from germline tissue. These peptides may be a direct result of a somatic variant or may be a downstream coding consequence of the variant. + +- Fusion Events: Scenarios in which a translocation, deletion, or inversion causes two previously genomically distant loci to become neighboring sequences or “fuse” within the genome are also of interest as sources of tumor antigens. + +- Splice Variants: Aberrant splicing events create tumor-specific transcripts through intron retention, exon skipping, or altered splice targeting. + +- CTAs and Self-antigens: These antigens are non-mutated self-antigens that may be overexpressed within a tumor. Antigens derived from these transcripts are commonly referred to as cancer testis antigens (CTAs). + +- Virus: Some viruses, such as human papillomavirus, Epstein–Barr virus, human T cell leukemia/lymphoma virus type 1, and hepatitis C virus, are associated with development of cancers in the tissues they infect earning them the label of oncogenic viruses. + +- ERVs: Aberrantly expressed endogenous retroviruses (ERVs). + +More information on LENS is available at: + +[Manuscript](https://academic.oup.com/bioinformatics/article/39/6/btad322/7162685) + +[Gitlab Wiki](https://gitlab.com/landscape-of-effective-neoantigens-software/nextflow/modules/tools/lens/-/wikis/home) + +**Contributors:** Steven P Vensko II, Dante Bortone diff --git a/apps/iatlas/app/inst/markdown/methods/LF.markdown b/apps/iatlas/app/inst/markdown/methods/LF.markdown new file mode 100644 index 0000000000..a918dbfd44 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/LF.markdown @@ -0,0 +1,13 @@ +**Title:** Leukocyte Fraction + +**Description:** Overall leukocyte content in 10,817 TCGA tumor aliquots was assessed by identifying DNA methylation probes with the greatest differences between pure leukocyte cells and normal tissue, then estimating leukocyte content using a mixture model. From Illumina Infinium DNA methylation platform arrays HumanMethylation450, 2000 loci were identified (200 for HumanMethylation27) that were the most differentially methylated between leukocyte and normal tissues, 1000 in each direction. + +Using the tumor with the least evidence of leukocyte methylation as a +surrogate for the beta value for each locus in the pure tumor, 2000 +estimates were made, solving for a coefficient pi. We took the mode of 200 estimates to avoid loci that violate the assumptions. Using the estimated and the measured for tumor and leukocyte, with the same linear model, solved for (deconvoluted value) extracting the leukocyte fraction (LF). Estimates for DLBC, THYM, LAML were masked as their tissues of origin are expected to be related to leukocytes, and therefore there were not enough tissue-specific DNA methylation loci to distinguish the two. + +Stromal fraction (SF) was defined as the total non-tumor cellular component, obtained by subtracting tumor purity from unity, with the leukocyte proportion of stromal content R=LF/SF. Tumor purity was generated using ABSOLUTE (Carter et al., 2012),(Taylor et al., 2018). R was estimated by the Pearson correlation coefficient between SF and LF, assessed for individual sample groups (TCGA tumor types, subtypes, and immune subtypes). + +[Reference List](https://www.cell.com/immunity/references/S1074-7613\(18\)30121-3) + +**Contributors:** Hui Shen, Wanding Zhou, Vesteinn Thorsson diff --git a/apps/iatlas/app/inst/markdown/methods/Response_ICI_Predictors.markdown b/apps/iatlas/app/inst/markdown/methods/Response_ICI_Predictors.markdown new file mode 100644 index 0000000000..1bf5e0c3a1 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/Response_ICI_Predictors.markdown @@ -0,0 +1,168 @@ +**Title:** Predictors of Response to Immune Checkpoint Inhibitor immunotherapy + +**Description:** Potential predictors of response to Immune Checkpoint Inhibitors + therapy were computed for all samples in the datasets in the Molecular Response to ICI modules. + + +*Obtaining gene counts:* STAR v2.4.2(Dobin, et al., 2013) was used to align RNA-seq paired fastq reads to the transcript coordinates of hg38. Read mappings to gene isoforms were counted using Salmon v1.1.0(Patro, et al., 2017). These isoform counts were mapped to genes using biomart(Durinck, et al., 2009) and summed for gene-level counts. + + +*Diversity calculation:* RNA-seq paired fastq reads were processed using MiXCR v2.1.9(Bolotin, et al., 2015) using the IMGT v201802-5.sv2(Lefranc, 2011) library. Two partial alignments were performed with one extension phase. Abundance was taken as the sum of reads for each clone. Richness was the total number of clones. Chao1(Chiu, et al., 2014) and Shannon entropy(Shannon, 1948) were calculated using the R Package vegan. Evenness was calculated as Shannon entropy / Log(Richness)(Pielou, 1966). d25, d50 and d75 (dXX) indices were calculated as described by VDJTools(Shugay, et al., 2015) GitHub repository: “The estimate equals to 1 - n / N, where n is the minimum number of clonotypes accounting for at least XX% of the total reads and code N is the total number of clonotypes in the sample.” + +*CIBERSORTx:* CIBERSORTx scores were obtained as described(Newman, et al., 2019). + + +*IMPRES:* IMPRES scores were calculated as described(Auslander, et al., 2018) and implemented in the Vincent Lab R-package, binfotron::calc_impres (devtools::install_github("Benjamin-Vincent-Lab/binfotron"). + + +*ICP Ratios:* Biocarta or Reactome CTLA4 signature normalized by the Bindea signature (eg CTLA vs Th1: BIOCARTA_CTLA4_PATHWAY signature score / Bindea_Th1_Cells signature score) + + +*Gene signature derivation:* Gene signatures were derived by running DESeq2(Love, et al., 2014) on gene count data and grouping the significant up and down genes in their respective signatures. + + +*Gene signature calculations:* Gene counts were upper-quartile normalized and then log2 transformed, log2(normalized counts +1). Signatures were calculated as the median log2-transformed value of the genes in a given gene signature. + + +*Gene signature sources:* + +Beck_Mac_CSF1(Beck, et al., 2009) + +Bindea_BCells, Bindea_aDC, Bindea_DC, Bindea_Eosinophils, Bindea_iDC, Bindea_Mast_Cells, Bindea_Neutrophils, Bindea_NK_CD56bright, Bindea_NK_CD56dim, Bindea_NK_Cells, Bindea_pDC, Bindea_Tcm, Bindea_Tem, Bindea_TFH, Bindea_Tgd, Bindea_CD8_TCells, Bindea_TCells, Bindea_THelper, Bindea_Th1_Cells, Bindea_Th2_Cells, Bindea_Th17_Cells, Bindea_TReg, Bindea_Cytotoxic_Cells, Bindea_Macrophages(Bindea, et al., 2013) + +BIOCARTA_CTLA4_PATHWAY(Nishimura, 2004) + +Chan_TIC(Chan, et al., 2009) + +Chang_Serum_Response_Up, CSF1_Response, LIexpression_Score, Module3_IFN_Score, TGFB_Score(Thorsson, et al., 2018) + +Cytolytic_Score(Roufas, et al., 2018) + +Fan_IGG(Fan, et al., 2011) + +GO_BCR_Signaling(Gene Ontology terms 0050853 - GO:0050853) + +GO_TCR_Signaling(Gene Ontology terms 0050852 - GO:0050852) + +IglesiaVincent_BCell, IglesiaVincent_CD8, IglesiaVincent_CD68, IglesiaVincent_MacTh1, IglesiaVincent_TCell (Iglesia, et al., 2014) + +KardosChai_ImSuppress, KardosChai_EMT_DOWN, KardosChai_EMT_UP (Kardos, et al., 2016) + +Palmer_BCell, Palmer_CD8, Palmer_TCell(Palmer, et al., 2006) + +Prat_Claudin(Prat, et al., 2010) + +REACTOME_CTLA4_INHIBITORY_SIGNALING, REACTOME_PD1_SIGNALING (Subramanian, et al., 2005) + +Rody_IL8, Rody_LCK, Rody_TNBC_BCell, Rody_TNBC_TCell (Rody, et al., 2009) + +Schmidt_BCell(Schmidt, et al., 2008) + +IPRES Signatures(Hugo, et al., 2016) + +Hugo_Responder - all genes up in responders from their analysis + +Hugo_FDR_Responder - fdr significant genes from all_re_siggenes + +Hugo_NonResponder - all genes up in non-responders from their analysis + +Hugo_FDR_NonResponder - fdr significant genes from all_nr_siggenes + +Hugo_IPRES26 - IPRES gene set; IPRES06 plus similar gene sets + +Hugo_IPRES22 - IPRES26 minus 4 Hugo et.al. dropped for subsequent analysis + +Hugo_IPRES08 - original significant sets Hugo et.al. found in creating IPRES + +Hugo_IPRES06 - IPRES08 minus 2 gene sets Hugo et.al. felt weren't similar + +Vincent_IPRES_Responder – Vincent Lab analysis of Hugo et.al. data; genes up in responders + +Vincent_IPRES_NonResponder - Vincent Lab analysis of Hugo data; genes up in non-responders + + +**Datasets** + +Gide_Cell_2019(Gide, et al., 2019) + +HugoLo_IPRES_2016(Hugo, et al., 2016) + +IMVigor210(Balar, et al., 2017; Rosenberg, et al., 2016) + +Prins_GBM_2019(Cloughesy, et al., 2019) + +Riaz_Nivolumab_2017(Riaz, et al., 2017) + +VanAllen_antiCTLA4_2015(Van Allen, et al., 2015) + + +**References** + +Auslander, N., et al. Robust prediction of response to immune checkpoint blockade therapy in metastatic melanoma. Nat Med 2018;24(10):1545-1549. + +Balar, A.V., et al. Atezolizumab as first-line treatment in cisplatin-ineligible patients with locally advanced and metastatic urothelial carcinoma: a single-arm, multicentre, phase 2 trial. Lancet 2017;389(10064):67-76. + +Beck, A.H., et al. The macrophage colony-stimulating factor 1 response signature in breast carcinoma. Clin Cancer Res 2009;15(3):778-787. + +Bindea, G., et al. Spatiotemporal dynamics of intratumoral immune cells reveal the immune landscape in human cancer. Immunity 2013;39(4):782-795. + +Bolotin, D.A., et al. MiXCR: software for comprehensive adaptive immunity profiling. Nat Methods2015;12(5):380-381. + +Chan, K.S., et al. Identification, molecular characterization, clinical prognosis, and therapeutic targeting of human bladder tumor-initiating cells. Proc Natl Acad Sci U S A 2009;106(33):14016-14021. + +Chiu, C.H., et al. An improved nonparametric lower bound of species richness via a modified good-turing frequency formula. Biometrics 2014;70(3):671-682. + +Cloughesy, T.F., et al. Neoadjuvant anti-PD-1 immunotherapy promotes a survival benefit with intratumoral and systemic immune responses in recurrent glioblastoma. Nat Med 2019;25(3):477-486. + +Dobin, A., et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 2013;29(1):15-21. + +Durinck, S., et al. Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt. Nat Protoc 2009;4(8):1184-1191. + +Fan, C., et al. Building prognostic models for breast cancer patients using clinical variables and hundreds of gene expression signatures. BMC Med Genomics 2011;4:3. + +Gide, T.N., et al. Distinct Immune Cell Populations Define Response to Anti-PD-1 Monotherapy and Anti-PD-1/Anti-CTLA-4 Combined Therapy. Cancer Cell 2019;35(2):238-255 e236. + +Hugo, W., et al. Genomic and Transcriptomic Features of Response to Anti-PD-1 Therapy in Metastatic Melanoma. Cell 2016;165(1):35-44. +Iglesia, M.D., et al. Prognostic B-cell signatures using mRNA-seq in patients with subtype-specific breast and ovarian cancer. Clin Cancer Res 2014;20(14):3818-3829. + +Kardos, J., et al. Claudin-low bladder tumors are immune infiltrated and actively immune suppressed. JCI Insight 2016;1(3):e85902. + +Lefranc, M.P. IMGT, the International ImMunoGeneTics Information System. Cold Spring Harb Protoc2011;2011(6):595-603. + +Love, M.I., Huber, W. and Anders, S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol 2014;15(12):550. + +Newman, A.M., et al. Determining cell type abundance and expression from bulk tissues with digital cytometry. Nat Biotechnol 2019;37(7):773-782. + +Nishimura, D. A View From the Web: BioCarta. Biotechnology Software & Internet Journal 2004;2(3):117-120. + +Palmer, C., et al. Cell-type specific gene expression profiles of leukocytes in human peripheral blood. BMC Genomics 2006;7:115. + +Patro, R., et al. Salmon provides fast and bias-aware quantification of transcript expression. Nat Methods2017;14(4):417-419. + +Pielou, E.C. Species-diversity and pattern-diversity in the study of ecological succession. J Theor Biol1966;10(2):370-383. + +Prat, A., et al. Phenotypic and molecular characterization of the claudin-low intrinsic subtype of breast cancer. Breast Cancer Res 2010;12(5):R68. + +R Core Team. 2014. R: A language and environment for statistical computing. http://www.R-project.org/ + +Riaz, N., et al. Tumor and Microenvironment Evolution during Immunotherapy with Nivolumab. Cell2017;171(4):934-949 e916. + +Rody, A., et al. T-cell metagene predicts a favorable prognosis in estrogen receptor-negative and HER2-positive breast cancers. Breast Cancer Res 2009;11(2):R15. + +Rosenberg, J.E., et al. Atezolizumab in patients with locally advanced and metastatic urothelial carcinoma who have progressed following treatment with platinum-based chemotherapy: a single-arm, multicentre, phase 2 trial. Lancet 2016;387(10031):1909-1920. + +Roufas, C., et al. The Expression and Prognostic Impact of Immune Cytolytic Activity-Related Markers in Human Malignancies: A Comprehensive Meta-analysis. Front Oncol 2018;8:27. + +Schmidt, M., et al. The humoral immune system has a key prognostic impact in node-negative breast cancer. Cancer Res 2008;68(13):5405-5413. + +Shannon, C.E. A Mathematical Theory of Communication. The Bell System Technical Journal 1948;27:379–423, 623–656. + +Shugay, M., et al. VDJtools: Unifying Post-analysis of T Cell Receptor Repertoires. PLoS Comput Biol2015;11(11):e1004503. + +Subramanian, A., et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A 2005;102(43):15545-15550. + +Van Allen, E.M., et al. Genomic correlates of response to CTLA-4 blockade in metastatic melanoma. Science2015;350(6257):207-211. + + +**Contributors:** Dante Bortone, Sarah Entwistle, Benjamin Vincent + diff --git a/apps/iatlas/app/inst/markdown/methods/Survival.markdown b/apps/iatlas/app/inst/markdown/methods/Survival.markdown new file mode 100644 index 0000000000..a950a1e555 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/Survival.markdown @@ -0,0 +1,7 @@ +**Title:** Survival Data + +**Description:** The values of OS, OS.time, PFI, and PFI.time were obtained from (Liu et al., 2018) + +[Reference List](https://www.cell.com/immunity/references/S1074-7613\(18\)30121-3) + +**Contributors:** Jianfang Liu, Hai Hu diff --git a/apps/iatlas/app/inst/markdown/methods/TCGASubtype.markdown b/apps/iatlas/app/inst/markdown/methods/TCGASubtype.markdown new file mode 100644 index 0000000000..852e4e0c85 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/TCGASubtype.markdown @@ -0,0 +1,7 @@ +**Title:** TCGA Molecular Subtypes + +**Description:** Previously published TCGA molecular subtypes from multiple tumor types were collected and compiled into a single matrix. A total of 7,734 TCGA samples were annotated with with molecular subtypes based on TCGA Research Network tumor-specific publications for the following tumor types: ACC, AML, BLCA, BRCA, LGG/GBM , Pan-GI (ESCA/STAD/COAD/READ), HNSC, KICH, KIRC, KIRP, LIHC, LUAD, LUSC, OVCA, PCPG, PRAD, SKCM, THCA, UCEC, and UCS, with publication sources detailed on http://bioinformaticsfmrp.github.io/TCGAbiolinks/subtypes.html. The unified patient-centric matrix contains a comprehensive collection of the subtypes by molecular platform. Each column contains subtype assignments of a particular molecular platform (e.g., mRNA, DNA methylation, protein). We selected the most prominent subtype classification of a particular tumor type based on the corresponding paper recommendation and stored this information in column named Subtype_Selected.The subtype collection matrix and the bibliography associated with them are available within TCGAbiolinks on R/Bioconductor (http://bioconductor.org/packages/release/bioc/html/TCGAbiolinks.html) (Colaprico et al., 2016) and using the TCGAbiolinksGUI (Silva et al., 2016). The function PanCancerAtlas_subtypes() provides full access to the curated matrix used for this study. The Subtype_Selected column was used for molecular subtypes in this study. + +[Reference List](https://www.cell.com/immunity/references/S1074-7613\(18\)30121-3) + +**Contributors:** Tathiane Malta, Houtan Noushmehr, Antonio Colaprico. diff --git a/apps/iatlas/app/inst/markdown/methods/TCR.markdown b/apps/iatlas/app/inst/markdown/methods/TCR.markdown new file mode 100644 index 0000000000..faf3f6d0d3 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/TCR.markdown @@ -0,0 +1,16 @@ +**Title:** TCR Inference from Tumor RNA-Seq Data + +**Descriptions:** Identification of TCR CDR3 sequences from T cells + present in the sequenced tumor sections was performed using MiTCR + v1.0.3,(Bolotin et al., 2013) and previously described parameters to + optimize extraction from RNA-seq datasets (Brown et al., + 2015). Briefly, paired-end fastq files were concatenated into a + single file and run through MiTCR using the appropriate parameter + set for the sequence read length as described in Brown et al. Runs + were performed on the ISB Cancer Genomics Cloud. TCR diversity + scores (Shannon Entropy, Evenness, and Richness) are provided in + manuscript Table S1 and in this tool. + +[Reference List](https://www.cell.com/immunity/references/S1074-7613\(18\)30121-3) + +**Contributors:** Scott D. Brown, Sheila M. Reynolds diff --git a/apps/iatlas/app/inst/markdown/methods/germline-colocalization.md b/apps/iatlas/app/inst/markdown/methods/germline-colocalization.md new file mode 100644 index 0000000000..51a81a15c0 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/germline-colocalization.md @@ -0,0 +1,21 @@ +**Title:** Germline Colocalization + +**Descriptions:** *Gene expression and splice quantitative trait locus analysis, and Colocalization:* We performed eQTL and sQTL analyses in TCGA and used summary statistics from the GTEx datasets to search for potential candidate genes. We excluded the HLA and IL17RA loci since SNPs at these loci are known eQTLs for genes that are part of the immune trait. For the significant and suggestive SNPs, we tested all genes within +/- 1MB for eQTL and all transcipts within +/- 500KB for sQTL. We used a shorter range for sQTLs with the assumption that SNPs affecting splicing are likely to act at a shorter distance. + + +*TCGA dataset:* RNA-seq gene expression and splicing data were downloaded from the NIH Genomics Data Commons (https://gdc.cancer.gov/about-data/publications/pancanatlas and https://gdc.cancer.gov/about-data/publications/PanCanAtlas-Splicing-2018 (Kahles et al., 2018). For the sQTL analysis, we considered the following splicing categories: 3’, 5’, exome skipping, intron retention, and mutually exclusive exon events quantified by the Percent Spliced In (PSI) (Kahles et al., 2018). Only splicing events with more than 800 non-missing observations (~10% of the total data) were considered. Association analyses between either gene expression or PSI and the imputed SNPs were performed using linear regression using age, sex, PC1-7, and cancer type as covariates. We calculated FDR for each SNP separately, under the assumption that the SNP was already either significant or suggestive, and thus we had to correct for each of the genes at the locus but not all of the other SNPs (Table S5). We then selected the SNP-gene expression (eQTL) or SNP-gene splicing (sQTL) pairs with FDR p < 0.1 for further colocalization analysis. + + +*GTEx dataset:* We downloaded all summary statistics for expression quantitative loci (eQTL - GTEx_Analysis_v8_eQTL_all_associations), and splicing quantitative loci (sQTL - GTEx_Analysis_v8_sQTL_all_associations) from GTEx project (https://console.cloud.google.com/storage/browser/gtex-resources) using the results from the latest version of the GTEx database (Version 8). For each SNP that had a genome-wide significant or suggestive association with one of the 33 immune traits by GWAS, we extracted all of the association statistics from the summary statistics for eQTL within +/- 1MB and for sQTLs within +/- 500 KB from all tissues in the GTEx summary statistics dataset. We then calculated FDR for each SNP, correcting for all of the genes at the locus across all tissues as we did for TCGA. For eQTL and/or sQTLs that had FDR p < 0.1, we pursued colocalization as below. TCGA GWAS summary statistics are annotated in Build 37, GTEx QTL summary stats are annotated in Build 38, when appropriate, liftover from Build 38 to 37 are provided using R/Bionconductor packages AnnotationHub (v2.12.1) (AH14150 chain file) and rtracklayer (v1.40.6). In the GTEx summary file (Tale S5) we annotated both Build 37 and Build 38 positions. + + +*Colocalization analysis:* We performed colocalization posterior probability (CLPP) analysis using eCAVIAR (Hormozdiari et al., 2016) on both TCGA and GTEx results. eCAVIAR computes a posterior probability of causality based on association data and LD structure for the eQTL/sQTL and the trait GWAS and then calculates the joint probability of both of these being causal. It requires both summary statistics from GWAS and from the eQTL/sQTL analysis and the LD matrix of SNPs used in both analyses. For TCGA, we began with all SNPs that had FDR p < 0.1 with at least one gene and/or transcript and computed the eQTL and sQTL associations for the surrounding SNPs from the index SNP for that same gene/transcript using the same approach as outlined above. For GTEx, we began with SNP-gene expression or SNP-gene splicing pairs that met our FDR p < 0.1 criteria and extracted the eQTL and sQTL results for the surrounding SNPs from the summary results. For the GWAS and TCGA analyses, we calculated the genotype correlation (r) at each locus from the genotype data. For the GTEx analysis, we downloaded the individual genotype data from dbGAP for GTEx participants (https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000424.v8.p2) and calculated genotypic correlation between SNPs in R. We then ran eCAVIAR separately for each FDR p < 0.1 eQTL and sQTL association from TCGA and GTEx, considering models at each locus that assume one or two causal variants. For each SNP-gene expression or SNP-gene splicing category pair, 200 SNPs (+/- 100 SNPs) around the index SNP were included in colocalization analysis. The CLPP of each SNP being causal was calculated, and also a regional CLPP by summing all 201 SNP CLPPs. We used a posterior probability of > 0.01 to consider plausible colocalization, including both the 1 and 2 locus model and considering the sum of the posterior probability SNPs in the colocalization results. + + +*Expanded region criteria for colocalization:* Since eCAVIAR identified multiple genes at the same locus for many loci that have plausible colocalization within a +/- 100 SNP boundary, we sought stronger evidence for colocalization at the loci where eCAVIAR found colocalization by examining an expanded region. We reasoned that a gene or transcript that is causal for the immune trait should not be more strongly associated with another SNP in the region that has little or no evidence of association with the immune trait. Therefore, for each gene or splice variant that had plausible colocalization by eCAVIAR, we performed an expanded region search (+/- 1MB for eQTLs and +/- 500KB for sQTLs) to see if we can identify one or more SNPs that had a stronger effect in the eQTL/sQTL analysis in the same tissue/dataset, which we called “counter-evidence” SNPs. If eCAVIAR produced plausible evidence of colocalization (posterior prob>0.01) and we could find no SNPs that met our counter-evidence criteria in the expanded region, we considered the expanded region evidence for colocalization as strong. If we did find SNPs that met our counter-evidence criteria in the expanded region, then we compared the significance level for the eQTL/sQTL association of the counter-evidence SNP vs. the eQTL/sQTL association with index SNP (associated with the immune trait). If the counter-evidence SNP association with eQTL or sQTL had a neg log10 p value that was less or equal than 1.5 higher than the index SNP (GWAS significant SNP for the immune trait), then we considered the expanded region evidence as intermediate. If the difference in -log10 p values was >1.5, we considered the expanded region analysis to be negative. + To visualize the colocalization in the expanded region, we generated plots that show the -log10 p QTL vs. -log10 p GWAS for all of the GWAS significant SNPs with CLPP > 0.01. The plots included the association p values for all of the SNPs at +/- 1MB for eQTL and at +/- 500KB for sQTL from the gene which had a CLPP > 0.01. These plots are available at Figshare (GTEX expanded region analysis plots: https://doi.org/10.6084/m9.figshare.13089341; ; TCGA expanded region analysis plots: https://doi.org/10.6084/m9.figshare.13090031. . We color-coded these plots with the LD, based on the LD matrix from the TCGA. Counter-SNPs are found in the top left corner of these plots (i.e. strong association with the eQTL or sQTL but no association with the immune trait). Conversely if there were no counter-SNPs, then the strongest SNPs for association with the immune trait were also the strongest SNPs for the association with the eQTL/sQTL. + + +[Reference Listing](https://doi.org/10.1016/j.immuni.2021.01.011) + +**Contributors:** Rosalyn Sayaman, Donglei Hu, Mohamad Saad, Elad Ziv, Davide Bedognetti diff --git a/apps/iatlas/app/inst/markdown/methods/germline-gwas.md b/apps/iatlas/app/inst/markdown/methods/germline-gwas.md new file mode 100644 index 0000000000..0c337b55a0 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/germline-gwas.md @@ -0,0 +1,8 @@ +**Title:** Germline GWAS + +**Descriptions:** We selected each of the immune phenotypes that demonstrated nominally significant genome-wide heritability (N=33) for GWAS. GWAS was conducted on all of the genotyped SNPs that passed QC and all of the imputed SNPs that had imputation R2 > 0.5 and minor allele frequency > 0.005 in the 9,603 unrelated individuals (PLINK 1.9 identity by descent, IBD, pihat < 0.25). Minor allele frequencies were recalculated post-imputation for only the subset of 9,603 individuals (PLINK 1.9). Of the 39,127,678 SNPs available after imputation, 10,955,441 passed both imputation quality and frequency thresholds and thus were included in the association analysis. +GWAS was performed using PLINK 1.9. Immune phenotypes that were approximately normally distributed or normally distributed after stratification by covariates were tested for association with SNPs using linear regression with age, tumor type, sex and PC1-7 as covariates. Immune traits that were dichotomized for heritability analyses were analyzed using logistic regression models, with the same covariates. For each GWAS we also calculated the genome-wide inflation coefficient (lambda). We used the traditional cutoff of p < 5x10-8 as a cutoff for genome-wide significance and p < 1x10-6 to denote suggestive loci. Since we only selected the subset of phenotypes that was heritable and since many of the phenotypes were highly correlated, we did not correct the GWAS for the number of phenotypes analyzed. SNPs were annotated based on spanned genomic ranges (R v3.5.0, Bioconductor package GenomicRanges_1.32.6) with rsIDs (R v3.5.0, R package snplist_0.18.1, Bioconductor package SNPlocs.Hsapiens.dbSNP144.GRCh37_0.99.20) and with genes within +/- 50KB, +/- 500KB, and +/- 1MB of the SNP (R v3.5.0, Bioconductor package biomaRt_2.36.1 using grch37.ensembl.org as host). Variant annotations for all genome-wide and suggestive SNPs were determined using the web interface of the Ensembl Variant Effect Predictor (VEP, https://grch37.ensembl.org/info/docs/tools/vep/index.html. All annotations were based on Homo sapiens (human) genome assembly GRCh37 (hg19) from Genome Reference Consortium. All association statistics for the GWAS are available at Figshare https://figshare.com/articles/dataset/Sayaman_et_al_TCGA_Germline-Immune_GWAS_Summary_Statistics/13077920. + +[Reference Listing](https://doi.org/10.1016/j.immuni.2021.01.011) + +**Contributors:** Rosalyn Sayaman, Elad Ziv diff --git a/apps/iatlas/app/inst/markdown/methods/germline-rarevariants.md b/apps/iatlas/app/inst/markdown/methods/germline-rarevariants.md new file mode 100644 index 0000000000..671fdf5034 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/germline-rarevariants.md @@ -0,0 +1,12 @@ +**Title:** Rare Variants + +**Descriptions:** For rare variant analysis, we focused on well-annotated, germline pathogenic or likely pathogenic cancer predisposition variants as previously defined (allele frequency in 1000 Genomes and ExAC (release r0.3.1) < 0.05%) (Huang et al., 2018). +Exome files related to samples for which all the covariates (age, imputed sex, PC 1-7, and cancer type) and at least one immune trait was available were retained (N = 9,138). There were 832 pathogenic/likely pathogenic SNPs/Indels events with at least one copy of rare allele in the whole exome sequencing data, corresponding to 586 distinct pathogenic SNPs/Indels mapping to 99 genes. + +We performed a pathway burden analysis using selected pre-defined biological pathways such as DNA damage repair and onco-genic processes, pan-cancer and per cancer (Bailey et al., 2018; Huang et al., 2018; Knijnenburg et al., 2018). These pathways were manually curated to generate a list of mutually exclusive pathways. The only genes that were not collapsed into pathways were BRCA1 and BRCA2 for which a sufficient number of events across cancers exist. Overall, 21 genotypic variables were used for analyses (Figure S7A). In the pan-cancer analysis, we only included genes (BRCA1/BRCA2) or pathways with a number of events (mutations) greater than 4 across cancers, including a total of 90 genes. For each pathway, variants that fall within its selected set of genes were collapsed based on the presence or absence of any rare variant (i.e., 0 if no rare variant was present and 1 if there is at least one variant). We conducted regression analyses (linear or logistic, as done for GWAS) to assess the association between the pathways’ burden of rare variants and immune traits. Traits assessed in these analyses were the same as the ones used for heritability analyses, with the addition of the immune subtypes (C1, C2, etc.), DNA-alteration related metrics such as the mutational load, the neoantigen load, the degree of copy number alterations (Thorsson et al., 2018) and the MANTIS score (threshold = 0.4, Middha et al., 2017). All pan-cancer regression models included the following covariates: age, sex, cancer type, and PC1-7. + +In the pan-cancer analysis, we used a Benjamini-Hochberg FDR (Benjamini and Hochberg, 1995) to correct for multiple hypothesis testing, accounting for all 21 genes and pathways tested and 154 phenotypes (139 immune traits, 9 DNA related metrics, and 6 immune subtypes). We used a cutoff of FDR p < 0.1 to identify significant gene/pathway-immune trait associations and a threshold of nominal p < 0.005 (FDR <= 0.25) to identify suggestive associations. We used a more permissive cut-off in these analyses than the ones used in the heritability and GWAS to reduce type II error due to the low number of events (germline mutations). + +[Reference Listing](https://doi.org/10.1016/j.immuni.2021.01.011) + +**Contributors:** Mohamad Saad, Jessica Roelands, Davide Bedognetti diff --git a/apps/iatlas/app/inst/markdown/methods/germline_heritability.md b/apps/iatlas/app/inst/markdown/methods/germline_heritability.md new file mode 100644 index 0000000000..6ca0709674 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/germline_heritability.md @@ -0,0 +1,15 @@ +**Title:** Heritability + +**Descriptions:** We performed heritability analysis on 139 traits using a mixed-model approach implemented in genome-wide complex trait analysis (GCTA) genomic-relatedness-based +restricted maximum-likelihood (GREML) method (Yang et al., 2010, 2011) to calculate the proportion of immune trait variation that is attributable to common genetic variants (Zaitlen and +Kraft, 2012). Heritability analyses were conducted separately within each ancestry subgroup (NEuropean=7,813, NAfrican=863, NAsian=570, and NAmerican=209 individuals), which were derived from ancestry analysis. + +To reduce bias in the heritability estimates, we removed one of each pair of related individuals with Ajk > 0.05 (calculated from SNPs with MAF > 0.01) prior to running GREML. We calculated heritability using an unconstrained approach (allowing heritability to be < 0 - those values were truncated in CRI iAtlas). We used the likelihood ratio test (LRT) implemented in GREML to test if heritability is different than zero for each of the immune traits analyzed and used Benjamini-Hochberg adjustment (Benjamini and Hochberg, 1995) to calculate the FDR. All heritability analyses were run with age, tumor type, sex and PC 1-7 as covariates. + +We also used GREML to determine whether there are any contextual factors that interact with genome-wide common variant effects, including the major immune subtypes as determined by Thorsson et al and somatic mutations (divided into tertiles and dichotomized at 10 MB). We implemented the gene x environment (GxE) feature calculation in the European in GREML. For +those immune traits for which we found nominally significant (p < 0.05) interactions, we calculated heritability in each stratified subset, as well as with immune subtype as an additional +covariate. For GxE calculations, the LRT tests the significance of the variance of GxE interaction effects. + +[Reference Listing](https://doi.org/10.1016/j.immuni.2021.01.011) + +**Contributors:** Rosalyn Sayaman, Elad Ziv diff --git a/apps/iatlas/app/inst/markdown/methods/ici_models.markdown b/apps/iatlas/app/inst/markdown/methods/ici_models.markdown new file mode 100644 index 0000000000..ee1ed5e136 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/ici_models.markdown @@ -0,0 +1,95 @@ +**Title:** Multivariable Models with ICI datasets + +**Description:** + +*Conditions for inclusion in the training and testing data:* Given a selection of datasets to train and test a model, samples from these datasets will be included if they have the following characteristics: +- Sample was collected pre ICI treatment +- Sample has mRECIST annotation +- There is no NA value for any of the selected predictors + +Datasets selected for training will be merged after normalization. + + +*Normalization*: In case normalization of numeric predictors is selected, normalization will be computed by subtracting each observation from the mean and dividing by the standard deviation. In the training data, the mean and standard deviation are computed independently in each training dataset. For the testing data, the mean and standard deviation of a given predictor correspond to the value for the whole training set (ie, after merging all datasets selected for training). + + +*Balancing categorical variables:* By default, each fold in cross-validation will have a previous step of balancing for the selected Response variable (you can turn it off in the Advanced options). Other selected categorical predictors can also be included in this process. Balancing is performed by the function `createFolds` in the `caret` package (Kuhn, 2020). + + +*Training and cross-validation:* We use functions from the `caret` package (Kuhn, 2020), as described below. + +- *Elastic Net* +``` +model <- caret::train( + parameters, data = train_df, method = "glmnet", + trControl = caret::trainControl(index = cvIndex, "cv", number = n_cv_folds), + tuneLength = 15 + ) +``` + +- *Logistic regression* +``` +model <- caret::train( + parameters, data = train_df, method = "glm", family = "binomial", + trControl = caret::trainControl(index = cvIndex, "cv", number = n_cv_folds), + tuneLength = 15 + ) +``` + +- *Random Forest* +``` +model <- caret::train( + parameters, data = train_df, method = "rf", + trControl = caret::trainControl(index = cvIndex, "cv", number = n_cv_folds), + tuneLength = length(predictors) + ) +``` + +- *XGBoost* +``` +model <- caret::train( + parameters, data = train_df, method = "xgbTree", + trControl = caret::trainControl(index = cvIndex, "cv", number = n_cv_folds), + tuneLength = 5 + ) +``` + +Where: + +`train_df `= training data after normalization + +`cvIndex` = Index of samples for each fold, after balancing + +`n_cv_folds` = user-selected number of folds for cross validation + +`predictors` = user-selected predictors to be included in the model + + +*Testing:* After the training is completed, the model can be used to predict the response of samples in the testing datasets. The prediction is made using the trained model, the normalized testing dataset and the function `predict` from the caret package. The performance of the model in the testing dataset can then be assessed by a KM plot stratifying patients based on the predicted response, an AUC plot, and a confusion matrix with associated statistics for each one of the datasets selected for testing. + +- *Confusion matrix and statistics:* A confusion matrix with associated statistics is computed by the `confusionMatrix` function in the `caret` package. + + +- *ROC curve:* A ROC curve is made available and is computed by the `roc` function in the `pROC` package (Robin et al, 2011), as described below: + +``` +rocp <- pROC::roc( + response = factor(df[[training_obj$response_var]], ordered = TRUE), + predictor = factor(df$prediction, ordered = TRUE), + levels = names(class_labels), + quiet = TRUE, + auc = TRUE) +``` + +- *KM plot:* The KM plot shows survival curves stratifying patients based on the response predicted by the model, alongside to the log-rank test p-value, as computed by the `survminer::ggsurvplot()` function (Kassambara et al, 2021). + + +**References** + +Kassambara, A; Kosinski, M; Biecek, P (2021). survminer: Drawing Survival Curves using 'ggplot2'. R package version 0.4.9. https://CRAN.R-project.org/package=survminer + +Kuhn, Max (2020). caret: Classification and Regression Training. R package version 6.0-86. https://CRAN.R-project.org/package=caret + +Robin, X; Turck, N; Hainard, A; Tiberti, N; Lisacek, F; Sanchez, JC and Müller, M (2011). pROC: an open-source package for R and S+ to analyze and compare ROC curves. BMC Bioinformatics, 12, p. 77. DOI: 10.1186/1471-2105-12-77 + + diff --git a/apps/iatlas/app/inst/markdown/methods/neoantigen-classes.markdown b/apps/iatlas/app/inst/markdown/methods/neoantigen-classes.markdown new file mode 100644 index 0000000000..b46f4a9055 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/neoantigen-classes.markdown @@ -0,0 +1,26 @@ +**Title:** Classes of predicted neoantigens + +**Description:** +The classes of neoantigens predicted by LENS are: + +- Somatic SNVs: Somatic single-nucleotide variants (SNVs), or variants present within tumor tissue but absent from germline tissue. These peptides may be a direct result of a somatic variant or may be a downstream coding consequence of the variant. + +- Somatic InDels: Somatic insertion/deletion variants (InDels), or variants present within tumor tissue but absent from germline tissue. These peptides may be a direct result of a somatic variant or may be a downstream coding consequence of the variant. + +- Fusion Events: Scenarios in which a translocation, deletion, or inversion causes two previously genomically distant loci to become neighboring sequences or “fuse” within the genome are also of interest as sources of tumor antigens. + +- Splice Variants: Aberrant splicing events create tumor-specific transcripts through intron retention, exon skipping, or altered splice targeting. + +- CTAs and Self-antigens: These antigens are non-mutated self-antigens that may be overexpressed within a tumor. Antigens derived from these transcripts are commonly referred to as cancer testis antigens (CTAs). + +- Virus: Some viruses, such as human papillomavirus, Epstein–Barr virus, human T cell leukemia/lymphoma virus type 1, and hepatitis C virus, are associated with development of cancers in the tissues they infect earning them the label of oncogenic viruses. + +- ERVs: Aberrantly expressed endogenous retroviruses (ERVs). + +More information about LENS is available at: + +[Manuscript](https://academic.oup.com/bioinformatics/article/39/6/btad322/7162685) + +[Gitlab Wiki](https://gitlab.com/landscape-of-effective-neoantigens-software/nextflow/modules/tools/lens/-/wikis/home) + +**Contributors:** Steven P Vensko II, Dante Bortone, Carolina Heimann diff --git a/apps/iatlas/app/inst/markdown/methods/neoantigen-correlation.markdown b/apps/iatlas/app/inst/markdown/methods/neoantigen-correlation.markdown new file mode 100644 index 0000000000..36f6561af4 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/neoantigen-correlation.markdown @@ -0,0 +1,12 @@ +**Title:** Correlation of frequency of neoantigens with immune readouts + +**Description:** + +Neoantigen prediction was performed using the Landscape of Effective Neoantigens Software (LENS) workflow (Vensko 2023). For a selected type of neoantigen, a count of its frequency per patient was performed. The correlation was computed using this count and the feature values for the selected class of immune features, using the selected method (default to Pearson correlation coefficient). + +The generated heatmap groups the samples based on dataset of origin and the grouping criteria selected in the Cohort Selection. + + +[Journal Article about LENS](https://academic.oup.com/bioinformatics/article/39/6/btad322/7162685) + +**Contributors:** Steven P Vensko II, Dante Bortone, Carolina Heimann diff --git a/apps/iatlas/app/inst/markdown/methods/neoantigen-frequency.markdown b/apps/iatlas/app/inst/markdown/methods/neoantigen-frequency.markdown new file mode 100644 index 0000000000..a414e45ffb --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/neoantigen-frequency.markdown @@ -0,0 +1,11 @@ +**Title:** Neoantigen - Frequency of peptide-MHC combinations + +**Description:** +Neoantigen prediction was performed using the Landscape of Effective Neoantigens Software (LENS) workflow (Vensko 2023). +We listed the 1% most common combinations of peptide-MHC (pMHC) across datasets, and collected all occurrences of them. The known genes from which the most frequent pMHCs in the population are derived are included. + +Several of the frequently observed pMHCs are result of different number of mutations. We computed how many mutations events, per patient, resulted in the pMHCs. We used this count and the number of patients who carry a given pMHC to generate the scatterplot. + +[Journal Article about LENS](https://academic.oup.com/bioinformatics/article/39/6/btad322/7162685) + +**Contributors:** Steven P Vensko II, Dante Bortone, Carolina Heimann diff --git a/apps/iatlas/app/inst/markdown/methods/neoantigen-prediction.markdown b/apps/iatlas/app/inst/markdown/methods/neoantigen-prediction.markdown new file mode 100644 index 0000000000..652123f647 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/neoantigen-prediction.markdown @@ -0,0 +1,11 @@ +**Title:** Neoantigen Prediction + +**Description:** +Neoantigen prediction was performed using the Landscape of Effective Neoantigens Software (LENS) workflow (Vensko 2023). + +For datasets where DNA and RNA sequencing data are available, we predicted tumor antigens from single nucleotide variants, insertion/deletions, gene fusions, splice variants, viral and endogenous retroviral genes, and cancer/testis antigens. For datasets where RNA sequencing data alone are available, we predicted tumor antigens derived from gene fusions, splice variants, viral and endogenous retroviral genes, and cancer/testis antigens only (Smith et al. 2019). + +[Journal Article](https://academic.oup.com/bioinformatics/article/39/6/btad322/7162685) + +**Contributors:** Steven P Vensko II, Dante Bortone + diff --git a/apps/iatlas/app/inst/markdown/methods/pMHC-Indel.markdown b/apps/iatlas/app/inst/markdown/methods/pMHC-Indel.markdown new file mode 100644 index 0000000000..2a2265330a --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/pMHC-Indel.markdown @@ -0,0 +1,9 @@ +**Title:** Neoantigen Prediction from Indels + +**Description:** Somatic indel variants were extracted from the MC3 variant file (mc3.v0.2.8.CONTROLLED.maf) with the following filters: FILTER in PASS, wga, native_wga_mix (with no combination with other tags); NCALLERS > 1; barcode in whitelist where do_not_use = False; Variant_Classification = Frame_Shift_Ins, Frame_Shift_Del, In_Frame_Ins, In_Frame_Del, Missense_Mutation, Nonsense_Mutation; and Variant_Type = INS, DEL. For each Indel, the downstream protein sequence was obtained using VEP v87 (Ensembl Variant Effect Predictor) (McLaren et al., 2016) using default settings. + +Using 9-mer peptides extracted from VEP downstream protein sequences and the HLA calls from OptiType, for each sample, binding for each pair of mutant peptide-MHC were predicted using pVAC-Seq v4.0.8 pipeline (Hundal et al., 2016) with NetMHCpan v3.0 using default settings, of which an IC50 binding score threshold 500 nM was used to report the predicted binding epitopes as neoantigens. + +[Reference List](https://www.cell.com/immunity/references/S1074-7613\(18\)30121-3) + +**Contributors:** Nam Sy Vo, Ken Chen diff --git a/apps/iatlas/app/inst/markdown/methods/pMHC-SNV.markdown b/apps/iatlas/app/inst/markdown/methods/pMHC-SNV.markdown new file mode 100644 index 0000000000..8ae14eb4c8 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/pMHC-SNV.markdown @@ -0,0 +1,9 @@ +**Title:** Neoantigen Prediction from SNVs + +**Description:** Potential neoantigenic peptides were identified using NetMHCpan v3.0 (Nielsen and Andreatta, 2016), based on HLA types derived from RNA-seq using OptiType. In brief, using the HLA calls from OptiType, for each sample, all pairs of MHC and minimal mutant peptide were input into NetMHCpan v3.0 using default settings. NetMHCpan will automatically extract all 8-11mer peptides from a minimal peptide sequence and predict binding for each peptide-MHC pair. After computation, the results were parsed to only retain peptides which included the mutated position. Peptides containing amino acid mutations were identified as potential antigens on the basis of a predicted binding to autologous MHC (IC50 < 500 nM) and detectable gene expression meeting an empirically determined threshold of 1.6 transcripts-per-million (TPM). This threshold was selected in order to divide the bimodal distribution in the expression data. + +Specifically, somatic nonsynonymous coding single nucleotide variants were extracted from the MC3 variant file (mc3.v0.2.8.CONTROLLED.maf) with the following filters: FILTER in PASS, wga, native_wga_mix; NCALLERS > 1; barcode in whitelist where do_not_use = False; Variant_Classification = Missense_Mutation; and Variant_Type = SNP. For each SNV, the Ensembl protein reference sequence was obtained, and the minimal peptide encompassing the mutation site plus 10 amino acids up and downstream of the mutation site was extracted (21 aa long peptide). If the mutation occurred within 10 amino acids of the N- or C-terminal end of the protein, all available sequence between the mutation and start/end of the protein was taken, resulting in a minimal peptide shorter than 21 aa. The variant position within the minimal peptide was recorded, and the mutation was applied to the minimal peptide, resulting in a mutant minimal peptide. Variation in sequencing coverage and tumor purity require careful consideration in order to mitigate the risk of impacting mutation calls and on pMHC, and prior to pMHC calling, sequencing data was subjected to rigorous harmonization efforts, performed by the PanCancer MC3 Consortium(Ellrott et al., 2018). + +[Reference List](https://www.cell.com/immunity/references/S1074-7613\(18\)30121-3) + +**Contributors:** Scott D. Brown, Robert A. Holt diff --git a/apps/iatlas/app/inst/markdown/methods/sc-pseudobulk-scoring.md b/apps/iatlas/app/inst/markdown/methods/sc-pseudobulk-scoring.md new file mode 100644 index 0000000000..0ab7d1432f --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/sc-pseudobulk-scoring.md @@ -0,0 +1,9 @@ +**Title:** Geneset Scoring of Pseudobulk single-cell RNA-seq data + +**Description:** + +*Pseudobulk:* Pseudobulk was computed from normalized and log-transformed data, using the *get_pseudobulk* function from the *decoupler* python library (Badia-i-Mompel et al, 2022), with mode set to "sum". + +*Pseudobulk Geneset Enrichment Analysis:* The results from pseudobulk were used for GeneSet Enrichment Analysis (Subramanian, 2003). Scores were computed using the *run_gsea* function from the *decoupler* python library (Badia-i-Mompel et al, 2022). + +**Contributors:** Carolina Heimann, Clarisse Lau, David Gibbs, Vésteinn Thorsson diff --git a/apps/iatlas/app/inst/markdown/methods/sc-pseudobulk.md b/apps/iatlas/app/inst/markdown/methods/sc-pseudobulk.md new file mode 100644 index 0000000000..8ff7e96194 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/methods/sc-pseudobulk.md @@ -0,0 +1,7 @@ +**Title:** Computing Pseudobulk single-cell RNA-seq data + +**Description:** + +*Pseudobulk:* Pseudobulk was computed from normalized and log-transformed single-cell RNA-seq data, using the *get_pseudobulk* function from the *decoupler* python library (Badia-i-Mompel et al, 2022), with mode set to "sum". + +**Contributors:** Carolina Heimann, Clarisse Lau, David Gibbs, Vésteinn Thorsson diff --git a/apps/iatlas/app/inst/markdown/notebook.markdown b/apps/iatlas/app/inst/markdown/notebook.markdown new file mode 100644 index 0000000000..6b186f2e57 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/notebook.markdown @@ -0,0 +1,10 @@ +The CRI iAtlas notebooks are a collection of Jupyter Notebooks that allows users to recreate and expand the analysis and visualizations found in the CRI iAtlas Portal. + + +## How to access the CRI iAtlas notebooks + +**- Locally:** notebooks are available in our [iatlas-notebooks repository on Github](https://github.com/CRI-iAtlas/iatlas-notebooks). + +**- Jupyter lab in MyBinder:** [![badge](https://img.shields.io/badge/launch%20iAtlas%20notebooks-MyBinder-E66581.svg?logo=data:image/png;base64,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)](https://mybinder.org/v2/gh/CRI-iAtlas/iatlas-notebooks/HEAD) + +(We recommend opening MyBinder in Firefox for a better experience) diff --git a/apps/iatlas/app/inst/markdown/overall_cell_proportions1.markdown b/apps/iatlas/app/inst/markdown/overall_cell_proportions1.markdown new file mode 100644 index 0000000000..983be03d04 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/overall_cell_proportions1.markdown @@ -0,0 +1,2 @@ +The barplots show the mean proportion of the tumor fraction, overall stromal fraction (one minus tumor fractions) and the leukocyte fraction of samples with each group. +Error bars show standard error of the mean. diff --git a/apps/iatlas/app/inst/markdown/overall_cell_proportions2.markdown b/apps/iatlas/app/inst/markdown/overall_cell_proportions2.markdown new file mode 100644 index 0000000000..f614143b27 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/overall_cell_proportions2.markdown @@ -0,0 +1,6 @@ +Click on the bars for a sample group and you will get generate a scatter plot, showing leukocyte fraction on the Y-axis and stromal fraction on the X-axis. +Points near the diagonal correspond to tumor samples in which non-tumor stromal cells are nearly all immune cells, and points away from the diagonal correspond to a more mixed or a non-immune stromal tumor microenvironment. +Points in the upper-left triangle of the plot are estimation artifacts. + +Manuscript context: Looking at TCGA tumor types, select PRAD and then SKCM and you will get what corresponds to Figure 2C. + diff --git a/apps/iatlas/app/inst/markdown/resources.markdown b/apps/iatlas/app/inst/markdown/resources.markdown new file mode 100644 index 0000000000..ca15d9281c --- /dev/null +++ b/apps/iatlas/app/inst/markdown/resources.markdown @@ -0,0 +1,78 @@ +## Updates + +Follow [@iatlas_cri](https://twitter.com/iatlas_cri) on Twitter for latest developments! + +## Source code and data resources +iAtlas app, tools, and data and annotations + ++ **GitHub:** https://github.com/CRI-iAtlas ++ **GitLab:** https://gitlab.com/cri-iatlas ++ **iAtlas Notebooks:** https://github.com/CRI-iAtlas/iatlas-notebooks ++ **Synapse:** https://www.synapse.org/#!Synapse:syn10337516/wiki/458420 ++ **Immune Subtype Classifier:** https://github.com/CRI-iAtlas/ImmuneSubtypeClassifier ++ **DockStore:** https://dockstore.org/organizations/SageBionetworks/collections/iatlas + +### TCGA originating sources + ++ **TCGA PanCancer Atlas:** https://gdc.cancer.gov/about-data/publications/pancanatlas ++ **Immune Landscape of Cancer Manuscript Page:** https://gdc.cancer.gov/about-data/publications/panimmune ++ **The Cancer Genome Atlas:** http://cancergenome.nih.gov/ ++ **NCI Genomic Data Commons:** https://portal.gdc.cancer.gov/ + +### Source for targets of immunotherapy studies + ++ **CRI Landscape of Immuno-Oncology Drug Development:** https://www.cancerresearch.org/scientists/immuno-oncology-landscape + +### Source for data in the Molecular Response to Immune Checkpoint Inhibitor modules: + +* [Choueiri et al. Immunomodulatory Activity of Nivolumab in Metastatic Renal Cell Carcinoma. Clin Cancer Res. 2016;22(22):5461-5471](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5106340/) + +* [Cloughesy et al. Neoadjuvant anti-PD-1 immunotherapy promotes a survival benefit with intratumoral and systemic immune responses in recurrent glioblastoma. Nat Med. 2019 Mar;25(3):477-486](https://doi.org/10.1038/s41591-018-0337-7) + +* [Gide et al. Distinct Immune Cell Populations Define Response to Anti-PD-1 Monotherapy and Anti-PD-1/Anti-CTLA-4 Combined Therapy. Cancer Cell. 2019 Feb 11;35(2):238-255.e6](https://www.cell.com/cancer-cell/fulltext/S1535-6108(19\)30037-6) + +* [Hugo et al. Genomic and Transcriptomic Features of Response to Anti-PD-1 Therapy in Metastatic Melanoma. Cell. 2016 Mar 24;165(1):35-44](https://www.cell.com/cell/fulltext/S0092-8674(16\)30215-X) + +* [Kim et al. Comprehensive molecular characterization of clinical responses to PD-1 inhibition in metastatic gastric cancer. Nat Med. 2018 Sep;24(9):1449-1458. doi: 10.1038/s41591-018-0101-z. Epub 2018 Jul 16. PMID: 30013197](https://pubmed.ncbi.nlm.nih.gov/30013197/) + +* [Liu et al. Integrative molecular and clinical modeling of clinical outcomes to PD1 blockade in patients with metastatic melanoma [published correction appears in Nat Med. 2020 Jul;26(7):1147]. Nat Med. 2019;25(12):1916-1927](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6898788/) + +* [Mariathasan et al. TGFβ attenuates tumour response to PD-L1 blockade by contributing to exclusion of T cells. Nature. 2018 Feb 22;554(7693):544-548](https://doi.org/10.1038/nature25501) + +* [McDermott et al. Clinical activity and molecular correlates of response to atezolizumab alone or in combination with bevacizumab versus sunitinib in renal cell carcinoma. Nat Med. 2018 Dec;24(12):1941. Nat Med. 2018;24(6):749-757](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6721896/) + +* [Miao et al. Genomic correlates of response to immune checkpoint therapies in clear cell renal cell carcinoma. Science. 2018;359(6377):801-806](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6035749/) + +* [Riaz et al. Tumor and Microenvironment Evolution during Immunotherapy with Nivolumab. Cell. 2017 Nov 2;171(4):934-949.e16](https://www.cell.com/cell/fulltext/S0092-8674(17\)31122-4) + +* [Van Allen et al. Genomic correlates of response to CTLA-4 blockade in metastatic melanoma. Science. 2015 Oct 9;350(6257):207-211](https://pubmed.ncbi.nlm.nih.gov/26359337/) + +* [Zhao et al. Immune and genomic correlates of response to anti-PD-1 immunotherapy in glioblastoma [published correction appears in Nat Med. 2019 Apr 17;:]. Nat Med. 2019;25(3):462-469](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6810613/) + +## Workflows +Workflows for characterization of immune environment in cancer + ++ **CWL workflows:** https://github.com/CRI-iAtlas/iatlas-workflows ++ **Docker tools:** https://quay.io/organization/cri-iatlas + +## Manuscripts + ++ [Eddy et al. CRI iAtlas: an interactive portal for immuno-oncology research. F1000Research 2020, 9:1028](https://f1000research.com/articles/9-1028/v1) + ++ [Gibbs DL, Robust classification of Immune Subtypes in Cancer, bioRxiv 2020.01.17.910950](https://www.biorxiv.org/content/10.1101/2020.01.17.910950v1) + ++ [Saltz et al. Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images. Cell Rep. 2018 Apr 3;23(1):181-193.e7](https://www.cell.com/cell-reports/fulltext/S2211-1247(18\)30447-9) + ++ [Sayaman et al. Germline genetic contribution to the immune landscape of cancer. Immunity. 2021 Feb 9;54(2):367-386.e8](https://www.cell.com/immunity/fulltext/S1074-7613(21\)00034-0) + ++ [Thorsson et al. The Immune Landscape of Cancer. Immunity. 2018 Apr 17;48(4):812-830.e14](https://www.cell.com/immunity/fulltext/S1074-7613(18\)30121-3) + ++ [Upadhaya et al. Immuno-oncology drug development forges on despite COVID-19. Nat Rev Drug Discov. 2020 Nov;19(11):751-752](https://www.nature.com/articles/d41573-020-00166-1) + +## Organizations +Organizations contributing to CRI iAtlas + ++ **Cancer Research Institute:** http://cancerresearch.org ++ **Sage Bionetworks:** http://www.sagebionetworks.org ++ **Institute for Systems Biology:** http://www.isbscience.org ++ **UNC Lineberger Comprehensive Cancer Center:** https://unclineberger.org diff --git a/apps/iatlas/app/inst/markdown/sample_groups_overlap.markdown b/apps/iatlas/app/inst/markdown/sample_groups_overlap.markdown new file mode 100644 index 0000000000..6e27b700fe --- /dev/null +++ b/apps/iatlas/app/inst/markdown/sample_groups_overlap.markdown @@ -0,0 +1,7 @@ +This displays the overlap between the grouping you are looking at (“first” sample grouping), and an alternate grouping (“second” sample grouping), as a so-called mosaic plot. +In the mosaic plot, each column represents grouping by the alternate method, and the proportion of samples falling into your primary group choice are shown proportionally within that column. +The width of the column reflects the number of samples in the alternate groups." + +Manuscript context: Figure 1D can be generated by selecting Immune Subtype in the top left as the primary group, and “TCGA Study” with the radio buttons below, as the alternate grouping. +Figure S1B corresponds to the opposite choice, and you can generate a mosaic plot for the BRCA subtypes in Figure S1B using this method. + diff --git a/apps/iatlas/app/inst/markdown/sc_immunefeatures.markdown b/apps/iatlas/app/inst/markdown/sc_immunefeatures.markdown new file mode 100644 index 0000000000..18c35aec15 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/sc_immunefeatures.markdown @@ -0,0 +1,3 @@ +This displays the value of immune readouts by cell type, computed based on pseudobulk data. + +Select a variable of interest to see the distribution of values within sample groups of the selected datasets. Samples can be further divided into an additional sub-group based on the availability of those groups for each dataset. Use the plot parameters to adjust the type of plot and choice of scale. A table with the result of statistical tests comparing all pairwise combinations of groups is provided at the bottom of the page. For an A vs B comparison, a positive t-statistics or Wilcox statistics corresponds to an elevated value in the A group over group B (Mean value in A greater than mean in B). The table also includes a comparison of the log2 fold change of groups. diff --git a/apps/iatlas/app/inst/markdown/sc_immunomodulators.markdown b/apps/iatlas/app/inst/markdown/sc_immunomodulators.markdown new file mode 100644 index 0000000000..88f8210078 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/sc_immunomodulators.markdown @@ -0,0 +1,5 @@ +Select an immunomodulator gene to see the distribution of pseudobulk single-cell RNA-seq gene expression within cell types of the selected datasets. + +Pseudobulk values were computed by aggregating the expression values from a group of cells from a cell type from the same individual. + +Samples can be further divided into an additional sub-group based on the availability of those groups for each dataset. Use the plot parameters to adjust the type of plot and choice of scale. A table with statistical tests comparing all pairwise combinations of groups, for each dataset, is provided at the bottom of the page. For an A vs B comparison, a positive t-statistics or Wilcox statistics corresponds to an elevated value in the A group over group B (Mean value in A greater than mean in B). The table also includes a comparison of the log2 fold change of groups. You can view a histogram for any individual distributions by clicking on its distribution plot. diff --git a/apps/iatlas/app/inst/markdown/sc_immunomodulators_bubbleplot.markdown b/apps/iatlas/app/inst/markdown/sc_immunomodulators_bubbleplot.markdown new file mode 100644 index 0000000000..d49ff4bc98 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/sc_immunomodulators_bubbleplot.markdown @@ -0,0 +1 @@ +Select datasets of interest and immunomodulator genes. The resulting plot will display the percentage of cells from a cell type that have detected expression for the selected gene(s), proportional to the circle size. The color of the circles encode the average expression values for a cell type. These values are pre-computed and cannot be further grouped. diff --git a/apps/iatlas/app/inst/markdown/tilmap.markdown b/apps/iatlas/app/inst/markdown/tilmap.markdown new file mode 100644 index 0000000000..0a01691ec1 --- /dev/null +++ b/apps/iatlas/app/inst/markdown/tilmap.markdown @@ -0,0 +1,10 @@ +This module relates to the manuscript: +[Saltz et al. Spatial Organization And Molecular Correlation Of Tumor-Infiltrating Lymphocytes Using Deep Learning On Pathology Images; Cell Reports 23, 181-193, April 3 2018.] +(https://www.cell.com/cell-reports/fulltext/S2211-1247(18\)30447-9) + +TCGA H&E digital pathology images were analyzed for tumor infiltrating lymphocytes (TILs) using deep learning. +The analysis identifies small spatial regions on the slide image - patches - that are rich in TILs. +The resulting pattern of TIL patches are then assessed in multiple ways: +in terms of overall counts and spatial density, and patterns identified by computational analysis and scoring by pathologists." + +These assessments are also available in other modules, and are found under the Variable Class: TIL Map Characteristic. diff --git a/apps/iatlas/app/inst/markdown/tilmap_dist.markdown b/apps/iatlas/app/inst/markdown/tilmap_dist.markdown new file mode 100644 index 0000000000..f0f187f00c --- /dev/null +++ b/apps/iatlas/app/inst/markdown/tilmap_dist.markdown @@ -0,0 +1,4 @@ +Select a TIL map characteristic to see its distribution over sample groups. +Plots are available as violin plots, and box plots with full data points superimposed. +Main immune manuscript context: +If you are looking at immune subtypes, select TIL Regional Fraction to get Figure 3B. diff --git a/apps/iatlas/app/inst/markdown/tilmap_table.markdown b/apps/iatlas/app/inst/markdown/tilmap_table.markdown new file mode 100644 index 0000000000..8f8d58869a --- /dev/null +++ b/apps/iatlas/app/inst/markdown/tilmap_table.markdown @@ -0,0 +1,7 @@ +The table shows annotations of the TIL Map characteristics. +The rightmost column gives access to the +[TIL Maps superimposed on H&E images using the caMicroscope tool] +(https://quip1.bmi.stonybrook.edu:443/select.php) +Zoom in to initiate the view of TIL spatial clusters. +Colors show regions determined by spatial clustering - a view without cluster colors is available through the +question mark / magnifiying glass selector on upper left in caMicroscope. diff --git a/apps/iatlas/app/inst/markdown/tumor_microenvironment.markdown b/apps/iatlas/app/inst/markdown/tumor_microenvironment.markdown new file mode 100644 index 0000000000..8fa7201a2d --- /dev/null +++ b/apps/iatlas/app/inst/markdown/tumor_microenvironment.markdown @@ -0,0 +1,2 @@ +Explore the immune cell proportions in your sample groups. + diff --git a/apps/iatlas/app/inst/svg/tcell-cairo.svg b/apps/iatlas/app/inst/svg/tcell-cairo.svg new file mode 100644 index 0000000000..15c6336099 --- /dev/null +++ b/apps/iatlas/app/inst/svg/tcell-cairo.svg @@ -0,0 +1,815 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff --git a/apps/iatlas/app/inst/tsv/cellimage_annotations.tsv b/apps/iatlas/app/inst/tsv/cellimage_annotations.tsv new file mode 100644 index 0000000000..816256d88e --- /dev/null +++ b/apps/iatlas/app/inst/tsv/cellimage_annotations.tsv @@ -0,0 +1,34 @@ +name display color alpha +T_cells_CD8_Aggregate2 T_cell YlOrBr 0.9 +T_cells_CD8_Aggregate2 T_cell_nucleus YlOrBr 1 +Dendritic_cells_Aggregate2 Dendritic_cell Purples 0.9 +Dendritic_cells_Aggregate2 Dendritic_cell_nucleus Purples 1 +Macrophage_Aggregate2 Tissue_macrophage Blues 0.9 +Macrophage_Aggregate2 Tissue_macrophage_nucleus Blues 1 +Tumor_fraction Tumor YlOrRd 0.9 +Tumor_fraction Tumor_nucleus YlOrRd 1 +T_cells_CD8_Aggregate2 TCR Greens 1 +29851 ICOS Greens 1 +80380 PD-L2 Greens 1 +29126 PD-L1 Greens 1 +940 CD28 Greens 1 +1493 CTLA-4 Greens 1 +959 CD40L Greens 1 +958 CD40 Greens 1 +23308 ICOSL Greens 1 +942 CD86 Greens 1 +941 CD80 Greens 1 +5133 PD-1 Greens 1 +3604 Four.1BB Greens 1 +8744 Four.1BBL Greens 1 +7292 OX40L Greens 1 +7293 OX40 Greens 1 +8995 GITRL Greens 1 +8784 GITR Greens 1 +3105 MHC Greens 1 +3113 MHC-II Greens 1 +3902 LAG-3 Greens 1 +84868 TIM-3 Greens 1 +3965 Galectin_9 Greens 1 +5817 CD155 Greens 1 +201633 TIGIT Greens 1 diff --git a/apps/iatlas/app/inst/tsv/cellimage_labels.tsv b/apps/iatlas/app/inst/tsv/cellimage_labels.tsv new file mode 100644 index 0000000000..00df9cca8b --- /dev/null +++ b/apps/iatlas/app/inst/tsv/cellimage_labels.tsv @@ -0,0 +1,45 @@ +label +T_cell +T_cell_nucleus +Dendritic_cell +Dendritic_cell_nucleus +Tissue_macrophage +Tissue_macrophage_nucleus +Tumor +Tumor_nucleus +ICOS +PD-L2 +PD-L2 +PD-L1 +PD-L1 +PD-L1 +CD28 +CTLA-4 +CD40L +CD40 +ICOSL +CD86 +CD80 +PD-1 +PD-1 +PD-1 +PD-1 +PD-1 +Four.1BB +Four.1BBL +OX40L +OX40 +GITRL +GITR +TCR +TCR +TCR +MHC +MHC +MHC +MHC-II +LAG-3 +TIM-3 +Galectin_9 +TIGIT +CD155 diff --git a/apps/iatlas/app/inst/tsv/ebpp_test1_1to20.tsv b/apps/iatlas/app/inst/tsv/ebpp_test1_1to20.tsv new file mode 100644 index 0000000000..45a1d722e9 --- /dev/null +++ b/apps/iatlas/app/inst/tsv/ebpp_test1_1to20.tsv @@ -0,0 +1,20532 @@ +GeneID XY1 XY2 XY3 XY4 XY5 XY6 XY7 XY8 XY9 XY10 XY11 XY12 XY13 XY14 XY15 XY16 XY17 XY18 XY19 XY20 +100130426 0 0 0 0 0 0 0 0 0 0 0 0 0 0.3861 0 0 0 1.5256 0 0 +100133144 3.2661 2.6815 1.7301 0 0 1.1673 1.4422 0 4.4556 7.1293 2.6463 4.3811 0 2.7763 0 1.4709 1.1914 7.8032 7.7097 2.5862 +100134869 3.9385 8.9948 6.565 1.5492 4.4709 6.0529 2.2876 1.3599 5.0581 0 6.2595 4.1141 2.8281 4.5603 5.9116 5.0046 3.7171 1.3501 4.0357 0 +10357 149.135 81.0777 86.4879 53.9117 66.9063 103.506 94.9316 78.1955 69.2389 155.709 112.366 50.9709 65 97.7507 104.001 68.1776 55.6136 69.1915 144.759 154.129 +10431 2034.1 1304.93 1054.66 2350.89 1257.99 1866.43 995.027 1762.12 1213.53 2005.57 2547.71 1629.85 2098.42 1630.27 1112.99 1848.29 1599.29 2337.91 1542.87 1510.34 +136542 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +155060 274.255 199.302 348.393 439.194 149.215 64.5808 377.953 274.364 243.129 93.5725 156.488 253.641 40.1584 237.861 124.681 42.5532 204.373 140.351 49.3305 40.9483 +26823 1.4409 0 0.5925 0.7746 0 0 1.6577 0 2.1142 0 0 0.6068 0 0 0.5374 0 0.8925 0 0 0 +280660 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1.5256 0 1.2931 +317712 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +340602 17.7714 0.4026 0.5925 0.7746 0 0 1.2433 1.3599 0 0 1.9084 0.6068 0 3.8614 0 0 5.3548 25.1716 5.168 0 +388795 0 0.4026 0.5925 0.7746 2.7943 0.4011 0.8288 0 0.5285 0 4.4529 0.6068 1.1312 0.3861 0 0.9251 0.4462 3.0511 1.4094 2.5862 +390284 11.5274 5.2342 7.7026 6.1967 10.6183 2.4067 5.3875 7.8195 8.9852 6.2382 6.3613 4.2476 3.3937 3.4752 7.5238 5.5504 5.801 14.4928 14.5642 3.0172 +391343 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +391714 0 0.4026 0 0 0 0 0 0.34 0 0 1.9084 0 0 1.9307 0 0 0 0 0.4698 0 +404770 0 0 1.185 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +441362 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +442388 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +553137 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +57714 282.421 527.848 162.346 52.6723 143.067 73.0044 271.032 134.632 337.209 456.277 61.7048 203.277 229.638 86.1087 150.477 76.7808 121.821 122.044 160.207 307.328 +645851 1.4409 2.4158 10.0726 3.0984 1.6766 24.8696 4.5586 2.0399 2.6427 4.4558 2.5445 2.4272 1.1312 5.0198 3.2245 0 4.4623 5.3394 4.2283 8.1897 +652919 0 0 0 37.2579 0 0 0 0 0 0 0 4.8544 0 0 0 0 5.3548 0 0 0 +653553 1439.96 195.678 770.849 1218.44 413.554 246.691 760.879 698.659 752.113999999999 497.716 1044.53 621.359 170.815 833.671 591.697 2655.87 789.38 3746 267.794 174.569 +728045 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +728603 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +728788 0 0.4026 0 9.2951 1.1177 0 0 0.34 0.5285 0 1.2723 0 0 0.3861 0 0 1.3387 0.7628 0.4698 0 +729884 0 0 0.5925 0 0 0 0 0 0.5285 0.4456 0 0 0 0.3861 1.0748 0 0 0 1.4094 0 +8225 1147.45 467.454 553.399 1061.19 597.418 303.65 977.621 405.936 944.503 629.609 945.293 1375.61 536.199 662.226 416.499 810.361 464.525 721.587 1166.55 496.552 +90288 6.7243 16.9105 12.4426 22.4632 2.7943 14.8416 4.1442 13.5992 7.3996 8.0205 13.3588 20.0243 7.3529 107.346 10.2109 25.9019 34.3597 18.3066 30.5379 7.7586 +A1BG 16.3305 9.5987 20.7377 1696.66 600.162 10.8303 50.5595 8.1119 52.3256 191.409 187.659 116.25 58.2579 30.1187 41.0856 870.49 19.1879 48.4134 4.2283 24.1379 +A1CF 0 0 0.5925 1.5492 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +A2BP1 17.2911 5.6368 8.8876 6.1967 4.4709 3.209 0 33.3181 6.871 0 61.0687 43.0825 0 484.603 26.8709 3.7003 37.037 168.574 91.144 0 +A2LD1 182.392 239.158 138.883 63.9349 237.352 89.3903 53.1828 274.296 268.377 46.5991 115.134 192.197 97.5905 188.829 113.659 53.9038 131.678 116.346 342.199 310.293 +A2M 10373.7 9844.91 7201.84 2939.04 9586.96 10537 30151.2 14153.1 7462.87 3314.12 7311.62 9483.45 6918.39 8673.69 8002.49 15142.3 6719.6 29166.2 7452.15 2386.2 +A2ML1 54.755 0 1.7775 49.574 1.1177 2.8079 4.5586 29.2383 33.2981 0 5.0891 58.8592 4.5249 327.445 8.5987 2.7752 194.11 121.281 78.459 0.8621 +A4GALT 190.682 198.899 75.2481 374.903 1556.42 177.698 1252.8 389.617 614.693 3125.77 292.621 140.777 191.177 172.603 124.144 615.171 543.061 230.358 138.595 269.828 +A4GNT 0 0 2.37 0.7746 0.5589 0 0 0 0 0.4456 0.6361 0 0 0 0 0 0.4462 4.5767 0 0 +AAA1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +AAAS 2225.26 1509.46 1259.67 2993.8 1186.45 2258.72 1222.96 1541.81 2508.46 735.658 2080.79 1472.09 1296.38 1492.42 1816.47 1983.35 1871.49 2101.45 1743.01 1284.91 +AACS 1266.09 981.613000000001 5182.05 967.467 1479.29 5314.08 537.091 2526.73 2354.65 1120.64 513.359 746.358999999999 3510.75 1205.91 1254.33 400.555 2131.64 710.908 2174.3 3926.72 +AACSL 0 0.4026 0 3.0984 0 0 0 0 4.2283 0 0 0 0 0 0 0 0.4462 12.2044 0 0 +AADAC 0 1.2079 107.243 149.496 317.431 2.8079 0 0 244.186 1.3367 33.0789 35.801 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6.1967 0 6.8191 1.2433 0 7.3996 5.347 2.5445 20.6311 0 0.3861 0.5374 0.9251 0.4462 1.5256 5.6378 0.8621 +ACTG1 43216.6 55973.3 49485.4 40374.9 7576.42 54954.3 62997.5 65536.6 33328.2 86203.9 66115.8000000001 141382 69269.8 35913.1 47578.1 142634 30564.5 31080.9 18937.7 72215.5 +ACTG2 2.4015 64.4209 11.8501 3.0984 0.5589 33.6943 48.9018 16.3191 512.156 139.022 89.6947 1.2136 5.0905 39.386 21.4967 6.4755 32.5747 45.7666 0.9396 24.1379 +ACTL6A 829.011 935.309999999999 756.036 512.006 410.76 873.245 789.888 505.211 831.924 2470.31 913.486 745.752 671.38 551.791 706.704 744.681 780.901 716.247 548.273 1347.84 +ACTL6B 0 0 0 2.3238 0 0 0 0.68 0 0 0.6361 0.6068 0.5656 1.5446 0 0 0 20.595 0.4698 0 +ACTL7A 0.4803 0.4026 0 0.7746 0 0 0 0 0 0 0 0 0 1.1584 0 0 0 0 0.4698 0 +ACTL7B 0 0 0.5925 21.6886 0 0 0 0.34 3.6998 0 3.1807 0.6068 0.5656 7.7228 0.5374 0 1.7849 4.5767 1.4094 2.1552 +ACTL8 0 0.4026 0 0 0 1.2034 2.901 0 1.0571 0 0 0 0 0.3861 0.5374 0 0.8925 0 19.2624 0.431 +ACTL9 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +ACTN1 2118.16 3821.36 4839.58 2154.92 396.229 1686.32 5263.99 1996.7 1206.13 9543.95 1542.62 797.33 1567.87 1186.21 2624.75 1955.6 2708.17 1323.42 794.456 1223.71 +ACTN2 2974.54 2.0132 20.1452 302.091 21.2366 16.0449 9.1173 13.9392 16.3848 1.3367 6.3613 3.034 15.8371 4.6337 8.0613 2.7752 306.113 4.5767 6.5774 79.7414 +ACTN3 0.4803 2.4158 19.5527 0 5.0297 2.8079 0.4144 3.0598 1.0571 1.3367 1.2723 1.2136 0 0.7723 1.0748 0.9251 1.3387 2.2883 0 0 +ACTN4 6970.89 17986.2 12348.1 18514.2 23300.7 28910.2 5025.25 16796.3 17549.8 8061.37 24625.2 11414.3 18803.6 15193.3 20025.4 13277.3 10772.4 12599.6 7327.19 12218.6 +ACTR10 1597.5 1364.11 2265.15 1266.46 1421.17 1182.51 769.167 1253.85 1164.38 1439.23 1638.68 1458.13 2359.73 1361.14 2672.58 1788.16 2229.36 1059.5 2654.92 1220.69 +ACTR1A 4171.95 5088.04 3880.31 6421.38 3659.95 7067.79 4387.48 4935.49 3767.44 3802.61 5543.89 4258.5 4252.83 4758.76 3033.19 5543.02 3205.71 5032.04 3957.25 5423.71 +ACTR1B 1912.58 1451.48 2501.56 1644.46 2170.6 2685.52 1045.59 1538.07 1607.82 1279.71 1705.47 1055.22 2337.67 1530.65 2743.52 1879.74 1876.84 1273.07 1584.21 2203.88 +ACTR2 3320.85 3391.76 2231.97 1635.94 3672.25 4718.41 5324.91 2283.99 3053.91 6838.36 2269.08 2714.2 2813.91 2138.82 3386.81 3135.06 2135.21 2894.74 2902.04 7984.48 +ACTR3 3113.83 4008.19 2295.96 1738.19 5333.17 5716.81 3266.47 2274.47 3142.18 4999.89 4818.7 1643.2 4178.73 2516.07 2385.06 2166.51 1661.31 2643.78 3981.68 6482.76 +ACTR3B 178.674 252.047 337.135 336.173 153.127 186.522 85.7853 301.562 417.548 142.141 145.038 280.34 81.448 385.365 342.335 159.112 352.075 249.428 459.948 137.5 +ACTR3C 1.4409 31.8078 26.6627 17.0411 70.4159 16.8472 8.7029 27.8784 1.5856 168.876 21.6285 54.0049 0 87.6532 1.0748 53.654 36.5908 208.238 25.37 1.2931 +ACTR5 490.874 166.286 209.747 223.083 120.713 140.393 230.833 190.049 151.691 276.262 187.659 220.267 368.213 257.94 235.926 219.241 304.328 273.074 190.745 211.207 +ACTR6 317.483 678.432 706.266 347.792 695.218 608.905 530.46 879.189 781.184 412.61 812.977 767.597 470.023 600.058 915.222 592.97 751.004 585.05 933.991 495.69 +ACTR8 226.705 580.996 235.817 171.96 307.371 373.847 403.233 207.728 174.947 212.543 232.188 430.218 328.62 227.049 247.212 301.573 174.922 182.304 194.973 410.345 +ACTRT1 2.8818 0 0 2.3238 0.5589 0 0 0 0 0 0.6361 0 0 0 0 0 0 0 1.4094 0 +ACTRT2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +ACVR1 515.37 777.478999999999 356.095 135.554 306.812 356.599 2854.12 400.837 491.543 495.488 358.142 464.199 244.91 430.93 398.764 953.746 307.452 364.607 501.292 420.69 +ACVR1B 1187.8 1224.8 1507.92 1698.68 1073 807.461 1113.97 1197.41 1837.74 620.697 2196.56 852.548 398.19 1550.34 661.024 1555.04 1288.26 827.612 1567.3 1453.45 +ACVR1C 12.488 2.0132 7.7026 35.6313 0 6.0168 70.0373 3.0598 8.9852 3.5647 19.7201 15.1699 0 2.703 9.1361 11.1008 4.0161 6.1022 41.3437 0.431 +ACVR2A 335.255 152.597 181.306 219.984 371.64 163.658 733.941 446.394 245.243 241.506 230.916 214.806 243.213 216.237 243.988 409.806 143.24 180.778 265.445 150.431 +ACVR2B 413.545 814.924 203.229 297.444 627.596 163.257 147.949 214.188 399.577 144.369 419.847 545.51 115.385 186.118 102.647 375.578 184.293 200.61 670.895 334.483 +ACVRL1 203.17 427.996 276.7 178.156 419.701 439.631 3811.02 328.081 410.148 209.424 675.572 264.563 483.032 315.088 245.062 720.629 241.856 370.709 422.363 215.948 +ACY1 461.095 924.991 947.646 292.022 1495.5 4203.88 387.911 1478.72 431.67 630.055 763.079 2181.26 2428.73 1235.11 1128.49 1416.28 1561.48 644.935 1006.34 1192.51 +ACY3 2.8818 0 0 0 0 0 0 0.68 0.5285 98.0283 1.2723 12.1359 3.9593 0.7723 1.6123 1.8501 0.4462 3.8139 5.168 12.931 +ACYP1 996.158 130.452 151.089 196.747 51.4148 124.348 70.4517 410.016 162.262 410.828 199.745 165.655 308.258 488.85 171.974 47.1785 1944.67 215.866 49.3305 192.241 +ACYP2 755.524 184.002 666.568 513.555 1079.15 643.402 92.0017 759.176 477.273 114.96 741.094 388.956 870.475 756.444 686.82 787.234 339.134 561.404 758.75 418.966 +ADA 41.7867 115.958 269.59 109.218 168.216 128.761 452.134 79.5554 104.651 266.013 214.377 90.4126 157.805 102.713 90.8236 94.3571 68.2731 210.526 169.133 246.983 +ADAD1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +ADAD2 2.8818 11.4951 7.7026 15.732 14.48 5.1223 7.4596 0.68 2.1142 0 2.7608 0.6068 6.2217 25.0874 4.294 13.876 4.4623 1.5256 15.5837 2.7328 +ADAL 263.209 222.252 107.836 89.0782 124.625 104.693 139.246 91.7947 250.529 191.601 173.028 270.024 154.977 152.524 279.995 86.0315 158.411 193.745 327.93 119.828 +ADAM10 377.041 1972.49 596.652 125.484 557.18 971.52 607.543 910.467 607.294 1036.43 449.745 419.903 239.253 511.632 443.37 400.555 375.725 308.925 1061.31 1100 +ADAM11 24.0154 10.871 25.4777 345.469 8.3829 19.2539 46.4153 66.2961 16.3848 8.4661 43.8931 10.3155 25.4525 19.693 36.007 20.3515 37.4833 20.595 12.685 31.0345 +ADAM12 6.7243 40.6657 64.583 118.513 5.5886 307.661 2160.38 242.406 35.4123 42.776 12.0865 15.1699 85.4072 16.6039 17.7348 28.6772 107.541 6.865 4.2283 84.0517 +ADAM15 712.296000000001 1040.58 934.973 1103.8 870.699 764.625 1721.92 959.615 309.73 4574.36 810.433 1173.01 549.208 462.593 375.655 1086.03 764.864 1256.42 489.589 254.741 +ADAM17 239.673 659.911 303.955 199.845 300.665 425.592 873.187 413.416 267.97 291.411 173.664 176.578 169.683 280.722 212.817 156.337 260.598 148.741 239.605 584.914 +ADAM18 0 0 0 0 0.5589 0 0 0 0 0 0 0 0.5656 0 0 0 0 0 0 0 +ADAM19 12.488 230.707 367.945 91.402 8.3829 105.094 627.435 95.8744 37.5264 629.163 89.6947 125 2201.92 42.089 31.7076 130.435 27.6662 86.1937 25.37 65.9483 +ADAM20 2.8818 1.6105 4.74 13.9427 0 0 2.0721 2.7198 1.0571 2.2279 0.6361 1.2136 1.1312 1.9307 2.1497 1.8501 4.4623 1.5256 5.168 0.431 +ADAM21 2.8818 34.6262 2.37 3.873 11.736 18.4517 69.6229 1.0199 1.5856 1.7823 3.8168 8.4951 27.7149 0.3861 10.7484 8.3256 0 3.8139 5.168 0.8621 +ADAM21P1 1.4409 16.5078 2.37 1.5492 1.6766 1.2034 4.5586 0.34 0.5285 0 0.6361 1.8204 1.6968 0 1.0748 0.9251 0 0 0.9396 0 +ADAM2 0 0 0.5925 0 0 0 0 0 4.2283 0 0.6361 0 0 0 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10.9223 16.9683 80.3166 10.7484 18.5014 9.3708 28.9855 53.5588 1.2931 +ADAMTS13 248.799 51.1341 25.4777 164.988 45.2674 58.564 126.399 99.6142 167.019 32.5276 57.2519 254.854 114.819 58.3068 168.749 47.1785 482.374 51.106 15.5039 67.6724 +ADAMTS14 8.1652 16.5078 12.4426 44.9264 43.5908 32.0899 840.448 48.2772 54.9683 32.5276 7.6336 85.5583 33.371 12.3564 51.0547 141.536 147.256 16.7811 11.2755 65.0862 +ADAMTS15 0 2.8184 1.185 0.7746 5.0297 10.8303 179.03 1.6999 1.5856 5.347 0.6361 20.0243 0 1.9307 2.1497 12.951 1.3387 0.7628 3.2887 0.431 +ADAMTS16 0 0.8053 0 0.7746 1.6766 6.0168 90.7584 1.0199 3.6998 0 0 7.8883 0 0.3861 0.5374 215.541 0.8925 0 0 0 +ADAMTS17 3.3622 6.0395 79.3956 161.89 166.539 44.9258 9.5317 19.3789 461.945 3.1191 41.9847 38.835 0.5656 205.811 529.356 101.758 18.2954 16.7811 39.4644 9.0517 +ADAMTS18 0.4803 12.4815 1.7775 6.1967 10.6183 0 0.8288 9.8594 1.0571 0.4456 3.1807 0 0 1.9307 0.5374 0 0.4462 9.1533 0 0.8621 +ADAMTS19 6.244 0 0 7.7459 0 0 0 0 0.5285 0 0 1.8204 0 0.7723 0.5374 0 112.896 0 0 0.8621 +ADAMTS1 377.041 1453.5 777.959 48.7994 310.724 738.468 1857.85 426.675 1266.38 228.584 491.094 785.194 436.652 690.028 655.112 288.622 1436.86 762.014 481.09 762.069 +ADAMTS20 0 1.6105 24.8852 1.5492 0 0.4011 0.4144 0 0 0 1.2723 0.6068 0 0 0.5374 0 0 2.2883 0 0 +ADAMTS2 9.1258 58.784 44.4379 37.9551 15.0891 37.3045 905.097000000001 4.4197 25.37 50.3509 24.173 6.6748 21.4932 49.4256 35.4696 27.7521 12.9407 16.7811 13.6246 20.2586 +ADAMTS3 294.909 116.36 130.351 422.928 1.1177 125.953 16.5769 99.6142 197.146 0.4456 94.7837 205.097 141.403 90.7423 88.6739 291.397 417.224 173.15 622.034 83.1897 +ADAMTS4 130.163 649.845 420.678 110.767 100.035 590.453 2464.98 188.009 1020.61 498.608 119.593 182.646 312.217 183.802 849.12 145.236 80.3213 300.534 456.66 288.793 +ADAMTS5 19.6926 107.502 158.199 39.5043 31.296 118.733 317.447 37.0578 93.5518 106.049 235.369 18.2039 91.0633 46.7227 68.252 170.213 65.5957 90.7704 143.293 37.069 +ADAMTS6 21.6138 4.8316 40.8828 28.66 47.5028 46.1292 86.6142 57.4567 47.5687 9.8028 49.6183 22.4515 26.0181 77.6137 41.9186 99.9075 32.5747 121.281 54.0287 491.81 +ADAMTS7 102.786 1618.17 584.21 1204.49 154.803 1314.08 860.754 1328.98 853.593999999999 88.2255 1108.78 362.257 355.769 1531.81 615.343 409.806 1066.04 1171.62 112.755 1657.33 +ADAMTS8 0.4803 2.4158 0.5925 3.873 3.912 4.0112 94.0738 2.0399 1.0571 2.2279 1.2723 9.7087 1.6968 0 0.5374 5.5504 2.2311 6.1022 2.3491 0.431 +ADAMTS9 382.805 435.243 503.629 1159.57 217.954 916.967 937.008000000001 258.725 665.433 141.695 314.249 248.786 533.371 194.227 362.757 258.094 310.576 1123.57 209.067 417.241 +ADAMTSL1 54.755 1305.73 15.9976 452.363 15.648 237.866 168.255 31.6182 16.3848 6.6837 116.412 16.9903 130.09 807.414 13.9729 36.0777 103.525 23.6461 22.5511 429.31 +ADAMTSL2 153.218 272.983 99.5408 91.402 33.5314 180.906 266.059 56.7767 98.3087 67.2831 227.735 139.563 175.905 479.197 55.8914 127.66 324.409 467.582 28.6587 54.7414 +ADAMTSL3 15.8501 162.663 24.2927 6.9713 27.384 27.2764 53.4604 29.2383 40.1691 8.0205 48.9822 46.7233 7.9186 26.6435 17.7348 36.0777 28.5587 69.4127 32.4172 6.8966 +ADAMTSL4 17.7714 34.6262 26.6627 62.7421 406.289 35.2988 320.762 11.2193 22.1987 1063.16 55.3435 928.398 42.4208 51.3563 16.6599 473.635 44.1767 85.431 15.5039 31.8966 +ADAMTSL5 45.6292 52.3419 16.5901 161.115 200.071 102.688 281.392 107.094 94.0803 76.1947 158.397 54.6117 10.7466 53.287 59.1159 319.149 77.6439 62.5477 18.7926 168.965 +ADAP1 40.2017 81.9071 221.306 512.029 631.508 79.4866 316.394 463.393 208.827 78.6499 236.877 243.732 44.4287 272.509 268.564 259.538 227.26 461.327 137.726 36.056 +ADAP2 83.0932 53.1472 42.0678 75.9101 500.736 76.6145 1055.53 53.0369 90.3805 357.358 84.6056 288.228 139.14 60.2375 61.2656 126.734 44.6229 202.136 97.2516 14.2241 +ADAR 3315.08 10011 3548.51 1765.3 3462.12 3186.52 5753 4183.46 3614.16 12129.2 2809.8 2840.41 3863.12 2610.68 4440.68 2476.41 3462.74 5659.04 3710.12 3685.78 +ADARB1 159.942 385.72 338.913 352.44 457.704 243.482 406.962 360.719 191.332 996.769 339.058 167.476 235.294 350.999 308.478 378.353 577.421 480.549 364.106 248.276 +ADARB2 0.4803 0 0 1.5492 7.824 0 0.4144 4.7597 0 0 1.9084 0.6068 1.6968 0.3861 0.5374 0 1.3387 0 0.9396 0 +ADAT1 74.928 549.188 307.51 94.5004 115.683 109.908 125.57 193.789 251.586 43.6671 57.2519 250 75.7919 225.504 301.491 64.7549 180.277 73.2265 186.986 177.155 +ADAT2 178.194 93.4102 127.388 230.054 159.833 68.1909 227.518 109.474 131.078 94.4636 141.221 74.6359 70.1357 145.96 60.1908 104.533 113.788 168.574 224.101 134.483 +ADAT3 110.951 24.1578 45.6229 246.321 26.2663 149.218 72.9383 200.588 99.8943 51.6876 125.954 119.539 158.371 101.554 54.8166 206.291 119.143 67.8871 25.8398 159.483 +ADC 57.6369 39.8604 167.086 175.833 126.302 109.908 1010.77 131.912 106.765 44.1127 106.234 217.233 9.0498 213.92 83.2997 100.833 143.24 134.249 67.1835 7.3276 +ADCK1 131.124 190.444 436.084 182.804 159.274 176.093 192.292 222.007 341.438 172.886 283.079 345.267 341.629 256.009 243.988 224.792 418.117 278.413 1017.62 145.69 +ADCK2 603.28 1536.44 852.614 418.28 1244.02 653.43 839.204 421.236 1144.85 381.419 349.237 1240.31 531.674 844.873 975.993999999999 378.353 1283.8 857.361 1218.23 376.293 +ADCK4 1402.5 446.517 1845.65 1158.02 970.175 3187.73 619.146 1119.55 1216.17 453.604 1330.79 990.291 1395.36 1094.31 2239.96 1546.72 1748.77 1212.81 923.655 750.431 +ADCK5 319.404 174.742 249.445 1011.62 823.755 191.336 153.336 247.846 190.275 770.413 324.428 168.083 302.036 304.276 203.681 143.386 436.858 433.257 138.595 414.224 +ADCY10 0.4803 0.8053 3.555 32.5329 1.1177 0 0.4144 0.68 4.7569 0 5.7252 3.6408 0.5656 1.1584 3.2245 0.9251 5.801 3.0511 1.8793 3.0172 +ADCY1 15.3698 31.4052 45.6229 108.443 16.2068 78.219 1031.91 70.3759 17.4419 47.2318 29.2621 52.7913 26.5837 17.3762 60.7282 41.6281 79.8751 20.595 39.4644 6.4655 +ADCY2 0 23.7552 4.1475 41.828 0 0 2.0721 0.68 4.7569 0.8912 3.1807 9.1019 0 2.3168 3.7619 17.5763 123.606 0 2.8189 0 +ADCY3 120.639 2660.36 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81.3313 41.4753 907.049 131.89 171.28 332.781 97.5743 84.0381 734.321 115.776 104.976 96.1538 31.6633 47.8302 89.7317 200.803 352.403 24.9002 173.707 +ATIC 1480.31 1350.02 1352.1 632.843 1877.76 2470.52 1013.26 1465.31 1054.97 3155.62 1477.1 888.35 2417.99 1465.39 1718.12 1481.96 1045.52 1487.41 875.264 2681.03 +ATL1 118.636 483.156 361.428 119.287 197.835 193.743 305.843 196.509 36.9979 408.154 234.733 322.815 277.149 396.177 21.4967 466.235 217.76 82.3799 166.784 363.793 +ATL2 1296.83 1584.35 863.279 4302.87 2185.69 3401.93 991.712 2714.4 860.994 1162.97 1568.07 760.316 963.235 1944.98 1326.35 1076.78 904.061 981.693 1292.46 2920.69 +ATL3 75.4083 418.333 334.173 199.845 181.07 1129.96 194.778 131.912 262.156 932.16 185.751 114.078 433.258 152.524 298.804 152.636 210.62 110.603 236.786 323.707 +ATM 1872.24 835.861 780.921 735.864 1023.83 695.949 570.659 444.014 464.059 689.317 808.524 632.282 373.303 895.839 508.397 634.598 673.806 1184.59 661.968 824.138 +ATMIN 1001.92 1109.25 2723.74 2056.55 1113.24 1060.17 1230.42 1344.96 1813.95 777.097 1698.47 1618.93 1017.53 1963.51 1546.15 1913.97 1574.3 1544.62 1038.29 1076.29 +ATN1 6444.28 15763 7649.24 15573.2 3362.64 4180.91 5960.63 16668.9 3949.79 3869.44 7748.09 6205.1 4733.6 6646.97 5667.61 7804.81 7256.58 13450.8 4140.94 4510.78 +ATOH1 0 0 0.5925 0 0 0 0 0 0.5285 0 0 0 0 0 0.5374 0 0 0 0 0 +ATOH7 4.3228 0 7.1101 15.4919 6.1474 8.4236 0.4144 5.7797 2.1142 4.4558 4.4529 13.3495 11.3122 15.4455 2.6871 18.5014 8.0321 2.2883 0.9396 4.3103 +ATOH8 285.783 148.973 26.0702 84.4307 241.985 27.6775 155.408 152.651 96.723 986.521000000001 115.776 97.6942 59.9548 176.851 298.804 446.808 64.7033 228.07 214.235 68.1034 +ATOX1 1121.52 598.309 1051.7 1631.29 1598.89 953.47 1685.04 1162.39 1267.44 2130.33 2846.69 1566.75 2088.8 1165.36 1431.14 2278.45 1574.3 1826.85 1669.72 1068.1 +ATP10A 3106.63 1665.28 65.768 144.074 17.8834 14.4404 161.21 3844.16 74.5243 129.665 177.481 23.665 83.1448 51.3563 20.9593 38.8529 1023.65 331.808 16.4435 25 +ATP10B 0 0.8053 29.0327 0 1.1177 0 0 0.34 454.017 0 0 10.9223 0 0.3861 7.5238 0 0 1.5256 46.9814 0 +ATP10D 1248.32 1384.65 546.882 424.477 558.298 5254.31 815.168 2488.66 684.989 299.432 251.272 390.17 1601.24 984.265 1438.67 308.048 1590.36 491.228 1019.03 2411.21 +ATP11A 439.001 1017.85 960.45 1378.78 628.155 332.932 492.333 702.399 837.209 437.117 216.285 578.884 173.643 596.197 755.072 342.276 405.176 254.005 1442.8 731.034 +ATP11B 300.672 1330.69 475.189 250.194 309.048 568.793 733.527 452.514 544.926 1528.8 542.621 1242.11 244.91 358.336 300.416 669.75 390.897 417.239 381.489 904.31 +ATP11C 345.341 254.462 367.945 308.288 141.391 213.799 364.691 214.868 314.482 271.36 265.903 397.452 131.787 397.722 246.137 481.036 555.556 340.198 231.149 128.017 +ATP12A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +ATP13A1 1980.31 2410.95 3527.18 4428.35 1708.98 1967.91 2177.79 3669.07 3773.78 1218.67 3361.32 1760.32 2764.14 3197.99 5141.48 2430.16 4240.52 3504.96 2532.3 3765.09 +ATP13A2 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244.344 1672.36 10924.6 52.729 2280.68 127.384 1999.06 15.5172 +ATP1A4 0 0.8053 0 0 35.208 0 0 0 0.5285 0 11.4504 0 0 0 0 0 0 1.5256 0.4698 0 +ATP1B1 19581.1 3969.06 2376.73 3896.75 441.698 331.649 771.919 8599.6 7201.46 1597.41 4676.3 8680.86 2365.7 3011.36 2984.84 8332.98 1525.92 12527.4 5520.96 2695.72 +ATP1B2 682.997 998.121 36.7353 2692.49 79.3577 92.2583 198.094 481.752 120.507 32.9732 82.6972 569.175 114.253 317.019 13.9729 329.325 1036.14 408.848 83.1572 166.81 +ATP1B3 2592.22 2847.4 824.174 1005.42 897.524 1316.09 3165.77 1748.18 692.389 7327.61 2774.81 2931.43 1325.79 1351.48 1097.41 1993.52 1439.09 2705.57 1083.39 3221.98 +ATP1B4 0 0 0 0 0 0 0.8288 0 0.5285 0 0 0 0 0 0 0 0 0 0 0 +ATP2A1 24.976 7.2473 40.2903 187.452 5.5886 17.6494 14.9192 17.339 26.9556 10.2484 27.3537 4.8544 10.7466 17.7623 27.4083 6.4755 68.7193 12.9672 3.2887 26.7241 +ATP2A2 2189.72 6591.86 4046.81 1729.67 3376.05 3890.89 7514.3 3194.45 4507.93 8294.98 2079.52 4814.93 2386.88 2148.47 2776.84 5828.86 2752.34 2035.85 5151.98 3028.45 +ATP2A3 263.209 9678.83 109.613 5243.22 8863.46999999999 77.8179 426.026 428.715 913.848 781.998 590.967 10264 620.475 3706.15 72.5514 4381.13 3009.37 527.841 1730.33 924.138 +ATP2B1 1101.34 1594.42 1615.76 673.896 192.806 305.255 4705.35 917.267 991.543 614.014 625.318 2672.94 212.67 519.741 1749.29 6050.88 1132.53 832.189 1319.71 827.155 +ATP2B2 119.597 1585.16 311.658 2362.51 190.57 1155.64 5.3875 2410.46 706.131 3.5647 824.428 24.8786 1478.51 893.136 536.343 7.4006 130.745 1468.34 1523.14 368.103 +ATP2B3 297.791 1573.08 1659.01 7876.07 2.7943 32.8921 18.649 3489.22 587.738 4.0102 7104.96 1445.39 52.6018 5245.68 58.0411 2432.93 2443.11 12157.9 1752.41 130.172 +ATP2B4 836.215 6843.91 2945.93 8511.23 6047.39 5355.4 1559.88 1678.82 5446.62 1435.22 5477.74 1740.9 3313.35 2576.7 7394.33 2865.86 1601.52 2142.64 2153.63 3250.43 +ATP2C1 3905.62 4647.68 2143.11 2527.79 2317.95 1542.45 1404.62 2337.38 1460.6 2462.33 2778.14 2670.88 1003.86 1448.63 1761.27 2985.41 1575.58 1884.97 1566.87 1819.22 +ATP2C2 5.2834 0.8053 329.433 102.246 109.536 78.6201 4.1442 5.4397 213.002 5.7926 82.0611 4.2476 24.3213 17.3762 103.722 7.4006 142.793 22.8833 63.8948 6.4655 +ATP4A 57.6369 148.973 1806.55 248.644 85.5051 39.7112 1.2433 680.64 1786.47 0 1531.17 4.2476 423.642 2057.34 4963.59 3.7003 401.16 446.224 940.099 693.103 +ATP4B 0.9606 4.0263 0 0.7746 29.0605 0.8022 0.4144 0.34 2.1142 0 0.6361 0 0.5656 0.3861 0 0 0.4462 0 0.9396 0 +ATP5A1 13061.5 11145.2 12591.3 9096.05 10871.4 13086.6 8757.56 11276.5 10771.1 3641.75 7392.49 25239.1 19222.3 11737 14256.1 7531.91 10161.1 10967.2 19670.2 8798.71 +ATP5B 12608.1 32692 24695 11175.1 26583.1 33660.2 12823.9 30117.8 24560.8 7383.31 23928.1 71117.0999999999 36802 30230.3 47342.7 15872.3 22627.8 16888.6 44618.3 23837.5 +ATP5C1 8935.16 6777.48 4279.66 7954.3 6770.55 20448.1 3910.9 9128.81 4874.74 4249.97 12498.7 13772.5 10267 7942.47 6356.04 8021.28 4961.62 10411.1 6046.98 9409.91 +ATP5D 3961.58 829.016 2413.86 6142.53 3801.9 2186.92 1568.59 2929.27 2450.32 1473.54 4760.81 3697.82 5294.68 1334.88 3657.13 3166.51 3448.46 4453.09 1760.39 2933.62 +ATP5E 5937.08 5008.32 3536.66 3330.75 7805.55 5040.11 7080.4 4990.23 4253.17 6473.88 6503.82 7669.3 15687.2 5027.13 6746.74 7064.75 7512.72 6601.07 4806.67 5529.31 +ATP5EP2 83.5735 60.3946 33.7728 57.3199 113.448 60.9707 85.3709 55.7568 46.5116 81.9873 73.7913 96.4806 194.005 76.8414 111.246 102.683 101.294 85.431 46.0418 69.8276 +ATP5F1 3451.97 2517.25 3160.42 2192.1 4251.78 3715.2 2685.45 4378.61 3803.38 5001.67 3277.99 6652.91 4166.29 3543.2 4869.54 2555.04 3029 2706.33 5678.18 3451.29 +ATP5G1 1863.59 673.601 907.125 1843.53 1944.26 342.559 1070.04 672.481 1875.79 2310.35 1300.89 4685.68 1268.67 1041.03 1920.19 473.635 945.114 1224.26 2678.41 815.948 +ATP5G2 7484.63 6473.09 6780.63 10427.6 8738.28 10626.2 5349.77 6974.01 8026.43 7835.13 11307.3 6941.14 11875.6 5135.63 10761.8 7939.87 6891.57 8176.2 6954.19 4606.03 +ATP5G3 3623.92 2370.69 2983.85 2290.47 7317.67 8290.81 778.284 4246.01 3389.01 5220.01 4612.6 10550.4 7739.82 3075.2 4711 4477.34 3284.69 3146.45 4934.46 4795.69 +ATP5H 5597.02 1303.72 2703.01 3199.07 3197.78 2644.2 2366.35 2798.72 2771.14 5469.09 3632.95 6621.97 6153.28 2160.44 3954.32 5068.46 3637.66 3721.59 3129.9 3071.98 +ATP5I 2572.79 1033.32 1289.14 7602.76 2313.9 2395.68 1554.95 2825.17 3664.7 1137.81 4029.9 4456.27 3102.55 2925.8 2606.93 3871.14 3992.66 3774.13 3844.89 1442.63 +ATP5J2 3609.03 1462.35 2663.9 4905.5 2745.66 1683.11 2546.96 2867.69 3714.59 3959.01 1810.43 4152.91 2592.76 2589.05 3869.74 2625.35 3727.8 3916.86 4023.42 1020.25 +ATP5J 3940.57 935.693 3672.71 2474.05 5350.29 4545.06 1410.14 2596.24 2703.02 2871.09 4650.99 2879.58 6021.95 2010.65 4392.3 3838.36 4849.72 4235.58 6652.19 2186.23 +ATP5L 7374.64 2315.12 2525.85 5092.18 4355.73 5425.19 2588.06 3235.59 3144.29 6021.61 4051.53 3895.63 5740.38 2874.41 2733.84 3000.93 2851.41 3995.42 3880.2 3518.53 +ATP5L2 4.8031 0.8053 0 0.7746 0 1.2034 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2349.94 6754.23 4458.95 5597.33 4914.44 1770.36 5183.51 3823.19 6014.8 4641.23 4777.27 7472.87 2347.41 +ATP6V0A1 2118.16 1414.04 2571.47 1678.54 2883.7 1483.35 2147.53 1985.82 3280.13 839.924 1933.21 2307.04 4267.53 2997.97 2380.76 1340.43 1606.87 1628.53 3248.77 2343.53 +ATP6V0A2 302.594 1261.44 727.003 700.232 401.818 556.358 869.457 537.509 1370.51 325.721 691.476 592.233 825.792 820.543 1110.31 373.728 887.55 776.506 1291.99 720.69 +ATP6V0A4 3.8425 0.4026 5.3325 5.4222 12.2948 0.4011 1.6577 0 2.1142 7.1293 3.1807 0.6068 0 1.5446 0 0 3.5698 2.2883 24.4304 0 +ATP6V0B 4892.41 4482.89 3594.13 6369.48 4423.35 5544.32 3952.76 4078.06 7760.04 7331.18 4448.47 3223.3 12597.9 4020.08 8226.79 2503.24 6280.23 4140.35 8676.53 3793.97 +ATP6V0C 10203 4835.99 5812.79 12886.4 3917.03 3676.24 4306.97 7495.33 7221.38 3261.7 7074.43 6190.1 5269.23 7703.99 5147.15 9773.74 6620.08 9003.3 8377.73 5495.24 +ATP6V0D1 1415.47 2758.82 5631.17 2708.75 4330.02 3099.48 4626.19 3772.42 5383.72 2071.52 3737.91 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1859.25 878.14 1134.14 746.091 1237.99 1088.55 1406.03 +BCLAF1 2879.92 2490.67 2353.43 1979.86 2399.17 2281.99 1820.14 2882.69 3022.73 1715.05 3517.81 1745.15 2017.53 2465.88 2920.87 2378.35 2481.48 1504.2 2362.23 3111.21 +BCMO1 0.4803 0 0 2.3238 0 0 1.6577 0.68 0 0.8912 0.6361 0.6068 0 0.3861 0 0.9251 1.7849 2.2883 0 0 +BCO2 106.148 8.8579 821.212 323.78 2830.05 466.907 10.3605 36.0379 290.169 1.3367 355.598 249.393 90.4977 253.692 97.81 233.118 161.089 461.48 318.064 209.914 +BCOR 850.144 1597.23 854.984 776.917 323.019 474.128 269.374 668.741 923.89 504.846 543.893 535.194 361.425 617.434 747.011 533.765 663.097 474.447 710.359 877.586 +BCORL1 145.533 322.507 354.91 553.834 123.507 190.534 244.923 181.209 177.59 677.286 252.544 279.126 160.068 218.94 139.191 183.164 160.196 152.555 112.286 156.035 +BCORL2 1.9212 0 0 16.2665 0 0 1.6577 0 0 1.7823 3.1807 0 0 0 0 3.7003 0.8925 5.3394 0 0 +BCR 4745.92 2101.73 2138.35 993.803 1698.92 673.085 567.344 1392.9 2091.44 1123.32 529.898 822.209 843.326 1100.88 1141.48 500.462 1769.75 2078.57 2417.66 1163.36 +BCS1L 562.92 292.712 432.529 451.588 496.265 885.279 419.809 407.296 372.622 640.303 436.387 541.869 1021.49 334.395 728.201 490.287 465.265 504.195 311.017 373.276 +BCYRN1 0.4803 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +BDH1 251.201 337.807 311.065 507.359 364.933 643 13.6759 411.036 218.816 376.518 222.01 3623.18 443.439 283.811 16.6599 290.472 735.386 204.424 438.337 145.259 +BDH2 970.700999999999 1104.42 1049.33 1845.08 3315.14 625.351 801.906 3709.86 699.26 368.497 2505.09 5358.01 1044.12 3150.88 1307 5383.9 1789.83 5823.04 3826.17 737.069 +BDKRB1 1.4409 2.0132 2.37 0.7746 2.7943 2.0056 53.8748 1.6999 15.8562 12.0307 3.8168 7.8883 5.6561 1.9307 24.1838 3.7003 6.6934 6.865 1.4094 11.2069 +BDKRB2 10.0865 58.3814 65.1755 26.3362 110.654 181.709 121.011 29.9183 127.378 124.318 36.2595 92.233 237.557 45.9504 273.008 39.778 116.02 35.0877 73.2911 340.086 +BDNF 258.324 123.978 145.59 316.39 0 2.8199 84.2147 499.2 25.7188 432.532 152.048 29.2233 18.7839 108.053 9.7058 36.8548 176.64 384.874 16.0724 185.013 +BDNFOS 14.0106 20.5664 70.674 33.7258 91.0936 34.4846 8.2014 87.2661 65.1903 16.1702 50.8779 95.1699 12.8903 66.4813 61.2334 77.8538 33.0879 52.1968 156.819 11.1078 +BDP1 637.368 766.608 796.327 902.401 595.182 712.796 412.764 692.2 707.717 632.283 670.484 647.452 376.697 958.394 583.098 511.563 604.641 635.393 560.019 1666.38 +BEAN 1.4409 1.2079 24.8852 168.087 1.6766 6.8191 323.663 31.2782 32.241 24.0615 36.8957 124.393 1.6968 123.178 20.4219 151.711 17.8492 3.0511 0.9396 7.7586 +BECN1 1049.76 1233.54 1300.63 476.871 1842.99 444.079 1399.71 908.451 1014.69 1318.74 775.91 1626.27 1140.07 886.101 1283.21 998.168 868.037 731.678 1621.38 1796.23 +BEGAIN 9.6061 9.2605 12.4426 141.751 3.3531 108.704 127.228 44.1974 4.7569 558.316 15.2672 4.8544 22.6244 1.9307 9.1361 23.1267 29.8974 9.9161 24.9002 2.1552 +BEND2 0 0 0 1.5492 1.1177 0.8022 0.4144 0 0.5285 0 0 0 0 1.1584 0 0 0.8925 0 0 0 +BEND3 195.485 70.8629 69.9156 128.583 35.7668 48.937 110.236 88.7348 104.123 114.96 138.677 54.6117 53.1674 69.1186 46.2179 63.8298 108.434 125.858 92.5534 65.5172 +BEND4 0 4.4289 1.7775 15.4919 1.1177 0.4011 2.4865 6.1196 0.5285 0.8912 1.2723 3.034 0 1.1584 0 0 0 3.0511 0.4698 0 +BEND5 202.209 119.984 439.639 332.3 77.6811 179.703 7.874 242.406 293.869 5.347 413.486 97.6942 564.48 125.109 302.029 111.933 265.06 186.118 83.1572 101.293 +BEND6 1.4409 3.221 50.3629 17.8156 68.7394 36.5022 183.174 10.8794 14.7992 58.3714 22.9008 63.1068 127.262 36.2969 88.1365 105.458 12.9407 7.6278 113.225 105.172 +BEND7 133.525 324.923 213.894 340.046 201.747 315.684 55.5325 329.441 63.9535 20.0512 283.079 425.971 62.7828 316.247 56.4289 207.215 215.083 466.056 88.7949 338.362 +BEST1 8.6455 348.682 15.9976 23.2455 15.648 1.6045 205.98 4.4197 57.0825 53.47 28.626 71.0012 1.6968 5.7921 15.0477 24.9769 8.4784 29.7483 147.996 1.7241 +BEST2 0 0.8053 0 0.7746 0 2.0056 0 0.34 0 0 0 0 0 0 0 0 0 0 0 0 +BEST3 0 8.8579 21.3302 19.3648 10.6183 0 0 0.34 16.9133 3.1191 22.9008 3.6408 10.181 72.2077 8.5987 10.1758 17.8492 19.8322 209.537 100 +BEST4 22.5744 4.8316 60.4355 7.7459 17.3246 10.0281 2.901 32.2981 54.4397 4.9014 5.7252 3.6408 42.4208 10.8119 31.7076 3.7003 8.0321 5.3394 7.517 20.2586 +BET1 756.004 723.527 2492.67 996.127000000001 1004.27 549.539 1071.69 1153.21 1313.42 1039.99 883.588 999.999999999999 270.362 2206 2092.7 1512.49 1243.64 1749.05 1346.02 372.845 +BET1L 1491.83 1502.21 2752.18 2060.42 2009.65 1265.14 2813.92 2143.24 2317.65 1637.96 1789.44 1465.41 1841.63 2160.44 2130.32 1498.61 2063.81 1672.77 1482.73 1225.86 +BET3L 0 3.6237 0.5925 0 3.912 0 4.5586 1.3599 0 0.8912 0.6361 0.6068 0.5656 0 1.0748 0.9251 0 3.8139 2.8189 5.6034 +BEX1 864.073 508.522 3531.33 5620.45 10.6183 1.2034 3.7298 3610.93 5515.86 6.6837 6110.05 2800.36 1125 3236.61 3021.9 1322.85 4040.61 180.778 3375.62 681.034 +BEX2 743.516 1115.29 2183.38 2110.77 401.259 566.787 21.5499 915.227 1823.47 9.8028 2559.16 2614.68 677.602 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35.8458 59.9722 20.4195 98.2456 46.8687 57.3276 +BGN 4209.41 14140.8 2202.34 2674.67 1062.95 3484.16 17128.5 4146.74 3308.14 1607.22 6251.91 1212.99 2898.76 6818.8 3319.09 6493.99 4336.46 7235.7 4077.05 1685.78 +BHLHA15 0 5.6368 1.7775 0 0 2.8079 0 0 0 0.8912 0 0 0 1.1584 0 0.9251 0 0 0.4698 0 +BHLHB9 83.5735 176.352 231.077 337.723 77.6811 44.5247 69.2085 145.512 91.9662 74.4124 129.135 149.272 36.1991 243.653 137.042 160.037 113.342 218.154 268.264 66.8103 +BHLHE22 7.6849 6.0395 5.925 1.5492 0 1.6045 122.669 4.0798 8.9852 0.4456 5.7252 5.4612 1.6968 13.5148 2.1497 60.1295 6.2472 6.1022 5.168 0 +BHLHE23 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +BHLHE40 3711.34 3618.04 4695.01 1337.72 698.012 868.03 2747.62 1783.88 9806.03000000001 9211.09 728.371 7443.57 981.9 2325.71 1980.92 3321 4195.89 929.824999999999 900.164 1302.59 +BHLHE41 843.9 1656.42 1186.79 638.265 146.979 263.137 2938.25 608.225 1089.85 6.6837 926.845 1652.91 801.471 1109.76 207.981 854.764 981.705000000001 784.897 1221.05 427.586 +BHMT2 19.2123 802.04 26.6627 31.7583 504.089 24.4685 1.6577 3.7398 2.1142 9.8028 15.2672 108.617 1.6968 768.414 1.6123 343.201 52.6551 241.8 44.1626 4.3103 +BHMT 28.3381 0.4026 1.185 3.873 7.824 0.4011 0.8288 0.34 2.1142 0 1.9084 0 0 25.0989 0.5374 4.6253 3.5698 5.3394 2.8189 0 +BICC1 4.8031 25.7683 6.5176 16.2665 0 0.8022 111.48 29.5783 15.3277 79.3138 22.2646 72.8155 8.4842 9.2673 5.3742 220.167 28.5587 13.73 31.0078 0.8621 +BICD1 17.7714 101.463 124.426 34.8567 53.0914 256.719 232.491 37.3978 93.0233 145.26 55.9796 21.2379 61.086 91.9008 70.9391 35.1526 44.6229 26.6972 55.4381 384.483 +BICD2 1062.92 1052.48 848.467 1528.27 673.422 582.832 891.422 1156.27 973.573 1118.86 638.041 1282.16 657.24 1283.52 1190.92 1102.68 2124.5 588.101 710.359 1194.4 +BID 375.279 92.2507 105.022 271.712 246.238 170.493 770.286 252.687 122.347 1016.5 206.03 308.319 240.079 205.919 120.935 179.343 344.605 272.929 205.201 117.31 +BIK 130.644 77.7077 23.7002 80.5577 11.736 62.9763 2.0721 4.7597 212.474 120.308 36.2595 5.4612 83.1448 24.3267 6.449 17.5763 505.132 58.7338 320.413 1689.66 +BIN1 3045.15 1679.77 3988.15 1206.04 14430.8 9376.25 4174.89 83.6351 3710.89 1050.24 926.845 2950.24 9732.47 3971.04 10266.8 1289.55 440.875 1137.3 5888.65 1522.84 +BIN2 70.1249 30.1973 7.7026 60.4183 56.4445 17.6494 261.5 23.4586 27.4841 202.295 69.9746 130.461 50.3394 12.7425 39.7689 93.432 16.9567 243.326 26.3096 2.5862 +BIN3 493.276 410.683 1716.49 1721.15 1587.71 1127.56 836.718 1254.53 1136.36 431.325 2927.48 1052.79 1071.83 871.513 777.643 1317.3 1003.57 2643.02 929.763 665.086 +BIRC2 1170.99 1087.1 914.235 887.684 1180.86 2002.41 822.627 614.004 1029.6 983.402 525.445 726.942 1160.07 1042.96 856.106 470.86 834.895 720.824 743.246 1485.34 +BIRC3 62.44 42.6788 87.0982 65.0658 278.311 126.354 101.948 3.0598 205.602 386.766 83.3333 95.8738 13.5747 63.7127 34.9322 38.8529 74.9665 270.786 39.9342 21.5517 +BIRC5 49.4717 68.0727 53.9653 780.674 6.2983 878.616 693.46 54.7096 670.893 1506.19 279.199 61.1165 975.503 20.8167 297.058 49.3154 144.32 99.3059 241.865 830.638 +BIRC6 1235.83 1709.97 1400.09 1024.01 1257.43 1493.78 1031.08 1017.22 1181.29 1101.93 863.232 797.937 717.195 1043.73 1240.36 818.686 1399.82 787.185 1530.66 1986.21 +BIRC7 3.8425 2794.66 1342.02 4.6476 1020.47 1591.66 4.1442 0.34 1685.52 0.4456 1.2723 391.384 28.2805 375.326 32.2451 428.307 2215.08 8.3905 2622.5 397.414 +BIRC8 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.4462 0 0 0 +BIVM 346.782 321.005 109.021 543.764 239.75 121.941 369.25 486.512 99.9313 287.401 343.512 398.665 162.33 292.692 22.5715 187.789 243.806 317.315 370.214 401.263 +BLCAP 2267.05 2671.05 3220.86 2853.6 1420.05 1840.35 1541.65 4745.78 1755.81 2856.63 4212.47 3034.59 2892.53 6755.09 5204.89 3274.75 5427.04 4744.47 3098.43 856.897 +BLID 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.431 +BLK 0 0.4026 0 0.7746 0 0.8022 1.6577 0.34 0.5285 0.8912 1.2723 0.6068 0 0 0 0.9251 1.3387 19.8322 0.4698 0 +BLM 17.7714 31.0025 5.3325 114.64 107.3 103.49 162.453 16.659 126.321 239.278 50.8906 14.5631 57.6923 5.0198 41.3812 13.876 138.777 31.2738 308.668 166.379 +BLMH 805.956 292.712 364.983 521.301 628.155 784.196 1238.29 502.151 383.192 358.694 445.293 753.034 1088.24 357.95 588.472 587.419 381.08 353.166 468.875 1741.81 +BLNK 119.116 3.6237 153.459 19.3648 46.3851 265.945 62.1633 5.0997 51.2685 28.5173 77.6081 112.257 161.199 10.8119 26.8709 17.5763 23.6502 112.891 81.7477 0.8621 +BLOC1S1 4695 2001.46 2723.26 9082.11 2473.5 2940.76 2097.63 2865.01 4831.89 1471.76 4539.73 3785.17 2690.05 3261.4 2957.96 4605.92 2908.52 7413.13 5279.85 1207.13 +BLOC1S2 1122.96 775.868999999999 1235.37 874.516 943.909 1454.07 1212.18 966.564 971.987 992.759 1175.57 1312.5 911.765 1225.99 832.997 995.375 688.978 848.207 1405.21 1090.95 +BLOC1S3 238.232 253.255 307.51 509.682 344.815 713.598 400.332 716.678 765.328 312.799 564.249 373.18 540.724 656.048 275.158 611.471 282.017 510.298 308.198 905.172 +BLVRA 691.643 879.747 771.441 960.496 609.713 655.836 1915.87 478.352 267.97 2515.76 1145.67 1842.84 360.86 1110.53 283.219 2375.58 1507.81 1530.89 509.749 1675 +BLVRB 2469.26 718.695 1788.18 2895.43 1654.22 2453.67 2320.76 980.843 2765.33 1490.48 7125.32 5196 871.041 758.76 1498.32 6903.79 1028.56 2692.6 1095.14 532.328 +BLZF1 445.725 548.383 475.781 253.292 358.786 680.305 313.717 440.274 625.793 559.207 414.758 226.942 337.104 449.85 843.208 323.774 454.262 635.393 414.846 453.017 +BMF 127.762 77.305 30.8103 82.1069 168.775 21.2595 772.068 62.2164 103.594 141.695 213.104 128.641 45.8145 112.366 48.905 417.206 37.9295 244.851 90.6742 20.2586 +BMI1 2485 7625.22 1325.42 826.406 2268.08 1767.17 1020.62 1060.91 858.494 947.452 1448.91 2595.16 771.855 1869.4 1278.16 1884.91 739.398 2389.22 1637.66 2523.64 +BMP10 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.9396 0 +BMP15 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +BMP1 630.163 359.549 2671.6 5340.82 610.271 1990.77 3449.65 1735.6 1626.32 3129.33 835.878 402.306 2435.52 2211.8 809.351 780.759 541.276 1668.19 535.588 1337.07 +BMP2 4.8031 68.4472 36.1428 17.0411 29.0605 11.2314 43.5143 16.3191 23.2558 224.574 40.7125 162.621 3.3937 177.237 356.308 491.212 27.6662 25.9344 26.7794 7.3276 +BMP2K 61.9597 176.348 63.9905 149.496 247.015 58.564 350.187 116.613 271.67 82.4329 94.7837 373.18 32.2398 178.396 105.334 112.859 161.535 117.468 302.091 71.9828 +BMP3 1.9212 4.0263 1.185 0 0 0.8022 0 0.34 0 0 9.542 200.85 0 3.0891 13.9729 80.481 6.2472 6.865 0.4698 0 +BMP4 638.328 1966.85 2062.51 625.871 10.6183 540.714 71.695 439.594 271.67 19.6057 1411.58 78.2767 725.113 2530.75 168.212 1197.96 3333.33 4443.94 339.206 1532.33 +BMP5 0 0 0 0 0 0 1.6577 0 0 0 0 0 0 0 0 0.9251 0 0 0 0 +BMP6 790.207 763.79 61.3302 76.0728 310.484 60.4011 58.0771 3889.27 69.6617 17.9124 94.9873 31.6383 302.551 108.636 296.144 105.782 309.536 113.753 154.996 60.194 +BMP7 857.829 4.8316 2.9625 175.833 0 3.209 13.2615 1731.18 5.2854 35.6467 129.771 0.6068 108.032 3.0891 82.2249 0 94.6006 0 0.4698 312.5 +BMP8A 42.7474 45.4972 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7.6278 4.2283 24.1379 +BRWD1 1693.56 1390.28 2575.62 1267.23 1988.41 1570.8 400.332 1894.37 1326.11 1072.52 2004.45 920.51 1422.51 882.323999999999 1555.82 2026.83 1499.33 1319.6 1612.4 1043.1 +BRWD3 36.0231 138.505 82.3582 58.8691 30.1783 41.3157 53.8748 42.8375 47.5687 68.6198 75.6997 25.4854 10.7466 31.2772 22.5715 34.2276 46.8541 45.0038 62.9551 46.1207 +BSCL2 6017.06 1411.8 1290.26 1376.96 2285.59 3222.28 1846.17 1404.62 1797.31 2939.71 1619.31 2371.03 3068.22 2054.85 1190.22 2625.36 1569.92 3443.73 1547.29 2007.53 +BSDC1 2682.04 1708.36 3082.21 1295.89 4215.46 2504.61 1781.19 2364.56 3021.67 1448.59 2629.77 2224.51 3401.02 2709.53 4160.15 2371.88 1551.99 1538.52 2723.04 2282.76 +BSG 17196.4 23076.4 72898.8 114997 20313.9 16436.8 14364.3 60704.5 27769.6 14220.8 45290.7 32152.9 18644.2 76800.5 36574.5 92941.7 34357.9 86716.2000000001 22273 28738.8 +BSN 30.7397 245.605 412.383 131.681 647.156 391.095 13.6759 99.9542 1028.01 12.4763 133.588 211.772 111.425 178.782 702.405 38.8529 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5125.48 5602.73 3604.96 4631.8 4072.2 2623.29 1496.59 7706.13 4866.21 3687.02 5318.57 3883.48 2938.89 11554.5 3332.1 1850.51 3694.13 5391.12 4898.71 +CAPN3 360.307 20.1315 55.8554 147.947 144.744 18.0505 68.794 25.0531 118.06 27.3142 222.144 103.762 48.6425 31.2772 57.6542 70.3053 81.66 250.656 123.011 12.5 +CAPN5 510.567 1430.14 1505.55 949.651 316.872 76.2134 946.954 4008.03 295.454 77.5315 2562.98 1093.45 102.376 1579.69 634.153 1598.52 2004.02 2672.77 926.474 781.466 +CAPN6 0 90.1892 8.8876 0 0 0.4011 6256.11 2.7198 82.4524 0 1.2723 1.8204 3.9593 1.9307 14.5103 0 0.8925 3.0511 45.1022 0.8621 +CAPN7 491.835 1617.37 543.919 329.202 858.963 432.812 439.287 483.792 648.52 205.414 326.336 757.888 341.629 577.662 436.383 639.223 516.287 294.432 393.704 749.138 +CAPN8 1.9212 0 39.1053 4.6476 0.5589 1.2034 0.4144 0 144.292 0 0 0.6068 2.8281 0.3861 3.2245 1.8501 4.4623 1.5256 16.9133 9.9138 +CAPN9 0 0.4026 86.5057 0.7746 1.1177 2.0056 0.4144 0 20.0846 0 3.8168 0 0 21.6237 161.225 18.5014 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0 0 1.2433 1.3599 0.5285 1.3367 0.6361 7.2816 0 0.3861 0 1.8501 0 0 0 0 +CAPZA1 3361.67 1791.71 1568.95 1719.6 1881.67 1529.88 3313.72 2095.3 2127.38 3517.43 2274.17 1255.46 1195.7 1577.37 2183.53 2675.3 1749.22 1847.44 2407.33 2128.02 +CAPZA2 1541.79 3682.46 2194.05 1216.89 2598.68 1625.35 2809.37 2592.69 2044.93 1841.6 1282.44 4107.4 990.949999999999 2500.63 2640.87 1904.72 2252.12 1990.08 5336.15 1526.72 +CAPZA3 0 0 0 1.5492 0 0 0 0.68 0 0.4456 0 0 0 0 0 0 0 0 0 0 +CAPZB 5505.76 2690.78 3640.94 5014.72 4277.49 3508.62 6514.3 4620.67 4599.89 8241.95 5395.04 2933.86 4955.88 3014.58 4315.46 4471.79 2971.44 5035.85 4258.4 3002.59 +CARD10 278.098 111.126 216.857 399.853 766.192 170.076 240.365 111.513 670.19 85.9975 319.338 277.306 88.8009 306.979 70.4017 330.37 575.19 237.224 515.856 532.289 +CARD11 55.2354 14.8973 13.6276 98.3734 40.2377 16.8472 60.92 11.8993 30.6554 153.281 33.715 134.102 1199.66 36.2969 49.9798 104.533 26.7738 187.643 96.312 3.0172 +CARD14 100.865 31.4052 60.4355 154.919 204.542 96.2696 13.6759 25.4985 54.9683 21.8336 152.672 31.5534 137.443 32.4356 198.307 18.5014 40.6069 24.4088 22.5511 53.0172 +CARD16 35.5427 18.521 10.6651 71.2626 123.507 11.2314 360.133 24.1386 191.332 2990.31 81.4249 70.9951 73.5294 19.693 30.0954 95.2821 12.9407 394.356 37.5852 2.1552 +CARD17 0 0 0 0 0 0 0 0 0 56.5891 0 0 0 0 0 0 0 0 0 0 +CARD18 0 0 0 0 0 0 0 0 0 0.4456 0 0 0 0 0 0 0 5.3394 0 0 +CARD6 378.962 196.484 572.952 320.682 254.839 224.629 711.977 192.089 298.626 443.801 703.562 834.345 1140.84 63.7127 48.3676 1555.04 553.771 585.05 1414.61 566.379 +CARD8 372.719 311.636 994.816 1731.22 475.028 1993.18 492.333 940.045 681.29 608.221 751.272 404.733 774.321 493.87 555.69 675.301 430.611 962.623999999999 287.526 909.052000000001 +CARD9 22.0941 9.2605 1.7775 18.5902 22.9131 7.6213 196.85 4.7597 9.5137 70.4021 14.631 70.3883 33.371 10.8119 10.2109 15.7262 16.0643 93.8215 5.6378 1.7241 +CARHSP1 2843.05 891.492 5150.43 3693.08 4161.19 3149.69 1445.54 1173.31 3887.75 2222.11 5042.89 4013.95 4107.68 3174.6 2809.17 5069.73 2463.21 4788.31 2467.91 1818.95 +CARKD 3865.03 2597.77 2332.69 3312.16 2664.63 1164.46 1207.63 4773.66 1934.99 607.33 2270.36 1361.04 1942.87 2930.78 1713.29 866.79 2390 2080.09 5826.17 2623.28 +CARM1 915.466 1000.94 1429.71 2113.09 981.352 1126.75 2014.5 1563.23 1742.6 716.052 1562.34 1026.09 966.629 1338.35 1609.57 1881.59 1223.56 1390.54 473.573 1526.72 +CARNS1 10.0865 12.0789 30.2177 94.5004 19.56 19.2539 9.9461 9.5194 9.5137 31.6364 5.7252 15.1699 6.2217 11.9703 35.4696 19.4265 18.2954 12.9672 9.8661 4.7414 +CARS2 1234.68 792.067 855.014 1074.08 1445.94 276.213 575.814 582.648 897.986 921.239 474.218 566.869 754.604 549.35 583.56 224.792 367.479 726.911 1077.54 540.72 +CARS 569.164 1273.12 780.909 676.22 548.238 659.447 2348.11 753.396 865.222 1420.52 711.832 760.922 546.946 928.661 714.766 570.768 711.29 756.674 658.68 659.914 +CARTPT 1.4409 0 0 1.5492 0 0 0 0 9.5137 0 0.6361 0 4.5249 0 9.1361 0 0 3.0511 0.9396 0 +CASC1 4.3228 57.1735 10.6651 29.4345 18.4423 1.6045 2.901 35.6979 20.6131 4.4558 40.0763 26.0922 20.362 50.9702 49.4424 34.2276 63.3646 86.1937 13.6246 5.1724 +CASC2 29.7791 66.434 87.6907 61.1929 62.0331 64.5808 4.1442 67.996 41.7548 46.3406 100.509 123.18 32.8054 163.336 122.531 71.2303 170.906 144.928 125.91 32.3276 +CASC3 1796.35 2027.24 960.45 649.884 1399.94 515.443 1413.18 1040.68 881.607 1507.41 805.98 1578.28 1135.75 781.543 1101.17 942.646 805.444 971.014 810.9 1665.95 +CASC4 3658.5 3906.72 8754.25999999999 2020.91 5979.77 6901.72 2388.73 3317.87 9176 2566.56 3578.24 3041.87 2084.84 5541.08 3973.67 4122.11 2671.13 5199.85 8021.61 2953.88 +CASC5 5.7637 73.6814 21.9227 24.0124 1.1177 187.726 33.9826 18.019 207.188 159.519 39.4402 6.068 26.0181 7.3366 74.7011 2.7752 53.9938 16.0183 57.7872 154.31 +CASD1 795.389 1152.33 924.9 364.059 1154.6 432.411 418.152 788.754 530.127 498.162 448.473 487.864 141.968 825.176 357.383 420.907 645.694 568.269 1168.43 687.931 +CASK 897.213999999999 1712.39 3311.51 2261.04 439.82 1083.03 1759.22 1723.36 2747.36 955.776 2103.69 891.384 756.787 1814.07 1973.94 1426.46 1103.08 1982.46 2411.56 1489.22 +CASKIN1 18.5447 11.5958 49.1542 558.42 26.5848 9.1617 5.748 103.174 11.2791 5.0485 7.2265 12.6396 22.0475 48.3753 10.5764 23.4228 36.1044 1.9451 6.3472 40.694 +CASKIN2 1244.2 1406.87 1410.29 2570.87 1504.63 1480.73 768.831 2233.29 1428.67 448.462 2508.07 1236.89 1799.26 624.863 2587.9 2232.41 703.521 1438.95 1731.63 697.789 +CASP10 73.9673 194.873 132.721 77.4593 228.572 527.878 300.456 77.5155 154.334 494.152 195.293 121.359 223.416 92.673 57.5037 203.515 36.5908 244.851 219.403 276.724 +CASP12 5.7637 2.8184 4.1475 0 1.6766 3.209 17.8201 11.2193 0 0.4456 4.4529 4.2476 2.2624 2.3168 2.1497 2.7752 0.4462 3.8139 0.4698 0.431 +CASP14 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CASP1 49.952 51.5367 37.3278 68.1642 220.19 20.0562 716.95 47.5972 162.791 3496.05 132.315 148.058 71.267 32.4356 62.3405 210.916 33.9134 463.005 76.1099 6.0345 +CASP2 712.296000000001 916.387 1113.32 941.905 259.868 731.247 1053.05 683.36 1013.21 1084.55 567.43 578.277 434.389 866.879 776.031 785.384 1186.97 749.047 571.294 406.897 +CASP3 861.672 645.819 404.681 1040.28 497.941 967.509 1111.07 876.809 335.624 493.261 841.603 410.801 1188.91 596.969 570.738 750.231 581.883 550.725 771.435 842.241 +CASP4 187.8 437.257 572.36 369.481 960.675 882.07 1555.33 273.684 968.816 2825.44 711.196 561.286 690.045 522.444 305.253 800.185 431.504 1088.48 506.46 510.345 +CASP5 0.4803 0.8053 0 3.0984 1.1177 0 33.5682 0 7.9281 37.8746 0.6361 1.8204 1.1312 0 0 0.9251 0.4462 6.865 0.9396 0 +CASP6 205.572 148.973 237.002 1013.17 220.19 328.119 250.311 86.015 171.776 259.775 209.287 297.33 360.294 184.574 164.987 449.584 66.9344 239.512 325.581 158.19 +CASP7 79.2507 274.191 277.885 346.243 438.144 592.058 920.017 225.067 332.452 787.791 298.982 428.398 503.394 306.979 325.138 309.898 221.776 458.429 159.737 941.379 +CASP8 330.932 450.141 343.06 211.464 623.684 929.001 390.385 235.946 231.501 909.881000000001 340.331 365.291 743.778 490.395 263.872 636.448 132.53 437.834 436.458 759.914 +CASP8AP2 119.116 489.196 211.524 258.714 171.01 250.702 200.166 179.85 349.366 288.292 285.623 137.743 158.371 147.891 162.838 175.763 151.718 178.49 242.424 402.155 +CASP9 981.268 296.336 494.741 524.4 508.001 738.067 336.096 404.916 602.537 511.084 367.048 322.815 791.29 360.266 806.127 301.573 475.234 425.629 397.463 896.983 +CASQ1 3.8425 4.4289 2.37 3.0984 102.83 0 2.901 0 7.9281 0 54.0712 0.6068 0.5656 1.5446 0 0.9251 1.7849 3.0511 3.2887 3.0172 +CASQ2 21.1335 4.0263 0.5925 15.4919 3.912 52.9483 26.9374 59.1566 7.3996 1.7823 8.2697 37.6214 0 0.3861 2.1497 61.9796 7.1397 10.6789 2.3491 3.8793 +CASR 1.4409 0 0.5925 32.5329 101.153 0.4011 1.6577 1.0199 0.5285 0 2.5445 0 2.2624 0.3861 0 0 0 0 1.4094 3.0172 +CASS4 4.8031 14.8973 23.7002 28.66 8.3829 4.8135 51.8027 2.7198 5.814 12.0307 15.2672 40.6553 2.2624 5.4059 7.5238 15.7262 18.2954 22.1205 2.8189 2.5862 +CAST 5939.76 5269.04 7446.99 2811.61 5234.77 3256.02 3299.64 2652.14 6677.23 8421.44 5636.54 5520.51 2282.91 4958.64 5816.26 6175.59 3960.65 4382.23 5168.66 5161.63 +CASZ1 87.8963 131.66 35.5503 84.4307 516.942 359.808 25.2797 77.8555 44.926 255.319 26.0814 26.0922 185.52 60.6236 26.8709 60.1295 369.032 93.0587 63.4249 128.879 +CAT 2259.85 1901.62 1914.98 1006.2 3013.91 2464.5 1438.46 2174.85 894.820000000001 1116.19 1281.17 2216.63 1766.4 1499.76 1373.64 1113.78 1109.33 717.773 1587.5 2155.17 +CATSPER1 1.4409 0.8053 1.185 2.3238 0.5589 1.6045 6.2163 0.68 1.0571 22.2792 0.6361 2.4272 10.7466 1.5446 0 0.9251 0.8925 0.7628 26.7794 3.4483 +CATSPER2 20.6532 27.7573 5.925 27.8854 65.3862 12.0337 11.1894 11.5593 13.7421 19.1601 42.6209 28.483 8.4842 28.188 6.9864 16.6512 12.9407 48.0549 21.6115 9.4828 +CATSPER2P1 12.0413 25.4583 12.4959 5.4531 21.8513 3.6342 9.5607 3.7704 13.2664 15.6266 4.4656 11.5473 13.0204 15.4918 6.4651 14.8474 11.178 25.2403 14.5877 5.2112 +CATSPER3 7.2478 2.0574 17.7751 47.2502 21.2366 24.8696 2.4865 15.6391 24.8414 16.4866 63.6132 46.6201 14.7059 39.4826 51.7963 27.7521 32.5747 25.1716 55.3441 3.8793 +CATSPER4 0 0 0.5925 0 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 0 0 0 +CATSPERB 1.9212 0 1.185 7.7459 0 0.4011 0 0.34 0 1.7823 10.8142 0 0.5656 2.3168 0 7.4006 0.4462 3.8139 16.4435 0 +CATSPERG 1.4409 6.0395 18.9602 27.1108 2.7943 10.8303 7.0452 5.0997 21.1416 6.2382 5.0891 15.1699 0.5656 1.9307 11.2858 12.0259 10.2633 6.865 1.4094 0.8621 +CAV1 360.231 695.745 256.555 168.087 2229.28 1192.94 3676.75 1507.13 508.457 7077.64 594.784 350.728 556.561 600.83 678.759 1070.31 386.435 2015.26 350.012 215.086 +CAV2 155.62 275.399 94.2083 283.501 2206.93 257.521 862.826 387.238 178.118 1940.51 162.214 733.616 192.308 612.801 161.225 979.649 287.372 1932.88 212.356 79.7414 +CAV3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CBARA1 1343.42 2837.74 1634.72 2271.11 2879.23 3032.89 1952.34 3667.03 1149.58 1407.15 2188.93 4065.53 2077.49 2151.17 1801.42 3130.43 1232.93 2399.69 1937.04 1954.31 +CBFA2T2 451.969 981.613000000001 371.5 657.63 429.761 313.277 750.518 600.745 385.835 604.211 674.936 547.937 442.308 479.583 489.587 388.529 471.218 627.765 342.025 601.724 +CBFA2T3 168.108 121.594 853.799 1015.49 94.4468 201.765 90.344 90.4347 118.922 11.5852 40.0763 369.539 368.778 55.6038 62.8779 404.255 198.126 34.3249 59.6664 6.4655 +CBFB 1042.75 849.953 652.94 1065.84 459.38 651.424 1500.21 1053.26 1367.86 2287.18 725.191 511.529 850.679 661.068 1001.75 610.546 1157.97 1119.76 284.238 1533.19 +CBL 508.646 1003.35 435.491 327.653 263.221 682.311 580.605 443.334 340.909 1073.41 266.539 405.947 177.602 287.673 164.45 343.201 400.268 412.662 422.363 530.172 +CBLB 423.631 396.994 777.959 295.12 149.215 184.918 680.481 503.511 291.226 520.887 185.114 559.466 149.887 344.435 399.301 617.946 331.548 325.706 184.167 298.276 +CBLC 0 0.4026 0.5925 0 0 0 0 0 0 103.821 0 0 0 1.5446 0 0 0 0 0 0 +CBLL1 524.496 679.237 671.9 591.015 395.112 610.108 555.325 572.867 552.854 531.135 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529.862 437.861 4151.05 508.56 897.714 7481.97 838.051 135.307 847.054 92.2392 54.0049 1147.62 240.564 186.484 3148.94 527.443 84.6682 73.7609 754.31 +CERK 256.484 1019.46 1240.11 1051.12 615.86 326.514 1496.89 618.084 1099.37 835.023 322.519 998.18 524.321 979.631 1394.06 395.005 766.176 507.246 1226.69 1219.83 +CERKL 12.9635 14.7725 3.3121 19.7057 9.2267 12.0297 355.193 18.5289 25.7241 146.65 40.5662 35.3398 35.2036 7.8386 7.2444 30.1295 18.4516 84.2258 22.0296 1.1466 +CES1 4.8031 2.8184 139.239 5.4222 17731.4 4.8135 934.107 0 76.1099 124.763 0.6361 2.4272 0.5656 30.5049 106.946 0 11.602 4.5767 253.7 88.7931 +CES2 1288.18 1023.49 8104.87 2397.37 4901.73 2148.42 1037.71 2710.32 5860.47 1697.67 5232.82 8515.17 2140.27 8870.74 33737.5 5650.32 2683.62 2174.68 2297.86 921.121000000001 +CES3 7.6849 1.6105 94.2083 349.342 11.1771 67.3887 22.3788 4.4197 102.537 22.7247 92.2392 56.432 3.9593 14.6732 14.5103 8.3256 6.2472 79.3288 0.4698 3.8793 +CES4 0 0 0.5925 0 177.716 0 6.6308 0 0.5285 0.4456 0 0 0 0 0.5374 0 0.4462 0 301.151 0 +CES7 0 0 55.1029 3.873 0.5589 0 0.4144 0 97.7801 0 17.1756 0 0 2.703 8.0613 0 1.3387 62.5477 555.321 0 +CES8 47.0701 50.3288 11.8501 13.1681 101.153 1.2034 20.7211 0.68 56.0254 60.5993 10.8142 139.563 3.3937 344.821 1.6123 14.8011 3.5698 32.7994 106.648 0 +CETN1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CETN2 1844.38 843.108 2885.5 1978.31 1127.77 4113.12 627.435 1268.47 2737.32 1454.38 2181.93 2016.99 2070.7 2600.64 2377.54 2940.8 2011.6 2694.13 1877.38 1797.84 +CETN3 392.411 225.473 538.587 1193.65 450.997 408.343 226.274 644.263 702.96 492.815 814.885 529.733 350.113 659.523 596.534 892.692 1132.98 775.744 489.547 304.741 +CETN4P 0 2.8184 3.555 0.7746 10.6183 0.8022 4.5586 0.34 1.5856 0.8912 6.9975 11.5291 1.6968 8.1089 9.1361 21.2766 8.4784 4.5767 5.6378 3.4483 +CETP 16.3305 37.8473 43.8454 24.0124 9.5006 76.2134 396.187 39.0977 68.1818 45.4495 45.1654 11.5291 46.9457 20.0792 10.7484 75.8557 7.5859 25.1716 90.6742 3.4483 +CFB 26.4169 115.845 1003.7 29.4345 70.4159 8.8247 691.003 1.6999 19.556 4272.47 188.931 52.7913 10.181 32.4356 21.9051 1888.99 62.4721 531.655 11.7454 2.1552 +CFC1B 0 0 0 0 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 0 0 0 +CFD 41.3064 49.9262 96.5783 263.362 493.471 111.512 1101.12 38.4178 141.649 189.818 232.824 101.942 100.113 91.5146 97.81 333.95 228.469 113.654 66.2438 69.3966 +CFDP1 2221.9 820.561 1714.12 1433.77 882.994 940.232999999999 992.540000000001 1384.74 1989.96 1040.88 2197.84 1255.46 2070.7 859.541999999999 1821.85 2128.58 1933.07 2076.28 1129.9 881.034 +CFH 187.8 1134.61 528.514 62.7421 141.391 83.0325 2942.4 133.952 203.488 3594.52 492.366 138.956 329.185 589.632 812.038 1316.37 585.899 1461.48 275.311 93.5345 +CFHR1 0 0 0 0 0 0 9.1173 0 0 0 1.9084 0 0 0.7723 3.2245 3.7003 0 0 0 0 +CFHR2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CFHR3 0.4803 1.2079 0.5925 0 0 0 2.901 0.34 0 0.8912 0.6361 0 0 0.3861 0.5374 0 0.4462 0.7628 0.9396 0 +CFHR4 0 0.4026 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CFHR5 0 0 0 0 0 0 0.8288 0 0 0 0 0 0 0 0 0 0 0 0 0 +CFI 204.131 1399.14 5557.7 4196.75 328.049 2621.34 1806.46 997.502 356.765 704.913 365.776 1349.51 1774.89 2384.01 953.916 5339.5 731.816 3215.1 2055.91 614.655 +CFL1 8596.06 6839.48 9753.81 9006.2 9089.8 12581.2 20925 7704.63 12912.8 31089.7 12768.4 7445.39 13270.4 9533.35 7976.35 11767.8 9270.42 10186.9 7742.54 14238.4 +CFL2 2346.3 2221.31 2448.23 1271.88 1943.7 1925.39 576.046 2678.7 1763.21 960.677 1625.32 2093.45 2766.4 1087.36 1435.44 4017.58 1369.48 999.999999999999 3861.4 2406.9 +CFLAR 296.35 741.242 751.889 439.969 835.491 1198.96 736.428 440.274 562.896 921.912 391.221 672.33 939.479999999999 617.82 621.255 479.186 517.18 440.122 451.492 792.431 +CFLP1 6.244 3.221 5.3325 0.7746 2.2354 2.4067 1.6577 0.34 6.871 1.3367 2.5445 0.6068 0.5656 2.3168 2.6871 7.4006 2.6774 6.865 2.8189 2.5862 +CFP 31.7003 13.6894 46.2154 679.318 158.156 20.8584 88.2719 33.998 47.5687 30.2997 74.4275 14.5631 15.8371 33.594 25.796 37.9278 50.8701 110.603 50.2701 3.8793 +CFTR 0 1.6105 0.5925 0 0 0 0 0 0 0 0 0 0 0.3861 0 0 0 0.7628 1.4094 0 +CG030 45.6292 13.6894 20.1452 14.7173 7.824 7.6213 27.7663 11.5593 9.5137 36.0922 21.6285 22.4515 4.5249 17.7623 14.5103 12.0259 19.1879 52.6316 12.685 21.1207 +CGA 0 0 0.5925 0 0 0 0 0 7.3996 0 0 0 5.6561 0 0 0 0 0 6.1076 0.431 +CGB 0.4803 0.4026 5.925 68.1642 1.1177 0.4011 0 0.68 16.3848 2.2279 0 0 0.5656 0 0 0 1.7849 0 0 0 +CGB1 0 0 2.37 35.6313 0 0 0 0.34 11.0994 0 0 0 0 0 0 0 2.6774 0 0 0.431 +CGB2 0 0 25.4777 178.156 0.5589 0 0 0 47.0402 2.2279 0 0 0 0 0 0 2.6774 0.7628 0 0.431 +CGB5 0 0 0 0.7746 0.5589 0 0 0.34 0 0 0 0 0 0 0 0 0 0 0 0 +CGB7 0 0.4026 1.185 6.1967 1.1177 0.8022 0.8288 0.34 0.5285 1.7823 2.5445 0.6068 0 0.3861 0 0 0 0.7628 1.9544 2.1552 +CGB8 0 0 0 0 0 0 0 0 0 2.6735 0 0 0 0 0 0 0 0 0 0 +CGGBP1 2430.84 2766.47 1396.53 1498.84 1484.32 1293.22 1778.28 1702.28 1346.19 1382.2 1497.46 2222.09 1192.87 1267.3 1197.9 2285.85 1302.1 1711.67 1617.57 2117.67 +CGN 9.1258 29.392 26.0702 48.7994 465.528 18.4517 12.8471 8.1595 70.8245 5.7926 19.7201 39.4417 4.5249 11.9703 3.2245 14.8011 108.434 19.0694 272.492 18.5345 +CGNL1 2531.22 1032.34 722.263 115.414 798.047 14.8416 588.894 5204.42 23.2558 1.3367 1272.9 179.005 96.1538 2838.11 152.089 516.189 2456.49 1114.42 239.136 1157.33 +CGREF1 8.5639 43.7458 53.9179 185.871 12.6916 58.6643 6.552 90.4823 7.5264 176.032 21.9275 44.8483 5.3281 40.6757 80.0161 32.9232 79.2771 23.6995 4.0357 2.2069 +CGRRF1 195.005 276.607 341.283 195.972 133.567 190.935 231.247 219.967 240.486 139.022 277.354 195.995 230.769 164.881 311.165 191.489 319.054 152.555 567.066 177.586 +CH25H 19.6926 44.2893 4.1475 4.6476 69.2982 14.4404 1585.16 12.5793 21.1416 16.4866 34.9873 242.112 75.2262 6.9505 46.7553 555.042 58.456 26.6972 9.8661 9.0517 +CHAC1 33.1412 33.0157 90.0607 178.931 10.0594 59.7673 28.5951 15.2991 126.85 70.4021 82.6972 16.3835 44.6833 33.9801 48.3676 19.4265 37.4833 308.162 168.194 16.3793 +CHAC2 71.0855 50.7314 111.391 37.9551 79.9165 211.793 52.2172 36.3779 89.852 139.913 62.341 34.5874 119.344 69.5048 104.259 49.0287 106.203 102.975 125.441 171.983 +CHAD 97.5024 23.3526 12.4426 5.4222 141.95 6.8191 2.0721 6.4596 4.7569 0.4456 31.8066 24.2718 501.131 6.5643 6.9864 6.4755 70.5042 22.1205 28.1889 32.3276 +CHADL 11.5274 99.4497 2.37 28.66 13.9714 8.4236 27.3518 7.1396 2.1142 53.0244 10.1781 11.5352 6.2217 2.703 6.9864 9.2599 6.2472 12.9672 2.8189 4.3103 +CHAF1A 323.247 453.362 482.299 897.754 285.576 1206.58 681.724 693.9 1126.32 479.893 611.323 483.01 905.543 427.841 794.841 233.118 1001.34 345.538 296.923 968.103 +CHAF1B 38.9049 114.347 93.6158 157.242 51.4148 294.023 172.399 89.7548 133.192 479.893 124.682 57.0388 292.986 43.2474 255.811 145.236 462.74 81.6171 53.089 185.776 +CHAT 0 0 0 3.0984 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4.2283 0 +CHCHD10 824.688 738.827 1048.14 2213.79 997 606.498 222.13 376.698 798.626000000001 1241.39 404.58 1495.75 1041.29 788.107 881.365 366.327 972.78 375.286 945.736 430.172 +CHCHD1 1513.93 997.316 677.233 2096.05 921.555 1817.09 867.385 1159.33 811.311 1318.93 2068.07 1866.5 1605.2 930.206 855.032 1815.91 702.811 1783.37 969.697 1040.09 +CHCHD2 8379.44000000001 5310.29 14643.8 8724.24000000001 8470.03 17168.9 9284.29 5719.83 18108.4 4763.28 9637.4 10037 16069.6 18342.7 24711.5 8555.04000000001 9000 9532.42000000001 17268 11488.8 +CHCHD3 431.796 1183.73 1017.33 473.276 918.202 1231.45 1337.75 1013.82 1243.13 1235.16 696.565 1847.09 620.475 1125.59 1488.65 508.788 1469.88 705.568 1761.33 753.448 +CHCHD4 164.265 474.299 293.29 150.271 424.731 235.86 224.617 219.287 339.324 286.956 367.685 922.33 295.249 278.019 322.451 354.302 325.301 279.176 450.082 361.638 +CHCHD5 601.345 248.826 300.4 368.706 827.108 451.665 463.324 319.921 366.279 509.747 468.829 544.903 661.199 313.544 597.071 598.52 374.386 495.042 400.282 515.086 +CHCHD6 247.839 308.817 300.992 175.058 142.508 235.86 144.633 220.307 277.484 122.981 407.761 526.092 265.837 159.861 317.614 380.204 219.545 196.034 289.875 195.69 +CHCHD7 366.955 346.262 446.749 491.092 585.123 264.741 610.029 184.949 385.307 346.218 508.27 633.495 219.457 364.128 489.587 282.146 414.101 443.936 391.825 504.31 +CHCHD8 2024.5 738.827 946.23 1037.96 1740.28 2535.9 839.204 857.77 1601.48 1979.28 1470.74 1425.36 3584.84 673.81 1341.39 1125.81 1021.87 1254 1329.57 936.637999999999 +CHD1 680.115 81.734 757.221 1044.93 447.085 463.698 453.377 571.847 616.279 863.54 848.601 404.126 320.136 696.592 550.316 547.641 720.66 428.68 694.386 510.345 +CHD1L 467.339 839.082 380.388 536.793 286.135 371.039 595.524 250.905 354.123 1805.5 358.142 434.466 269.796 295.781 242.913 150.786 288.264 442.41 290.345 640.948 +CHD2 1839.1 1708.76 1487.78 2851.28 1141.74 987.164 1556.57 1292.26 1623.15 1444.13 1704.83 1081.31 936.652 1457.28 1111.38 1212.77 1316.82 2416.48 1650.93 1082.33 +CHD3 2539.39 2272.04 2316.1 3760.65 2399.17 2562.37 2582.26 3847.22 1417.02 1157.62 3229.01 3637.14 1270.93 1494.74 2344.75 1677.15 1683.62 1900.84 1976.98 1796.55 +CHD4 4156.63 7746.04 7472.64 5743.08 4624.65 3412.93 5411.95 5927.34 7447.86 4441.81 6267.7 6656.35 4880.79 3533.9 5727.93 7563.08 4471.35 5471.12 9331.94000000001 4236 +CHD5 45.1489 130.855 4.74 158.017 0.5589 1.6045 3.7298 91.7947 13.2135 0.8912 4.4529 1.8204 36.1991 9.2673 19.8845 2.7752 5.801 6.1022 0.9396 2.5862 +CHD6 731.508 2051 1023.85 1278.85 553.268 598.075 526.73 1662.16 705.074 643.422 1247.46 1142.6 588.235 1588.96 838.909 1381.13 1309.68 849.733 708.48 1338.79 +CHD7 126.321 153 81.7657 381.1 545.444 28.4797 107.75 112.873 125.793 920.129 398.855 144.417 13.009 67.188 75.7759 101.758 93.2619 188.406 83.1572 11.2069 +CHD8 1021.61 1548.11 1954.08 1604.96 635.42 792.619 1073.77 2761.32 1476.74 1400.47 1447.2 720.874 1529.98 763.008 1106.54 1072.16 1484.16 704.043 1617.1 1979.74 +CHD9 817.963 1723.26 1537.55 1934.16 475.587 613.317 624.534 1311.64 798.626000000001 706.695 933.841999999999 820.995 501.131 1566.56 735.725 1029.6 1150.83 938.215 674.654 987.5 +CHDH 15.8501 130.855 20.1452 66.615 17.3246 0.4011 12.8471 0.68 19.556 12.0307 10.1781 1401.09 1.1312 42.8613 1.6123 12.951 32.1285 2.2883 55.4381 0.8621 +CHEK1 85.4947 125.218 73.4706 118.513 120.713 462.094 196.022 47.9372 252.114 470.981 122.773 89.8058 328.054 97.3067 93.5107 135.06 224.9 104.5 65.774 408.621 +CHEK2 196.926 99.8523 879.277 230.829 177.158 601.685 582.677 57.4567 533.298 622.034 109.415 52.1845 735.86 403.9 1880.42 131.36 484.159 269.26 209.537 314.224 +CHERP 1506.96 1238.41 2446.44 2390.43 1419.45 1775.66 1371.79 2878.17 2349.2 1031.31 2114.52 1328.62 1608.17 2165.58 2516.26 1768.91 2663.03 1813.84 1246.26 1757.18 +CHFR 585.495 839.082 409.421 1208.37 510.236 637.385 1250.73 698.319 447.674 509.747 800.891 544.296 500.566 291.148 749.698 458.834 465.417 594.966 432.229 481.897 +CHGA 27.3775 25.3657 24.2927 7.7459 1.1177 0 0 0.34 13.7421 0 4.4529 16.9903 9.0498 3.4752 3.2245 0.9251 20.5266 2.2883 8.9265 2.1552 +CHGB 10147.9 793.182 10926.4 2635.94 1083.06 3492.18 122.254 8120.77 2288.58 783.781 45320.6 7646.84 47420.2 7704.6 905.011 23415.4 1895.14 50627 880.902 51.2931 +CHI3L1 1.9212 64.0182 0.5925 0 0.5589 0.4011 1048.07 1.0199 18.4989 914.337 1.2723 7.8883 3.3937 2.3168 3.7619 862.165 5.3548 24.4088 9.8661 1.7241 +CHI3L2 0.4803 0.4026 338.32 3.0984 4.4709 0 211.355 1.0199 23.2558 228.584 0.6361 323.422 1.6968 0.7723 39.7689 179.464 2.2311 2.2883 29.5983 0.431 +CHIA 0 0 0 0 0 2.0056 0 0.68 0 0 0.6361 0.6068 0.5656 0 0 0 0 0.7628 9.3963 0 +CHIC1 618.156 713.461 828.914 506.584 287.252 255.515 299.213 890.748 389.006 184.917 900.127 907.766999999999 188.914 909.354 377.805 1252.54 481.481 1138.06 1531.6 351.724 +CHIC2 146.494 196.081 129.759 245.546 268.251 281.588 361.79 265.865 258.457 181.352 170.483 117.112 248.869 406.989 244.525 226.642 428.826 214.34 138.595 347.845 +CHID1 1811.72 2373.91 2703.6 1780.79 4346.79 4944.65 3671.36 2031.72 1546.51 2204.75 2311.7 1666.87 2434.39 2618.4 1582.7 3007.4 1433.73 2558.35 1729.86 2071.12 +CHIT1 43.2277 107.1 34.9578 0 5.0297 1.6045 90.344 0 49.1543 7.5749 15.2672 10.9223 4.5249 1.9307 9.1361 1.8501 6.6934 0.7628 12.2152 0.431 +CHKA 1184.92 793.585 449.711 2564.68 1039.47 1889.69 688.769 1267.79 1162.79 716.498 859.415 683.252 2464.93 699.681 604.058 450.509 691.655 1073.23 881.842 991.810000000001 +CHKB 410.336 353.993 193.915 276.53 397.459 129.543 259.78 89.7072 137.019 781.326 129.173 98.5498 322.2 96.7082 110.262 114.44 185.404 303.013 358.276 459.172 +CHKB-CPT1B 472.142 141.919 237.885 992.006 351.426 118.227 237.319 103.028 203.816 474.332 157.602 190.182 29.0441 234.208 107.526 113.941 374.056 766.201 68.7996 222.06 +CHL1 1031.22 107.502 4.1475 6.9713 0.5589 0 5.3875 1425.88 2.6427 558.761 0.6361 0 30.543 678.83 3.2245 53.654 3348.51 7.6278 4.2283 8163.36 +CHM 147.454 1100.79 698.563 411.309 239.191 469.314 376.709 368.539 872.622 290.52 410.305 695.995 209.276 623.999 480.451 523.589 524.319 459.192 944.797 779.31 +CHML 364.073 1892.36 161.161 173.509 63.7097 95.8684 24.4509 317.541 85.6237 411.273 229.644 535.194 468.891 284.197 452.506 293.247 403.391 836.766 170.073 972.845 +CHMP1A 2520.17 2278.08 3402.16 4473.28 2096.83 1898.52 3765.44 2970.41 3109.94 3064.28 3129.77 3062.5 2533.37 3064.77 3659.28 3700.28 4112 2348.59 1575.29 2012.07 +CHMP1B 1052.35 1460.74 1628.8 1619.67 997.558999999999 847.974 2900.95 3386.88 1449.79 1242.29 1174.3 1780.34 815.611 2428.81 1259.71 1805.74 1444 1826.09 1611.93 2033.19 +CHMP2A 4234.87 1964.84 5154.79 7587.14 4631.25 4148.82 2151.26 4977.99 4644.82 1458.39 6454.83 4604.37 5358.6 4586.16 4870.62 7852.91 4361.45 7318.84 2805.26 2654.74 +CHMP2B 706.532 1366.93 654.125 381.875 621.449 403.129 679.652 689.82 487.315 249.527 631.043 1765.17 390.837 664.157 740.562 987.049 516.287 444.699 1157.62 590.948 +CHMP4A 999.433 788.636 1415.68 1226.82 1041.07 725.696 1007.29 1833.05 1794.2 1433.82 1355.89 942.136 1954.24 632.432 2150.79 815.513 1260.67 842.136000000001 1607.58 978.345 +CHMP4B 4434.2 4427.32 3153.31 2432.22 5919.41 2707.18 4938.25 6087.69 3421.78 4283.84 6068.7 5287.01 5977.38 5881.65 4371.36 7443.11 5381.97 6518.69 3540.99 5713.36 +CHMP4C 266.571 521.809 21.9227 70.488 388.964 239.069 2.4865 246.826 105.708 130.11 360.051 280.34 141.403 515.88 11.8232 253.469 42.838 183.066 270.143 307.759 +CHMP5 1418.52 1347.93 1119.13 1015.3 2070.95 1896.39 1410.17 743.85 2236.84 1921.21 1079.54 3025.98 1343.72 1878.27 3078.37 1787.03 1057.66 959.207 1703.39 1143.9 +CHMP6 650.817 464.635 519.627 787.761 928.261000000001 559.567 1363.03 675.201 665.962 477.665 541.349 1049.76 954.186 543.682 361.682 858.464 481.928 329.519 567.066 621.121 +CHMP7 1466.38 853.173999999999 1218.78 1100.7 1062.95 1518.65 1525.9 2384.28 755.285 687.98 1389.31 1979.37 1537.33 1333.72 888.889 1167.44 741.187 1775.74 1377.03 1379.31 +CHN1 2028.82 1290.83 290.327 124.71 977.439999999999 1311.27 1312.89 540.569 235.729 521.332 297.074 397.452 907.805 1034.46 586.86 751.156 2028.11 598.78 389.006 1865.95 +CHN2 29.2988 9.6631 68.1381 21.6886 649.95 173.285 64.2354 68.676 104.651 29.8541 57.2519 89.8058 91.629 160.633 212.817 62.9047 440.428 149.504 870.566 126.724 +CHODL 12.0077 0.4026 3.555 16.2665 3.912 18.4517 2.0721 4.4197 2.6427 0 3.1807 6.6748 1.1312 3.0891 6.9864 27.7521 1.3387 9.9161 11.2755 2.5862 +CHORDC1 750.24 278.218 357.28 458.559 328.608 289.611 230.004 192.089 263.214 1300.66 725.191 157.16 120.475 298.484 261.722 440.333 376.618 1282.99 475.452 368.966 +CHP 3839.58 2294.59 4036.74 1917.12 3059.74 7658.64 1859.51 3203.63 5998.94 3289.29 4162.85 2804.61 5230.2 4095.38 5208.11 2883.44 2194.56 3634.63 5983.09 4133.62 +CHP2 1.9212 8.8579 0.5925 62.7421 11.736 53.3494 0 6.7996 15.3277 0 0.6361 38.835 1.1312 0 1.6123 0 0 0 41.3437 0 +CHPF2 2322.77 5831.3 4542.73 10708 2909.97 2706.78 5646.91 4720.97 5241.01 2382.09 2718.83 2295.51 2218.33 6016.02 2784.9 3066.61 2726.91 4688.02 4581.63 1210.78 +CHPF 6483.67 3736.81 6077.32 5930.29 4750.84 3776.92 9423.12 3326.03 18757.9 3021.05 5722.65 1962.38 4860.86 5556.13 5934.7 12398.7 4691.66 9670.48 4581.63 4039.22 +CHPT1 1433.24 2303.05 1545.85 767.947 7326.05 2391.9 936.888 1971.55 1464.06 981.446000000001 2090.33 3187.62 2573.53 2653.15 2660.67 7124.88 1900.04 1641.49 3453.14 4303.88 +CHRAC1 1417.39 574.554 536.217 1350.12 512.472 345.768 924.161 1182.45 715.645 2421.74 928.753 771.845 416.855 892.364 453.043 734.505 1228.02 913.806 477.332 884.052 +CHRD 1627.76 290.699 137.461 52.6723 21.7954 44.1235 61.3344 341 63.9535 9.8028 31.1705 46.1165 47.5113 120.475 11.2858 91.5819 756.805 88.4821 17.8529 179.741 +CHRDL1 0 27.3789 0.5925 2.3238 0 6.418 1.2433 0 1.5856 1.3367 98.6005 7.2816 0.5656 2.3168 10.7484 34.2276 22.7577 30.5111 3.2887 2.5862 +CHRDL2 0 2.0132 22.5152 10.8443 0 0 209.283 0.34 4.2283 402.362 0 0 4.5249 1.9307 0 0 0 3.8139 0.4698 0.8621 +CHRFAM7A 37.9443 38.5599 90.0607 127.839 9.5006 1726.84 9.6643 137.352 72.4101 12.0307 4.4529 61.2864 1511.16 62.5543 2542.11 102.683 406.796 7.4523 148.931 2080.6 +CHRM1 0 0.8053 2.37 0 0 0 0.4144 0 0 0 0 0.6068 1.1312 0 0.5374 0.9251 0 0 0.4698 0 +CHRM2 0 0.4026 9.4801 5.4222 0 0 0 1.3599 3.6998 0 3.8168 0.6068 0 2.3168 0 0 22.7577 0.7628 21.1416 0 +CHRM3 6.7243 12.8842 4.74 3.0984 0 18.8528 71.2806 18.019 4.2283 0.4456 22.9008 14.5631 15.8371 3.0891 20.9593 12.0259 4.9085 5.3394 7.9868 3.0172 +CHRM4 0 2.4158 1.185 3.0984 0.5589 0 10.3605 2.3799 4.2283 7.1293 2.5445 10.9223 32.2398 1.1584 1.6123 0.9251 7.5859 1.5256 1.4094 2.1552 +CHRM5 0.4803 0.4026 0.5925 0.7746 2.2354 1.6045 1.2433 0 0.5285 0.8912 0.6361 3.6408 0 0.7723 1.6123 0 2.6774 0.7628 0.9396 0.8621 +CHRNA10 12.9683 0.8053 7.7026 45.701 2.7943 14.0393 14.0903 3.7398 15.8562 12.9219 27.3537 6.068 19.7964 10.8119 4.2993 12.0259 22.7577 28.2227 9.3963 16.3793 +CHRNA1 0.4803 0.8053 0 0 1.1177 1.2034 534.604 0 0 2.6735 0 0.6068 1.1312 0.3861 0.5374 0 0 0 1.4094 0 +CHRNA2 3.8425 4.4289 215.672 1.5492 13.4126 0 0.8288 1.0199 82.981 0 3.8168 1.2136 46.9457 4.6337 3.2245 0 2.2311 9.9161 31.9474 18.9655 +CHRNA3 193.564 4.0263 48.5854 60.4183 1.1177 2.0056 65.0642 78.1955 11.0994 5.347 32.4427 2.4272 10.7466 6.5643 3.2245 5.5504 226.685 6.865 15.5039 13.3621 +CHRNA4 144.572 1464.77 13.6276 177.382 1.1177 43.3213 18.649 1078.42 2.1142 0 6.9975 2.4272 95.5882 32.4356 6.9864 0 1124.94 6.865 160.677 9.0517 +CHRNA5 93.1796 6.4421 16.5901 29.4345 15.0891 20.8584 105.678 25.4985 39.1121 233.04 78.2443 3.6408 148.756 18.5346 9.1361 24.0518 88.7996 67.8871 55.9079 165.948 +CHRNA6 0 2.8184 1.7775 0.7746 8.9417 0 1.2433 0 10.0423 0.4456 61.0687 2.4272 0 1.9307 0 0 0 8.3905 20.202 1.2931 +CHRNA7 4.8031 1.6105 26.0702 17.8156 0 730.846 0 33.658 18.4989 0.4456 0 4.8544 289.593 12.7425 866.855 8.3256 107.987 1.5256 51.2098 653.017 +CHRNA9 0 0 0 0 0 0 2.4865 0 0 524.451 2.5445 0 0 0 0 0 0 0.7628 0 0 +CHRNB1 411.143 747.781 828.322 480.248 1043.26 868.432 247.41 413.076 353.065 119.862 380.407 1242.15 513.009 791.551 358.995 795.56 281.125 444.699 507.4 890.073 +CHRNB2 1.4409 9.2605 4.1475 6.1967 1.1177 0.8022 2.0721 0.68 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972.322 725.238 1052.92 933.404 79.3138 1121.5 482.403 267.534 1090.84 347.172 804.81 900.491 617.086 1315.95 477.586 +CLCN6 1300.67 1050.46 444.379 390.395 998.118 786.602 519.685 564.027 588.795 610.894 340.967 509.709 537.896 316.247 342.873 232.192 368.139 398.169 635.659 858.19 +CLCN7 5387.61 5739.5 4487.04 6427.58 3207.84 2786.6 5462.91 4591.77 4313.95 2038.1 3079.52 5430.83 2868.21 7458.25 4152.63 5101.76 4765.73 3508.01 4100.07 1536.64 +CLCNKA 39.3852 161.857 52.1404 83.6561 17.8834 18.8528 0 2.7198 520.613 2.6735 71.2468 163.835 14.7059 7.3366 29.558 8.3256 51.3164 109.84 272.962 43.5345 +CLCNKB 27.3775 29.7946 137.461 124.71 24.0308 16.0449 0.8288 1.0199 582.981 5.347 248.728 350.121 1.6968 61.3959 427.247 31.4524 88.7996 19.0694 155.509 6.4655 +CLDN10 0.6004 0.8334 0 6.5608 0 0 1.4753 0.4318 0 1417.54 0 0 0 0.8379 0 0 0.5756 0 0.4698 1.0259 +CLDN11 10.5668 108.71 3.4425 17.0411 3.3531 10.4292 53.4604 7.1396 27.3573 22.7247 10.1781 12.1359 5.0905 16.6039 23.6464 148.011 9.817 12.2044 22.0813 5.6034 +CLDN12 1095.58 2458.46 2533.55 915.568999999999 1182.54 1288.41 1389.14 2631.09 1789.64 649.66 968.193 1641.99 660.068 1678.93 1666.53 1532.12 2071.4 1536.23 3194.74 2711.64 +CLDN14 2.4015 8.8579 162.346 1.5492 0 4.4124 4.1442 0.34 15.3277 1.7823 6.9975 1.2136 24.3213 3.4752 8.0613 0 4.0161 3.8139 42.2833 0.431 +CLDN15 156.1 210.576 433.714 766.847 192.247 213.398 569.001 332.841 474.101 49.0141 204.835 182.646 74.6606 215.079 526.132 172.988 608.211 229.596 90.2044 144.828 +CLDN16 0.4803 6.0395 8.2951 4.6476 2.7943 1.6045 0 1.6999 3.6998 0 0.6361 3.034 0 8.1089 1.0748 4.6253 4.9085 0 16.9133 6.8966 +CLDN17 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CLDN18 5.7637 2.8184 1.185 0 0 0 4.1442 0 0 8.4661 0.6361 0.6068 0 0 0 0 0 1.5256 0 0.8621 +CLDN1 326.609 7420.08 3485.71 1979.86 889.7 1134.78 91.5872 135.992 2228.33 2164.64 912.849999999999 1690.53 325.226 2414.13 293.967 339.5 5259.26 605.644 1352.13 3366.38 +CLDN19 0.9606 41.4709 80.5807 0 0 5.2146 0.4144 0 0 0 0 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498.869 359.88 95.6604 493.062 136.546 898.551 265.915 18.9655 +CLDN6 0.4803 0 2.9625 3.0984 0 1.6045 2.0721 1.0199 7.9281 0 0.6361 1.8204 6.2217 2.3168 3.7619 5.5504 1.3387 3.8139 0 0.431 +CLDN7 32.1806 28.1841 18.9602 34.0821 37.4434 22.864 39.3701 7.8195 6.871 189.373 9.542 41.2621 48.6425 4.2475 5.9116 24.0518 8.0321 3.0511 14.5642 60.7759 +CLDN8 0 3.6237 2.9625 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CLDN9 2.4015 0.8053 5.925 41.828 1.1177 8.8247 0.8288 0.34 17.4419 17.3777 1.9084 13.3495 2.8281 14.2871 12.3606 11.1008 13.8331 12.9672 0.4698 0.431 +CLDND1 1275.22 1491.75 1133.46 889.233 492.353 742.479 1036.05 963.504 1079.28 2655.23 878.499 1242.72 604.072 646.008 823.324 1085.11 999.107 750.572 1006.34 1094.4 +CLDND2 7.2046 3.6237 10.6651 26.3362 3.3531 1.6045 2.4865 5.4397 42.8118 1.7823 10.8142 10.3155 2.2624 7.3366 17.7348 1.8501 7.5859 8.3905 7.0472 0.8621 +CLEC10A 73.487 42.2762 0 2.3238 340.903 0.4011 84.1276 2.3799 0 32.082 68.0662 101.335 1.1312 0 0.5374 98.0574 0.8925 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79.3574 47.2921 8.4567 15.9483 +CLEC18B 2.8818 19.3263 70.5081 542.99 19.56 46.9314 15.3336 12.9192 61.8393 3.1191 31.8066 30.9466 5.6561 22.0098 46.7553 4.6253 41.0531 12.9672 1.8793 9.9138 +CLEC18C 1.9212 4.0263 6.5176 73.5864 8.9417 4.5487 1.2433 0.697 4.9524 0 8.9059 4.8544 2.9016 4.2475 1.0748 0 1.8563 9.9161 0.4698 2.5862 +CLEC1A 63.4006 69.6551 36.7353 43.3772 82.7108 39.7112 230.419 121.033 27.4841 16.041 47.0738 20.0243 61.6516 61.3959 47.8302 98.0574 22.7577 83.1426 49.3305 9.0517 +CLEC1B 0 0 0 0 0 0.4011 0.4144 0 0 0 0 0 0 0 0 0 0 0.7628 0 0 +CLEC2A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.7628 0 0 +CLEC2B 93.6599 53.1472 49.7704 65.0658 110.095 53.3494 1689.18 639.163 530.655 1238.72 97.3282 808.252 219.457 289.989 94.5855 404.255 174.476 243.326 131.078 46.5517 +CLEC2D 210.855 234.331 411.791 577.072 213.483 296.029 672.192 447.074 333.51 714.715 595.42 359.223 257.353 476.494 633.078 529.14 476.573 556.827 235.847 218.535 +CLEC2L 0 1.6105 0 13.9427 0.5589 0 0.4144 0 0.5285 0 2.5445 9.1019 6.7873 0.7723 0.5374 0.9251 5.3548 3.0511 1.8793 0 +CLEC3A 0 0 0 0 0 0 0 0 0 0 0 0 0 1.1584 0 0 0 0 0 0 +CLEC3B 511.527 95.4234 61.028 236.251 692.982 237.465 1009.53 351.88 211.417 72.6301 794.529 323.422 287.33 505.454 203.144 1075.86 122.713 504.958 322.293 73.2759 +CLEC4A 28.3381 15.3 12.4426 41.828 58.68 8.4236 96.5603 22.7787 26.4271 56.5891 76.3359 52.1845 35.6335 16.9901 19.8845 27.7521 39.7144 49.5805 19.7322 8.6207 +CLEC4C 0 0 0 0 0 0 0 0.34 0 0 0 0 0 0 0 0 0 0 0 0 +CLEC4D 0.9606 0 0 0 1.1177 0.8022 5.3875 1.3599 0 1.7823 0 0 0 0 0 1.8501 0 3.8139 1.4094 0 +CLEC4E 26.4169 2.4158 15.4051 22.4632 50.856 2.0056 65.0642 19.7189 1.5856 23.6159 5.7252 12.7427 27.7149 6.9505 5.3742 1.8501 0.8925 162.471 26.7794 0 +CLEC4F 8.1652 0.4026 0 17.0411 6.1474 1.6045 1.2433 0.34 0 3.1191 10.8142 20.6311 16.9683 0.7723 0 2.7752 7.5859 16.7811 2.8189 53.0172 +CLEC4G 0.9606 3.6237 1.185 1.5492 233.602 0 165.354 1.6999 0 49.0141 1.9084 2.4272 0.5656 16.6039 12.898 1.8501 45.9616 0 3.2887 0 +CLEC4GP1 661.864 0.8053 283.217 7378.78 168.775 144.805 38.1268 90.0948 1026.43 7.5749 1544.53 297.33 2.2624 657.206 983.473999999999 12.951 480.589 54.1571 131.078 49.569 +CLEC4M 741.114 0.4026 350.763 3509.68 230.249 111.913 0.8288 24.8186 7992.6 2.2279 836.514 9.7087 12.4434 74.9107 598.683 2.7752 18.2954 0.7628 1265.21 8.6207 +CLEC5A 97.9827 0.8053 15.4051 10.0697 6.1474 18.0505 15.3336 0.34 37.5264 57.9258 10.8142 112.257 214.932 55.6038 77.9256 27.7521 3.5698 17.5439 1.4094 12.069 +CLEC6A 0 0 0 0 0 0 0 0.34 0 0.4456 0 0 0 0 0 0 0 0 0.4698 0 +CLEC7A 69.1643 32.2104 5.925 17.0411 21.7954 6.0168 204.31 12.2393 19.556 94.9092 33.715 191.748 31.1086 14.2871 41.3812 20.3515 15.1718 145.69 19.7322 2.5862 +CLEC9A 28.3381 0.8053 0 0 0.5589 0 1.6577 1.6999 0 0.8912 6.3613 13.9563 0 1.5446 0 3.7003 0.4462 87.7193 0 0 +CLECL1 12.488 0.4026 0 1.5492 1.6766 0.4011 42.6855 0.34 0 22.2792 5.7252 19.4175 5.0905 0 2.1497 2.7752 0 11.4416 2.8189 0 +CLGN 6.244 1373.37 644.053 802.479 12.8537 3.209 5.3875 144.492 60.7822 117.188 468.193 1460.56 54.8643 3727.39 505.71 1716.93 99.0629 950.419 622.504 862.931 +CLIC1 4456.29 3530.26 3529.55 2788.54 6016.09 12521.9 9861.58 4210.32 8933.4 10797.4 7227.1 3966.63 12908.9 3159.38 5940.08 5714.15 681.838 3494.28 7351.66 20113.8 +CLIC2 128.242 118.776 162.939 199.845 217.954 61.3718 858.682 62.2164 179.175 87.3343 121.501 143.811 77.4887 156.772 133.28 271.045 114.681 431.731 1917.31 21.1207 +CLIC3 2.8818 2.0132 1.7775 0.7746 2.2354 0 21.1355 1.6999 0.5285 20.0512 8.9059 0.6068 1.1312 0.3861 0.5374 20.3515 2.2311 14.4928 2.8189 0.8621 +CLIC4 1333.33 3761.37 1225.89 1088.3 1064.06 1536.3 8601.74 751.696 2894.82 4261.56 1617.05 1439.93 727.941 1814.85 1064.09 2570.77 915.663 1881.77 1506.69 948.276 +CLIC5 15.8501 18.521 2205.3 1.5492 166.539 236.262 22.3788 11.8993 475.687 13.3675 25.4453 72.8155 19.2308 14.6732 22.0341 93.432 35.2521 94.5843 877.613 21.1207 +CLIC6 2.4015 14.0921 4.74 794.733 8.9417 2.0056 18.649 3.0598 2.1142 30.2997 24.173 2.4272 6.2217 27.8019 2.6871 31.4524 84.7836 16.7811 2.8189 50.8621 +CLINT1 1005.76 1554.96 2492.08 651.433 1636.89 1566.79 1577.7 1575.13 1844.61 1288.63 2097.33 1966.63 847.851 2474.37 3328.23 2258.09 1725.57 1668.19 3841.67 1741.81 +CLIP1 2294.91 5093.27 3544.96 2398.14 1123.86 2446.45 1602.98 2773.22 2733.09 1818.42 2204.2 3384.1 841.063 3198.76 2996.1 2777.06 3418.12 1930.59 3307.49 1500.43 +CLIP2 426.513 2315.12 1463.49 1398.14 1811.25 2750.5 3639.04 1535.01 1529.07 1180.8 334.606 777.913 282.24 2265.08 2186.22 540.24 1082.11 562.929 327.93 1047.41 +CLIP3 434.198 326.533 177.159 790.86 68.1805 133.975 1217.99 1840.31 119.45 71.2933 109.415 228.762 90.4977 77.2275 98.3474 1210.92 183.4 112.128 33.3568 25.431 +CLIP4 200.288 1399.54 111.983 275.755 661.686 788.608 1315.38 225.747 233.615 774.869 195.929 558.252 184.955 285.742 66.6398 267.345 234.717 409.611 574.113 574.138 +CLK1 2553.31 734.398 1554.14 5468.63 1265.25 1508.62 1239.54 1167.15 1346.72 1748.47 1912.21 1425.97 802.602 1836.47 1335.48 1109.16 1057.56 1992.37 584.449 1622.41 +CLK2 2535.06 1146.69 681.38 1876.07 662.245 1500.6 587.236 967.584000000001 686.047 2190.49 828.243999999999 316.748 1002.83 474.949 737.337 406.106 810.352 896.262 291.755 1180.6 +CLK2P 40.8261 20.9368 12.4426 51.1232 15.0891 33.6943 12.8471 13.2592 16.3848 37.429 17.8117 7.2816 22.0588 12.3564 10.2109 8.3256 19.1879 18.3066 9.3963 31.0345 +CLK3 1745.92 818.548 783.291 1137.88 965.145 673.486 869.457 948.544999999999 1263.21 1314.92 1125.32 613.471 1142.53 726.711 1002.82 558.742 654.619 1489.7 1335.68 565.086 +CLK4 817.483 266.139 407.643 1819.52 444.291 348.977 267.302 463.733 410.676 496.38 720.738 542.476 440.611 668.79 497.649 465.31 485.051 635.393 328.87 657.328 +CLLU1 6.244 0.4026 1.185 0 0 0.4011 4.1442 0.34 1.0571 0 1.2723 0 0 0.7723 0 0 0.00889999999999991 0.7628 0 0 +CLLU1OS 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.7628 0 0 +CLMN 227.666 224.668 1116.28 442.293 212.365 100.281 362.619 96.5544 492.072 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1.5446 3.7619 73.0805 8.9246 0.7628 1.4094 7.7586 +COL27A1 93.6599 614.011 1755.59 1790.09 6.7063 20.4573 135.516 556.548 986.258 35.2011 1617.68 219.053 12.4434 681.919 503.56 158.187 1081.66 964.149 107.118 8.6207 +COL28A1 55.2354 1.2079 58.0655 27.8854 3.912 3.6101 4.5586 3.7398 11.0994 1.3367 10.8142 3.6408 1.1312 19.3069 13.9729 8.3256 4.4623 17.5439 3.2887 1.7241 +COL29A1 3.8425 0 0 0 0 0 1.6577 0 1.5856 0 0 0.6068 0.5656 0 0 4.6253 0 0 1.8793 0 +COL2A1 1.9212 74.4866 78.8031 150.271 1.6766 2.0056 23.2076 9.1795 0.5285 3.5647 1.9084 4.2476 52.0362 8.495 24.7212 7.4006 49.9777 3.0511 78.9288 4547.41 +COL3A1 325.648 13903.6 1450.45 749.032 415.231 4035.7 238883 1856.29 3479.39 2000.22 4655.22 1188.71 3492.65 2651.99 4148.86 5841.81 2890.23 2521.74 1375.62 2761.64 +COL4A1 2097.5 8189.5 3467.93 4412.08 2603.71 14222.2 17045.6 8636.52 10066.1 3936.28 5129.77 2574.03 8605.77 4539.05 12085.4 6318.22 1827.31 3240.27 3477.1 9649.13999999999 +COL4A2 3393.85 12876.1 3781.96 5747.48 4483.71 18208.6 32067.6 7705.65 11366.8 4663.03 5636.13 2807.65 20857.5 4683.85 12264.9 4869.57 2572.07 3109.84 3937.98 21803.4 +COL4A3 734.87 33.821 98.3558 270.333 1.6766 3.6101 0 9.1795 16.3848 4.4558 737.913 568.568 1.1312 61.3959 6.9864 299.723 406.069 443.936 3.7585 3.0172 +COL4A3BP 831.892 2938.8 1672.05 1275.76 3614.69 3457.28 604.227 3205.67 2057.61 584.159 3162.85 1356.19 1611.43 2334.59 3711.41 1052.73 2390 1581.24 2556.26 2194.4 +COL4A4 1785.78 68.0445 47.4004 89.0782 8.3829 14.8416 6.6308 26.1785 19.0275 14.7042 444.656 257.888 7.9186 47.8811 6.449 283.996 151.718 321.892 15.5039 12.931 +COL4A5 178.194 179.573 187.232 2123.93 10.6183 399.519 37.7124 451.494 305.497 3070.07 679.389 333.738 36.7647 1123.66 242.913 489.362 203.927 874.142 331.219 1280.17 +COL4A6 11.0471 7.65 12.4426 20.1394 1.1177 5.2146 2.0721 10.1994 26.4271 1834.47 13.3588 13.9563 1.1312 125.495 3.2245 5.5504 2.6774 25.9344 9.3963 380.172 +COL5A1 382.325 1420.88 1292.25 6329.98 114.566 615.724 37218.8 1093.72 2530.13 5805.95 1583.33 284.587 2177.6 1434.5 1725.65 1586.49 1051.76 649.123 242.894 1619.83 +COL5A2 311.239 2396.05 163.531 175.058 200.071 478.54 17081.2 273.004 524.313 328.84 325.7 509.102 199.661 401.583 319.226 1457.91 189.201 409.611 149.871 3882.76 +COL5A3 48.0307 293.92 487.632 190.55 51.9737 318.091 3380.44 185.289 637.421 159.519 368.321 148.665 192.308 160.633 7487.84 248.844 113.788 234.935 86.4459 452.155 +COL6A1 3476.95 4396.32 5677.97 7171.96 1915.2 1506.22 45990.9 5542.02 1930.23 7722.85 2882.95 2863.47 1962.67 2586.35 912.535 19812.2 2396.25 4710.91 2009.87 797.414 +COL6A2 1215.66 8977.85 1359.8 6260.26 1839.76 2803.45 54591 2953.75 3237.32 12611.8 3461.2 1794.9 3928.73 2509.51 1835.28 12457 2329.32 1940.5 1056.14 1272.41 +COL6A3 106.628 1489.73 717.523 104.57 150.332 837.144 109149 360.039 761.628 8858.64 2097.96 663.228000000001 686.086 549.088 699.18 3510.64 978.580999999999 692.601 671.835 482.759 +COL6A4P2 0.4803 0.8053 1.7775 3.873 9.5006 129.563 8.2884 0.34 3.1712 0 0.6361 10.9223 3.9593 0 0 4.6253 1.3387 2.2883 0.4698 0 +COL6A6 1.9212 1.2079 1.7775 0 0.5589 0 225.031 1.3599 1.0571 0 4.4529 2.4272 0 0.3861 0 2.7752 0 1.5256 0 1.7241 +COL7A1 106.628 31.4052 87.6907 371.03 223.543 46.1292 278.491 21.7587 43.8689 1840.7 174.936 3.034 39.0271 15.4455 39.2315 4.6253 24.9888 9.9161 2.3491 111.207 +COL8A1 39.8655 59.1867 13.6276 0 12.2948 61.3718 341.898 41.8176 13.7421 716.498 28.626 6.068 117.647 29.3465 46.7553 33.3025 36.1446 46.5294 16.9133 97.8448 +COL8A2 32.1806 38.6525 10.6651 264.911 2.7943 5.2146 181.931 8.8395 13.2135 76.1947 28.626 63.7136 28.2805 19.3069 7.5238 377.428 31.2361 62.5477 5.6378 3.8793 +COL9A1 0.4803 1.6105 1.185 46.4756 1.1177 0.4011 0 32.9781 15.3277 0 3.1807 24.8786 5.0905 0.3861 12.898 7.4006 10.7095 0.7628 30.5379 0.431 +COL9A2 44.1883 83.7471 119.094 414.407 10182.4 11.6326 9.1173 147.211 354.651 24.0615 9217.56 52.7913 1226.24 10.0396 174.661 1032.38 33.4672 77.0404 149.401 980.171999999999 +COL9A3 6.244 302.778 16.5901 89.0782 5.5886 186.522 107.335 9.8594 2.1142 4.9014 36.8957 3.034 80.8824 13.901 3.2245 1.8501 129.406 4.5767 28.1889 258.621 +COLEC10 0.4803 0.8053 0 0 1.6766 0 0 0.68 1.5856 0.8912 5.0891 0.6068 0.5656 10.4257 0 0.9251 0.8925 2.2883 6.5774 0.431 +COLEC11 377.041 310.428 301.585 51.1232 452.115 182.11 16.5769 149.931 415.433 12.4763 498.728 87.3786 200.226 387.296 152.089 717.854 152.61 725.4 991.308 91.8103 +COLEC12 15.3698 28.1841 25.4777 271.108 344.815 4.8135 4048.9 8.4995 25.8985 87.7799 83.3333 250.607 10.181 1.5446 20.4219 694.727 43.2842 9.9161 31.9474 3.0172 +COLQ 75.4083 5.6368 91.2457 202.944 22.3543 22.0618 36.8835 59.8365 52.3256 14.2587 142.494 66.7476 20.9276 37.0692 37.6192 173.913 35.6983 38.1388 33.3568 20.6638 +COMMD10 722.381999999999 323.715 896.460000000001 975.988 469.44 470.116 267.302 741.157 704.017 491.924 1093.51 745.752 473.982 798.533 1175.87 975.023 659.973 601.068 1956.78 476.293 +COMMD1 395.293 146.155 149.311 249.419 329.167 456.478 356.817 224.387 219.345 331.959 298.982 198.422 498.303 128.584 224.103 491.212 170.013 280.702 280.479 338.362 +COMMD2 520.653 1141.05 403.496 295.12 268.81 435.219 898.467 654.802 377.378 729.865 336.514 836.165 537.33 371.078 497.649 670.675 584.561 313.501 372.563 765.948 +COMMD3 919.904 899.669 674.875 625.957 1186.22 1214.38 498.235 561.817 785.798 509.604 1096.26 1267.71 803.937 972.955 912.895000000001 1046.63 800.094 1430 825.102 631.966 +COMMD4 2234.39 1110.05 1417.27 2757.55 3494.53 1987.16 1881.06 1342.58 1988.9 3071.85 2361.96 1245.75 4020.93 1281.59 1746.61 1828.86 1697.46 3585.81 2892.65 1033.62 +COMMD5 926.196 414.303 629.59 1365.65 717.231 556.907 775.433 1441.19 639.133 1112.87 1351.9 1105.78 817.33 1218.99 498.224 1268.25 949.076 1305.35 518.116 853.228000000001 +COMMD6 1401.06 1457.52 1564.81 1079.01 2688.1 534.296 1490.26 1116.84 1902.22 1125.54 1386.13 1764.56 1863.69 1275.8 1879.35 867.715 1356.98 1157.13 2600.89 1381.9 +COMMD7 1179.15 1471.61 734.706 1175.06 1235.63 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10.1758 2.6774 38.9016 7.517 0.431 +CXorf22 0.4803 0 1.185 0.7746 0 0 0 0.34 2.6427 0 0.6361 6.6748 0 1.1584 0 0 2.6774 0 0 0 +CXorf23 109.03 139.31 186.047 130.132 57.5622 81.428 113.137 86.015 156.448 97.1371 151.399 145.024 55.4299 129.742 68.252 116.559 74.9665 127.384 145.643 136.638 +CXorf26 912.104 473.493 485.261 642.138 499.059 563.979 688.355 843.491000000001 801.269 717.389 999.364 392.597 627.262 1131.77 577.187 493.987 751.896 610.984 992.718 729.741 +CXorf27 0 0 0.5925 0 0 0 0.8288 0 0 0 0 0.6068 0 0 0 0 0 0 0 0 +CXorf30 0 0.4026 0 0 0 0 0 0 0.5285 0 0 1.2136 0 0.3861 1.0748 0 0.4462 0 1.8793 0 +CXorf36 279.059 576.567 359.058 295.895 980.793 614.521 454.621 747.616 250 107.385 435.115 316.141 563.348 448.306 334.274 676.226 174.03 302.822 500.822 133.621 +CXorf38 94.6206 274.191 253 223.083 114.007 197.353 135.93 94.8545 191.861 137.685 212.468 149.879 113.122 389.613 123.069 174.838 182.508 112.891 257.458 314.224 +CXorf40A 383.285 314.454 889.35 539.892 236.396 399.92 360.547 321.281 965.645 302.997 615.776 861.044 300.905 764.166 631.466 569.843 711.736 540.046 638.478 214.224 +CXorf40B 434.678 396.994 708.636 325.329 222.984 440.032 523.415 259.065 877.377999999999 447.365 428.117 661.408 381.222 487.306 561.064 362.627 475.68 490.465 678.882 236.207 +CXorf41 0 0 0 0 0 0 0 0 0.5285 0 0 0 1.6968 2.703 0 0 0.8925 0.7628 0.4698 0 +CXorf42 43.708 20.1315 17.1826 28.66 15.648 16.446 22.7932 10.1994 64.482 30.2997 31.1705 37.0146 11.3122 31.2772 22.0341 21.2766 46.8541 52.6316 23.0209 8.6207 +CXorf48 6.7243 0 18.3676 13.9427 1.6766 0.8022 0.8288 1.3599 25.8985 0 40.0763 3.034 3.3937 16.9901 1.0748 0.9251 40.1606 1.5256 29.1285 0.431 +CXorf49B 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CXorf50B 32.1806 2.8184 1.185 23.2378 0.5589 0 0 7.1396 1.0571 0.4456 0 1.2136 0 10.8119 0 0 4.9085 0.7628 0 0 +CXorf51 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CXorf56 77.8098 193.665 227.522 64.2912 87.1816 81.8291 168.67 170.67 354.123 138.131 146.947 282.16 90.4977 244.425 188.096 111.933 180.277 97.6354 285.177 89.6552 +CXorf57 149.376 109.516 392.238 82.8815 301.783 170.076 5.3875 53.3769 188.689 0 94.7837 45.5097 261.312 169.901 443.37 59.2044 240.518 123.57 333.568 154.741 +CXorf58 0.9606 1.6105 2.9625 0 1.6766 1.2034 1.2433 0.34 1.5856 3.5647 1.9084 3.034 0 4.6337 2.1497 2.7752 5.3548 3.0511 15.5039 0.8621 +CXorf59 0.4803 0 0 0 0 0 0.4144 0 0.5285 0 0 0 0 0 0 0 0 0.7628 0 0 +CXorf61 0 0 0 0 0 0 0.4144 0 0 382.31 0 0 0 0 0 0 0 0 0 0 +CXorf64 0 0 0.5925 0.7746 0 0 5.3875 0.34 0 0 0 0 0 0.3861 0 0 0.4462 1.5256 0 0 +CXorf65 0 0 0.5925 0.7746 0 0 0 0 0.5285 0.8912 0 0 0 0 0 0.9251 0.4462 0 0 0 +CXorf66 0 0 0 0 0 0 0 0 0.5285 0 0 0 0 0 0 0 0 0 0 0 +CXXC1 1065.8 692.122 849.652 1759.1 908.701 1271.16 1065.06 619.444 1256.87 811.852 503.817 771.845 1516.4 564.919 846.433 688.252 875.502000000001 820.747 435.518 523.707 +CXXC4 4.3228 0.4026 0.5925 0 0 0.4011 0.4144 7.8195 0.5285 0.4456 2.5445 1.2136 0 0.3861 1.6123 0 0 2.2883 20.6718 0 +CXXC5 44.6686 196.484 187.824 271.108 44.1497 586.843 662.246 464.073 1146.93 286.956 1552.8 845.266999999999 98.9819 270.683 2073.36 527.289 270.415 283.753 907.681999999999 28.0172 +CYB561 886.648 1137.03 907.125 1485.67 480.058 642.198 197.265 1235.49 789.112 2113.4 3141.22 1274.88 317.873 1719.47 281.07 2455.13 1126.28 1595.73 1550.86 556.466 +CYB561D1 618.636 547.175 535.624 422.153 443.173 455.676 537.091 364.459 635.835 366.715 349.873 236.65 430.43 307.366 1124.82 167.438 489.514 374.523 849.424 378.017 +CYB561D2 725.745 1122.23 542.817 430.782 578.417 667.469 772.76 486.852 967.758999999999 412.164 874.682 1000.61 572.726 596.969 575.741 616.161 579.817 472.693 839.558 632.573 +CYB5A 208.934 347.873 296.845 178.156 6175.37 1146.41 411.106 198.888 435.518 732.539 140.585 1203.88 1089.37 202.722 271.396 670.675 253.012 135.774 1063.19 261.638 +CYB5B 23155.1 5954.5 21036.9 19510.5 6971.18 40978.3 1682.14 10451 10723.6 3457.28 12633 8956.31 37244.9 25036 12421.9 23764.1 12015.2 11145.7 6709.89 25290.1 +CYB5D1 1262.25 307.61 932.602999999999 242.525 288.37 342.96 242.022 499.091 518.499 292.303 444.656 650.485 211.538 800.077 633.078 518.039 526.104 363.082 317.125 221.121 +CYB5D2 3654.18 436.854 595.467 532.146 493.471 304.854 270.203 744.217 504.228 331.959 465.013 1327.67 545.814 815.523 378.342 656.799 926.818 601.831 824.994 288.362 +CYB5R1 1078.29 2284.12 1030.96 718.048 2695.92 2347.37 616.66 1139.61 1285.94 1200.4 1158.4 1308.86 2992.08 1015.54 1041.52 983.349 435.966 1145.69 2263.57 1249.14 +CYB5R2 600.865 96.2287 33.7728 116.189 568.916 14.4404 9.9461 71.3958 63.9535 20.4968 217.557 1.2136 2.8281 70.6632 1.0748 18.5014 283.802 32.7994 17.8529 2.5862 +CYB5R3 3543.71 5524.09 17785.8 5731.99 25400.6 3994.38 4489.85 4062.76 14833.5 9135.79 3593.51 3118.33 4287.9 6175.11 11972.1 4520.81 13394.9 5245.61 7230.91 9365.09 +CYB5R4 144.572 153.805 120.278 56.5453 339.226 92.6594 363.448 157.071 242.072 154.172 302.799 291.262 123.303 169.128 171.974 171.138 120.036 192.22 713.178 262.931 +CYB5RL 16.3305 78.1103 33.7728 27.1108 35.7668 44.9258 32.7393 23.7986 33.8266 36.0922 12.7226 69.1748 9.6154 48.6533 72.5514 18.5014 23.2039 30.5111 74.2307 16.3793 +CYBA 452.45 224.265 270.182 393.493 665.039 300.842 3582.26 226.767 283.298 5919.57 412.214 611.65 1027.71 165.653 265.484 737.28 300.759 1635.39 321.353 787.069 +CYBASC3 1285.3 1308.95 2461.26 1701.01 8323.61 1861.61 1831.33 1407.52 2641.12 3019.27 2746.18 8067.96 2539.03 2438.85 1084.51 2138.76 1545.74 2736.84 4856 1242.67 +CYBB 328.53 135.686 31.9953 54.2215 719.807 49.3381 3464.98 54.0569 103.594 1089.45 157.125 1035.19 234.728 69.1186 161.763 278.446 58.9023 459.954 219.873 21.5517 +CYBRD1 1402.5 2516.04 244.112 1086.75 2102.98 1471.32 8970.58 921.006 151.163 3494.71 1134.86 1708.74 1043.55 874.216 240.226 5377.43 1253.46 1703.28 452.901 2451.72 +CYC1 4594.14 2693.6 2151.98 2757.55 4746.93 3754.91 2128.06 7090.97 2291.23 6099.14 6015.9 11606.2 10011.9 6004.83 4740.02 2986.12 6657.74 5652.94 3949.26 4600.86 +CYCS 3278.58 2149.64 6348.69 4723.47 2448.91 6050.54 3130.13 2125.56 5937.1 4157.74 2433.21 8720.87 4338.8 5856.94 8262.8 2668.83 7426.15 4388.25 7147.29 5665.95 +CYCSP52 0 0 0.5925 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CYFIP1 1748.32 2072.34 1228.26 1446.17 1790.58 1446.85 2350.19 1246.03 2252.64 2284.95 1689.57 1499.39 1872.74 1203.2 2047.56 1140.61 1444 1416.48 1804.56 1281.03 +CYFIP2 464.457 961.079 2355.21 78.2339 2453.38 3570 284.708 767.675 378.964 126.991 400.763 602.548 4861.99 3104.93 1252.72 398.705 1417.67 561.404 3551.33 1654.74 +CYGB 163.785 468.259 121.463 441.518 746.633 451.665 1497.31 404.236 256.871 62.3816 469.466 645.024 1286.76 249.445 188.634 1229.42 290.942 164.76 241.954 241.81 +CYHR1 1249.28 701.382 1151.24 2854.38 1389.88 667.469 1038.13 1952.17 499.471 2098.25 2223.28 1934.47 1132.92 1764.26 1152.22 2621.65 1705.04 3273.84 538.877 910.776 +CYLC1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CYLC2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CYLD 1790.59 1474.03 3403.35 2030.98 1256.87 1321.3 641.939 1925.99 2003.7 549.85 1478.37 2588.59 1342.19 2500.63 2790.27 3169.29 1999.55 1394.36 1962.41 1202.59 +CYMP 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4.4623 0 0.4698 0.431 +CYorf15A 306.436 1.2079 0.5925 281.177 0 0 63.821 0 0 17.3777 619.593 0 0 0 11.2858 399.63 10.2633 33.5622 0 0 +CYorf15B 321.806 0 0 1189 0 0 62.9921 0 1.0571 10.694 679.389 0 0 0.7723 6.9864 522.664 7.5859 68.6499 0 0 +CYP11A1 15002.4 9199.3 46384.8 23606.5 130247 47821.1 45.172 19228.3 68377.4 228.584 111913 7706.31 99661.7999999999 29863.1 109979 7447.73 10520.3 60611 247238 17952.6 +CYP11B1 3094.14 17.7157 31469.7 1068.16 201267 53464.1 13.2615 36.7179 7012.16 9.8028 223.919 23313.1 56709.3 7737.43 25011.4 8179.46 302.99 7081.62 2658.21 8787.5 +CYP11B2 1534.1 71.2656 5342.02 5.4222 151.45 30.0842 0 311.422 215.116 0.4456 55.3435 35.801 2.2624 124.722 2.6871 9.2507 376.618 2204.42 462.767 206.035 +CYP17A1 17216.6 4164.04 292826 226417 508721.999999999 591545 87.385 1687.22 318228 298.095 377126 585.388 344471 176621 180698 2995.32 27471.2 252717 194560 360178 +CYP19A1 297.31 1.6105 177.751 958.947 11.736 10.0281 889.349 7.8195 229.915 9.8028 3987.91 3.6408 21.4932 133.99 392.315 7.4006 146.81 26.6972 2114.63 11.2069 +CYP1A1 0.9606 5.6368 4.74 11.6189 5.0297 30.4854 32.3249 4.0798 26.9556 0 3.1807 1.2136 24.3213 13.901 43.5308 5.5504 3.5698 2.2883 6.5774 9.4828 +CYP1A2 0 0.4026 0 3.873 0 0.4011 0.4144 0 1.0571 0 0 1.2136 0 0.3861 0.5374 0 0 0 0 0 +CYP1B1 71.0855 153 208.562 68.9388 168.216 168.071 1621.63 32.6381 65.0106 3067.39 247.456 211.165 436.652 142.485 112.32 687.327 174.476 307.399 128.259 199.138 +CYP20A1 1304.51 411.488 476.966 697.134 1118.27 1190.13 551.596 722.458 530.655 483.458 907.125 294.903 611.991 754.127 741.099 649.399 546.631 740.656 535.588 769.397 +CYP21A2 227002 56352.7 37773.6 71411.1999999999 165257 102220 133.763 103840 41180.3 134.245 143742 7458.45 170232 113320 22923.3 5255.74 36430.7 86283 183203 79795.7 +CYP24A1 0.4803 3.6237 21.3302 0.7746 0 0 0 4.4197 6.3425 641.194 0 1.8204 5.0905 72.5939 6.9864 2.7752 12.9407 0 0.4698 33.6207 +CYP26A1 0.9606 1.6105 0.5925 7.7459 0.5589 0 2.4865 1.0199 0.5285 0 0 0 0.5656 0 0 0 0.8925 0.7628 0 2.1552 +CYP26B1 75.4083 368.004 18.3676 137.103 62.5919 439.23 14.0903 66.9761 57.0825 5.7926 101.145 20.0243 959.276 62.1682 1939 41.6281 640.785 9.9161 3.2887 559.483 +CYP26C1 0 5.6368 0 1.5492 0 0 0 0.68 0 0 0.6361 0 0 0 0.5374 0 0.4462 0 0 0 +CYP27A1 1415.95 1852.1 56.288 108.443 6292.17 1284 1348.11 1296.68 99.3658 826.557 3430.66 2477.55 1727.94 472.632 136.504 7057.35 572.958 5017.54 1470.99 676.293 +CYP27B1 74.928 229.499 80.5807 158.792 32.9725 230.245 13.2615 50.6571 74.5243 21.8336 43.257 84.9515 189.48 121.247 264.409 35.1526 152.164 44.241 27.7191 231.465 +CYP27C1 0 0.4026 0 7.7459 0 0 30.2528 0 0 19.1601 0.6361 3.6408 0.5656 0.3861 0.5374 0 2.6774 0 0 0 +CYP2A13 0 0 0.5925 0 2.7943 0 0 0 0.5285 0 0 0 0 0 0 0 0 0 0 0 +CYP2A6 5.7637 0 7.7026 71.2626 91.6525 0 0 0.34 5.814 0 28.626 1.2136 2.8281 1.9307 1.0748 12.0259 26.7738 3.8139 17.8529 0 +CYP2A7 0.4803 0 0 8.5205 0.5589 0 0 0 1.5856 0 0.6361 0 0 0.3861 0 0 0.4462 0 1.8793 0 +CYP2B6 0 0 0 0.7746 0 0.4011 0 0 0.5285 0 0 0 0 0 0 0 0.4462 0 0 0 +CYP2B7P1 0 0.8053 23.7002 102.246 7.824 10.8303 1.2433 36.7179 127.907 0 27.3537 7.2816 1.6968 3.8614 10.7484 0 14.2793 9.9161 27.7191 0.431 +CYP2C18 2.3151 0 0.5925 4.3377 0 2.0056 2.0721 0 11.6279 0 2.5445 0 0 0.3861 0.5374 0 3.1236 1.5256 0 9.0517 +CYP2C19 0.5668 0 0 1.0844 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +CYP2C8 5.2834 30.1973 79.9881 652.982 60.3565 62.9763 1.2433 0 0.5285 4.9014 19.084 92.233 1.6968 99.6235 0.5374 35.1526 0 175.439 82.6873 1.2931 +CYP2C9 9.6061 0 0 63.5167 0 0.4011 0 1.6999 5.2854 0 0.6361 0.6068 0 0.3861 2.1497 0 0.4462 0.7628 0 5.6034 +CYP2D6 1.4409 2.0132 7.7026 145.624 3.912 8.0225 7.0452 2.3799 26.4271 16.041 7.6336 3.6408 4.5249 5.0198 1.6123 1.8501 11.1557 6.1022 1.8793 21.1207 +CYP2D7P1 12.9683 7.2473 9.4801 84.4307 18.4423 12.0337 12.8471 3.7398 11.6279 24.5071 7.6336 4.2476 5.0905 3.8614 1.0748 0.9251 17.8492 9.1533 4.2283 53.8793 +CYP2E1 223.77 93.4102 4.5919 233.215 10.0594 195.415 80.058 20.0588 31.7125 0.8912 64.2494 33.3738 13.009 10.0396 3.2245 39.556 113.275 207.582 4.7028 27.5862 +CYP2F1 0 0 1.185 0.7746 0.5589 0.8022 0 0.68 1.5856 0 0 0 0 0.3861 0 0.9251 0 0 0 0 +CYP2J2 4.8031 8.4552 374.463 12.3935 514.707 2.0056 8.7029 14.9591 11.6279 6.6837 6.3613 3.034 604.638 1.1584 11.2858 6.4755 33.021 22.1205 1.4094 43.9655 +CYP2R1 266.571 130.855 171.826 254.067 159.274 117.93 70.4517 145.172 225.687 218.336 153.308 256.068 230.769 179.168 128.443 97.1323 115.127 170.862 277.19 290.086 +CYP2S1 22.0941 77.305 36.1428 469.404 23.472 7.6213 25.6942 1.3599 8.9852 132.338 1036.9 20.6311 22.0588 11.198 9.1361 53.654 0.8925 57.971 9.3963 9.0517 +CYP2U1 198.847 385.72 461.561 371.805 288.929 255.114 308.33 632.703 318.182 67.2831 423.664 1112.86 175.905 1105.13 172.511 1077.71 396.698 598.78 533.705 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2433.92 2280.66 2059.49 2627.23 2456.92 4495.48 2538.08 5143.09 2200.74 4193.66 1267.73 5160.44 1320.26 +DLX1 438.04 5.6368 1.7775 111.541 1.6766 34.4966 159.967 59.4965 2.6427 0.4456 9.542 3.6408 126.697 9.2673 3.7619 17.5763 47.7465 0 1.8793 44.8276 +DLX2 17.7714 3.6237 2.37 17.8156 0.5589 7.6213 20.3067 8.1595 2.6427 0.8912 4.4529 0 15.2715 7.3366 3.7619 2.7752 9.817 0.7628 0.4698 9.0517 +DLX3 235.351 8.0526 41.4753 45.701 3.3531 0.4011 9.5317 3.3998 0 3.1191 80.7888 3.034 0 54.0593 5.9116 9.2507 15.618 19.0694 19.7322 0.8621 +DLX4 28.8184 4.4289 12.4426 60.4183 3.3531 0.4011 4.1442 46.2373 11.6279 12.9219 13.9949 0 33.371 11.198 0 0 8.0321 3.0511 6.5774 123.276 +DLX5 294.909 13.2868 241.149 697.134 12.8537 371.44 122.254 673.501 26.4271 6.2382 124.046 25.4854 39.0271 162.178 431.009 135.06 231.593 47.2921 28.6587 9.9138 +DLX6 340.538 5.2342 15.9976 95.275 3.3531 159.246 2.0721 412.736 23.7844 0 73.1552 1.8204 67.3077 193.069 142.953 6.4755 270.861 15.2555 7.9868 75 +DLX6AS 10.0865 4.8316 3.555 32.5329 0 37.7056 0.8288 70.0359 5.2854 0 6.3613 0.6068 11.3122 20.0792 12.3606 0 60.6872 0.7628 2.3491 11.6379 +DMAP1 2269.45 1296.07 4977.63 3002.32 1022.71 2663.46 979.693 1759.4 2065.01 1474.43 5234.73 805.218 7474.55 2412.59 2126.56 1197.96 4004.91 3046.53 2296.92 1369.83 +DMBT1 0.9606 0 2.37 0.7746 0 0.4011 9.5317 0 0.5285 1015.93 1.9084 6.6748 1.1312 1.1584 0 1.8501 4.0161 0.7628 8.9265 0.8621 +DMBX1 1.9212 1.2079 2.37 276.53 0 6.0168 3.7298 3.7398 13.7421 3.1191 85.2417 0 11.3122 0.7723 37.6192 0 39.2682 1.5256 0.4698 22.4138 +DMC1 2.4015 0.4026 1.185 7.7459 1.6766 4.0112 1.6577 0 2.1142 51.6876 1.2723 0.6068 1.1312 0.3861 3.2245 0 12.4944 1.5256 0.9396 3.4483 +DMD 1303.55 428.801 500.667 147.947 220.748 263.137 150.85 623.184 179.704 21.388 372.137 193.568 166.855 1058.02 73.6262 285.846 549.308 1007.63 161.146 743.534 +DMGDH 1.9212 220.239 113.761 80.5577 148.097 66.9876 24.8653 3.0598 15.3277 5.7926 15.2672 70.9951 0 420.89 53.7418 126.734 80.3213 66.3616 65.3042 1.7241 +DMKN 289.145 48.7183 451.489 649.109 6.1474 556.358 27.3518 44.1974 540.169 344.881 402.672 1.2136 701.357 8.1089 152.627 2.7752 195.002 0.7628 155.039 211.207 +DMP1 0 0 0 6.9713 0.5589 0.4011 3.7298 1.3599 0.5285 0 1.9084 1.8204 0 0 0.5374 1.8501 0 0.7628 3.7585 0 +DMPK 382.325 1072.2 3460.23 2303.64 6069.18 9947.05 1670.53 1358.56 2493.66 824.329 2961.83 8420.51 9916.86000000001 1616.76 4757.22 8901.02 1355.2 1434.78 2588.21 5856.47 +DMRT1 0 2.4158 2.37 0.7746 0 0 0 0 3.1712 0 0 0 0.5656 23.5544 9.1361 0 0 0 0.9396 0 +DMRT2 0 0 1.185 63.5167 0 0.4011 1.2433 0.68 5.814 0 0 0.6068 1.6968 0.7723 1.0748 0 4.0161 1.5256 0.4698 0 +DMRT3 0 0.4026 0.5925 3.873 0 0.4011 13.2615 0 1.5856 1.7823 0 0 0 0 0 0 0.4462 0 0 0 +DMRTA1 26.8972 1.6105 34.3653 60.4183 40.7965 4.0112 24.8653 3.7398 145.349 60.1537 31.8066 46.7233 137.443 122.792 102.109 12.0259 11.602 3.0511 51.6796 40.9483 +DMRTA2 36.0231 4.0263 1.7775 19.3648 0.5589 0 0 1.0199 0 7.1293 1.2723 1.8204 2.2624 0.3861 0.5374 0.9251 3.5698 0.7628 0.4698 1.7241 +DMRTB1 0 0 0 0 0.5589 0 0.4144 0 0 0 0 0 0 0 0 0 0 0 0 0 +DMRTC1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +DMRTC1B 4.8031 0 5.3325 46.4756 0 0 0 18.6989 2.1142 0 0 0.6068 0 11.9703 0 0 4.4623 1.5256 8.4567 0 +DMRTC2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +DMTF1 1077.36 1138.77 978.818 1890.57 604.169 509.049 680.895 816.017 917.082 865.799 743.67 838.877 197.964 909.767 597.098 533.802 944.221 1244.29 608.927 540.138 +DMWD 298.751 790.766 736.484 429.125 562.21 570.798 571.488 1259.63 689.218 551.186 760.814 674.757 638.575 796.602 712.078 792.784 670.236 553.776 337.797 720.69 +DMXL1 640.73 801.235 1148.27 1507.36 810.342 731.247 264.816 839.071 924.419 399.688 1179.39 1007.28 334.276 928.661 1024.86 768.733 888.889 777.269 1227.16 533.621 +DMXL2 435.159 883.371 398.163 551.51 279.428 288.006 574.389 335.221 557.082 502.618 483.461 433.252 166.855 383.821 389.628 246.994 302.543 681.922 772.375 229.741 +DNA2 34.1018 77.7077 30.2177 162.665 17.8834 168.873 47.6585 48.9572 66.0677 215.217 65.5216 38.835 50.905 20.8514 39.2315 26.827 75.4128 79.3288 32.887 250 +DNAH10 1.9212 18.521 11.2576 110.767 2.7943 7.2202 242.851 4.0798 82.4524 2.2279 4.4529 3.034 12.4434 5.0198 5.3742 4.6253 70.058 16.7811 28.6587 5.1724 +DNAH11 2.9875 282.353 2820.65 655.995 323.243 1059.96 5.1927 155.697 1250.86 33.6861 9.2748 116.098 105.085 988.296 4193.32 151.277 71.9545 14.0198 1021.11 458.935 +DNAH12 7.6849 0.8053 17.1826 21.6886 3.3531 33.2932 2.0721 0.34 82.4524 0 42.6209 5.4612 16.9683 13.5148 5.9116 5.5504 2.2311 78.566 4.6981 15.5172 +DNAH1 201.249 549.591 227.522 621.224 182.187 316.085 178.201 176.11 153.805 41.4392 450.382 333.738 40.1584 159.475 81.1501 208.141 42.838 449.275 21.6115 125 +DNAH14 74.928 164.273 38.5128 235.476 8.3829 56.9595 1.2433 62.5564 9.5137 133.675 102.417 69.1748 62.2172 77.2275 0 49.0287 46.4079 49.5805 59.6664 77.1552 +DNAH17 31.7003 33.0157 15.9976 120.062 216.395 22.4629 86.5935 19.7189 21.0624 37.986 23.5369 16.9903 33.2183 15.8316 29.558 14.8011 16.9567 28.9855 7.517 37.7931 +DNAH2 5.2834 0.8053 6.5176 6.9713 8.9417 1.2034 2.0721 1.6999 0.5285 5.7926 154.58 1.8204 1.6968 3.0891 1.6123 0.9251 6.2472 0.7628 2.3491 3.4483 +DNAH3 10.0865 0 0 2.3238 0 0 0.8288 0.34 3.1712 17.8233 0 0.6068 0 0.3861 1.0748 0 3.1236 0.7628 1.4094 0.431 +DNAH5 0 0 46.8079 11.6189 45.8262 99.8797 7.874 7.4796 7.9281 2.2279 8.9059 4.2476 24.3213 69.5048 11.2858 4.6253 70.9505 0.7628 31.4776 1.2931 +DNAH6 0.4803 4.4289 2.9625 0 10.6183 4.4124 2.4865 2.0399 6.871 3.5647 9.542 3.6408 0.5656 6.9505 3.7619 12.951 4.0161 0.7628 0 2.1552 +DNAH7 24.976 4.0263 10.0726 17.8156 7.2651 6.0168 5.3875 18.019 26.4271 9.8028 50.8906 55.8252 1.1312 71.4355 22.5715 20.3515 161.089 19.8322 7.9868 1.7241 +DNAH8 0.4803 0.8053 1.185 3.873 0 2.0056 0.4144 0 2.6427 0 0 0 1.1312 0.3861 16.6599 0.9251 2.2311 0.7628 2.3491 40.9483 +DNAH9 32.6609 2.0132 57.473 13.1681 9.5006 3.209 0.4144 33.998 93.5518 0 13.9949 72.2087 0.5656 61.3959 15.0477 13.876 10.7095 11.4416 98.1912 0 +DNAI1 0 0.8053 0.5925 0.7746 0 0.8022 0.8288 1.0199 0 0.8912 1.2723 27.9126 0.5656 4.6337 0 14.8011 3.1236 0 0 0 +DNAI2 0 0 0 0 0 0 0.4144 0.4794 0.5285 0 0 0 0 0 0 0 0 0 1.8793 0 +DNAJA1 2885.69 2058.25 2062.51 1807.9 4242.84 4081.43 2452.13 1723.7 2882.14 8975.83 3440.84 2828.88 3234.73 4880.01 5669.76 2814.06 2790.72 3599.54 3510.92 2305.6 +DNAJA2 2644.57 1747.82 2660.35 2756 1721.28 1602.09 1171.57 3363.42 2408.03 892.058 3533.72 3030.95 2128.39 4054.45 2680.64 3912.12 3688.53 1767.35 2111.82 1900.86 +DNAJA3 905.86 2420.61 4101.32 1452.36 2368.43 1884.48 1302.94 2921.11 2350.95 1342.54 2110.69 4727.55 2335.41 3964.09 6802.63 2116.56 3646.14 2520.98 3490.72 1930.17 +DNAJA4 811.72 434.841 386.906 435.322 1092.56 690.333 95.7315 653.102 34.8837 777.988 396.947 277.913 643.665 545.612 58.0411 145.236 551.986 1772.69 761.569 381.466 +DNAJB11 1122.48 1520.33 1080.73 1174.28 625.361 1861.21 1395.36 830.912 1204.02 4544.06 1110.05 1211.77 1765.84 776.523 952.304 1109.16 958.947 1099.92 1027.48 1803.45 +DNAJB12 1948.61 2308.68 1134.65 2766.85 1534.06 2809.87 1947.37 2553.93 2390.06 2423.97 2398.86 2441.75 1549.21 1794.77 1153.3 2308.05 1368.59 2021.36 1766.03 1462.93 +DNAJB1 3759.85 5877.2 5834.39 3675.45 9505.03 7739.67 2430.17 7434.35 4323.47 1461.96 9164.12 4006.07 6711.54 6702.19 8248.29 7563.37 4066.93 11690.3 3809.73 8696.55 +DNAJB13 0.4803 0.8053 1.185 8.5205 1.6766 12.4348 7.0452 0.34 5.814 0.8912 1.2723 6.068 0.5656 1.5446 1.0748 0.9251 1.3387 0 2.8189 1.2931 +DNAJB14 221.422 327.339 257.74 240.899 201.188 184.115 115.209 391.317 400.106 178.679 315.522 326.456 132.353 301.96 197.77 478.261 121.821 352.403 630.491 224.569 +DNAJB2 6866.47 1699.91 2953.04 1969.79 5707.6 3225.03 2367.18 2628.73 4811.31 1789.02 3413.49 1925.97 2880.09 1764.26 2542.52 3324.7 2308.79 3291.38 2563.78 1914.66 +DNAJB3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1.5256 0 0 +DNAJB4 470.221 995.302 487.632 145.624 585.123 726.033 394.53 477.672 665.433 428.205 263.359 274.272 317.308 544.454 649.738 318.224 259.705 907.704 700.493 696.121 +DNAJB5 419.308 201.315 534.439 1342.37 56.4445 357 121.011 128.512 706.131 430.433 293.257 305.825 272.059 262.188 691.657 276.596 201.696 280.702 286.587 242.241 +DNAJB6 2164.27 1202.66 2076.73 2577.85 2128.13 1610.91 1365.52 2332.6 1753.7 2262.23 1300.25 1159.59 656.109 2322.23 2748.89 1261.79 2979.03 3343.25 3941.27 912.5 +DNAJB7 4.5053 3.6116 1.2798 2.409 1.196 2.154 2.184 0.7242 1.7019 3.2661 0.6616 0 0.5826 5.4021 0 0.9251 4.2347 1.5942 1.0148 0.9224 +DNAJB8 0 0.4026 0 0 0 0 0.8288 0 0 0 0 0 0 0 0 0 0 0 0 0 +DNAJB9 1204.61 2141.99 3750.56 688.614 1515.62 1943.44 806.879 2016.42 1429.7 605.993 1440.84 1501.21 804.299 6307.56 1419.86 1760.41 1722.89 2509.53 3052.85 1129.31 +DNAJC10 1092.22 1907.26 1199.23 1048.02 938.879 1130.77 1980.52 1025.72 729.387 1641.97 700.382 809.466 517.534 1078.48 1237.14 1209.99 656.85 829.901 897.815 1659.91 +DNAJC11 1181.02 748.429 1381.79 1053.37 1762.57 1286.69 1122.62 736.724 1513.29 1614.35 915.452 955.534 1057.26 1292.24 1962.07 549.528 1212.27 839.909 1390.05 921.302 +DNAJC12 533.141 25.7683 1000.74 374.903 663.363 688.728 304.6 1006.68 159.619 131.447 641.221 487.864 223.416 742.157 45.1431 490.287 217.76 1419.53 86.4459 430.603 +DNAJC13 475.024 2912.23 682.566 491.092 813.136 928.199 1227.52 853.35 644.292 950.875 730.28 1899.27 588.801 717.444 765.82 853.839 531.459 658.276 805.732 1315.09 +DNAJC14 1822.13 2269.37 812.68 1015.07 989.226999999999 1177.67 1273.44 1460.35 1221.5 853.015 1385.93 1282.54 619.242 1290.23 1083.12 1275.52 1398.35 1284.32 1837.12 914.004 +DNAJC15 1401.06 542.746 1055.84 1203.72 950.615 493.382 246.167 629.643 969.345 1511.86 1527.35 669.903 57.6923 1128.29 903.937 960.222 23.6502 336.384 2432.23 825.431 +DNAJC16 656.1 572.138 600.207 401.239 398.465 589.25 415.665 477.672 613.108 528.907 326.336 395.631 566.177 524.761 589.547 329.325 496.207 354.691 387.597 385.776 +DNAJC1 1124.88 1536.44 1090.8 1398.14 3912 2178.5 719.022 1106.98 1992.6 1420.07 2510.18 1972.69 636.312 2709.14 1842.27 2166.51 1236.06 2334.1 1034.53 1104.31 +DNAJC17 371.758 113.542 205.599 426.026 403.495 189.33 241.194 277.424 544.398 530.244 578.88 172.937 432.692 178.396 309.015 291.397 306.56 487.414 386.188 177.586 +DNAJC18 107.589 208.562 245.889 147.173 127.419 111.913 176.129 321.961 151.691 101.147 295.165 296.723 169.683 221.257 109.633 197.04 307.898 112.128 229.269 169.828 +DNAJC19 569.645 850.355 600.8 709.528 1264.13 821.901 275.591 786.034 708.774 647.878 877.226 1929 716.063 822.087 755.072 1180.39 739.848 723.112 817.947 686.207 +DNAJC21 465.418 710.24 911.272 628.195 998.118 1070.6 942.395 1245.35 1121.04 1052.91 1370.23 1388.96 999.999999999999 1164.59 1076.45 1099.91 1050.42 1003.81 1252.53 1055.6 +DNAJC2 532.512 702.352 855.049999999999 641.472 444.805 945.263000000001 819.954 644.494 839.424 1124.36 552.233 590.698 422.172 996.733 1093.82 380.407 953.516 1111.07 878.252 486.987 +DNAJC22 54.2747 31.0025 4.1475 11.6189 0.5589 7.2202 39.3701 36.0379 1.5856 11.1396 5.7252 0 2.2624 8.8812 0.5374 0 12.0482 3.0511 3.2887 78.8793 +DNAJC24 507.382 273.543 264.322 209.156 282.005 196.518 304.14 362.711 352.024 367.508 393.492 301.529 348.716 451.596 166.879 426.882 284.931 288.619 336.19 382.112 +DNAJC25 468.3 331.188 961.635 941.905 481.735 413.157 336.096 471.553 962.933 297.649 439.567 757.282 558.258 1203.59 884.59 547.641 1458.27 516.384 457.129 337.5 +DNAJC25-GNG10 0 4.5537 0 0 0 0 0 0 5.0529 0 0 0 0 0 0 0 1.2227 5.7056 0 0 +DNAJC27 146.494 121.192 181.306 120.837 306.812 197.754 85.3709 108.114 165.433 61.0449 183.206 182.039 133.484 108.891 103.722 98.0574 107.987 144.165 200.611 186.638 +DNAJC28 33.1412 26.9762 88.8757 48.0248 113.448 74.2078 20.3067 50.6571 30.6554 12.4763 65.5216 64.3204 114.819 41.7029 61.803 101.758 58.456 66.3616 74.2307 42.6724 +DNAJC30 215.178 633.338 763.146 477.924 596.3 513.037 429.755 1111.06 630.021 431.77 466.921 1345.27 791.855 942.176 664.786 1136.91 1132.08 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4804.79 11782.5 6912.09 7174.11 5501.25 3806.57 3840.78 3333.76 6282.39 4580.18 4079.24 4649.97 3484.1 8467.67 6196.94 6405.31 5928.4 7308.25 6248.72 4675.34 +EIF2AK2 178.674 287.478 155.236 151.82 175.481 480.546 203.896 215.887 177.59 1174.56 269.084 120.752 321.833 143.643 221.416 224.792 274.431 187.643 243.834 352.586 +EIF2AK3 764.169 686.887 868.02 226.956 358.786 692.74 714.049 441.294 1016.38 372.507 332.061 415.655 325.792 742.929 537.955 627.197 435.074 479.786 380.55 880.172 +EIF2AK4 402.498 1226.81 537.402 580.17 1125.54 537.505 1228.76 738.437 1493.66 1413.84 979.643999999999 646.845 346.719 861.087 426.172 1023.13 540.384 1131.2 1774.49 769.828 +EIF2B1 1999.04 2158.5 1912.61 2136.33 1225.01 784.597 2120.18 2139.84 2089.85 1421.41 1830.79 1842.84 1576.92 1881.65 1742.85 1370.03 1829.54 1427.92 2481.09 967.241000000001 +EIF2B2 2010.09 552.812 1708.78 636.716 515.825 1299.64 866.142 2273.79 914.376 691.1 1281.81 505.461 1631.79 1227.15 1239.29 1144.31 3332.89 780.32 936.34 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227.103 348.14 537.526 550.741 283.079 890.17 213.235 470.316 519.145 272.896 307.898 499.619 234.437 311.638 +ENHO 13.9289 13.6894 8.2951 392.719 11.736 43.7224 10.3605 4.0798 52.8541 9.8028 8.2697 46.7233 2.8281 6.1782 17.7348 61.9796 195.002 26.6972 18.7926 3.4483 +ENKUR 0.9606 3.6237 6.5176 0 2.2354 3.6101 2.0721 4.7597 4.7569 77.0859 6.3613 17.5971 0 28.188 7.5238 20.3515 10.7095 7.6278 0 0 +ENO1 17118.6 4557.78 63208.4 10089.1 11880.7 9963.9 53304.2 4995.33 47624.2 137024 18457.4 19030.3 24485.3 8570.33 19442.7 7611.47 28451.1 8285.28 15324.9 31290.9 +ENO2 69.1643 2225.34 11957.9 3999.23 154.244 79.8235 2373.39 110.834 5465.12 2311.24 886.132 2507.89 1175.9 354.088 662.636 1252.54 4195.45 259.344 114.165 1660.34 +ENO3 912.584 126.426 8.2951 212.239 63.7097 26.8753 37.298 16.3191 36.9979 40.5481 155.852 70.9951 120.475 15.4455 108.021 24.0518 111.557 602.593 95.3723 28.4483 +ENOPH1 1403.46 1281.98 862.095 1228.51 740.485 966.306 811.024 1433.36 1589.32 814.526 1187.66 1712.38 613.688 1597.45 1083.97 1779.83 2224.45 1700.23 2027.72 1085.78 +ENOSF1 522.56 423.112 829.827 1529.46 640.299 517.517 124.028 485.397 265.021 305.385 254.389 409.854 388.71 463.639 948.456 239.241 1078.6 799.039 1136.61 735.177 +ENOX1 33.1412 4.4289 106.651 16.2665 5.0297 5.6157 280.978 29.9183 4.7569 54.8067 6.9975 7.8883 11.3122 45.5642 42.456 24.9769 98.1705 14.4928 28.6587 43.5345 +ENOX2 55.7157 320.091 294.475 112.316 157.039 136.382 432.242 113.893 358.88 230.367 208.015 563.714 53.1674 447.92 336.423 453.284 260.152 350.877 507.4 137.069 +ENPEP 22.0941 210.978 60.4355 12.3935 67.0628 284.396 663.075 39.7777 165.433 69.511 59.7964 115.291 45.8145 55.6038 22.0341 309.898 50.8701 105.263 112.755 84.9138 +ENPP1 31.7003 24.1578 69.3231 119.287 279.428 99.4785 1345.63 35.018 603.066 37.8746 242.366 300.971 45.2489 78.7721 201.532 915.819 112.004 50.3432 124.031 202.586 +ENPP2 3780.98 8195.94 2005.63 95.275 5638.86 555.154 1740.99 12029.5 271.142 303.442 1372.14 761.529 2149.32 2507.58 1608.49 929.695 2429.27 1427.92 937.28 391.81 +ENPP3 6.7243 123.205 529.699 28.66 766.192 939.43 1.2433 3.7398 275.37 2.2279 1103.05 21.2379 815.611 245.197 281.07 32.3774 53.9938 93.8215 110.876 933.19 +ENPP4 178.674 361.159 907.717 111.541 664.481000000001 270.357 84.9565 75.8156 497.886 104.712 223.282 673.544 61.086 337.87 78.463 666.05 298.974 497.33 1256.28 18.5345 +ENPP5 15.8501 95.4234 1067.69 157.242 298.988 676.294 1.6577 88.7348 272.199 0 634.224 496.966 58.8235 233.227 38.6941 644.773 416.332 221.205 1337.56 9.9138 +ENPP6 11.5274 607.167 28.4402 590.24 5.0297 1759.33 101.948 8.1595 348.309 0.8912 489.822 16.3835 553.167 0.7723 46.2179 54.5791 267.291 19.0694 231.149 194.397 +ENPP7 0 1.2079 0 0.7746 24.0308 2.4067 0 0.34 0 0 0 1.2136 70.7014 1.9307 0 0 7.5859 0.7628 0.4698 0.431 +ENSA 4137.37 4216.35 1926.23 2839.66 3390.58 6172.88 3121.43 2305.41 3715.64 8524.45 2969.47 2628.64 4071.83 2168.16 2950.42 2193.34 1976.35 3700.23 2827.34 4794.4 +ENTHD1 0.4803 0.4026 0 0 0 0 4.9731 0 2.6427 0.8912 0 0 0 0 0.5374 0 0.8925 0.7628 0 0 +ENTPD1 2180.6 1424.91 724.041 914.794999999999 486.205 2362.53 1261.09 2963.95 683.932 1017.27 1769.72 1211.13 1045.25 1480.84 694.881 1249.77 836.68 2453.09 1095.14 1231.44 +ENTPD2 3.8425 2.0132 11.8501 123.935 2.7943 20.8584 1.2433 5.0997 6.3425 1.3367 12.7226 3.6408 10.7466 1.1584 1.6123 4.6253 7.5859 14.4928 22.0813 3.4483 +ENTPD3 0 0.4026 2.37 6.1967 291.723 2.8079 2.901 0 1.0571 12.0307 0.6361 8.4951 0.5656 0.3861 2.6871 5.5504 3.1236 1.5256 0.4698 0 +ENTPD4 206.532 739.632 276.107 243.222 362.139 420.377 254.041 308.022 429.704 179.57 379.135 311.286 249.434 181.485 213.892 280.296 115.127 350.877 347.663 744.397 +ENTPD5 79.1162 214.236 213.598 165.074 77.899 188.335 48.8645 121.115 153.821 57.5515 85.5216 82.8701 69.44 93.7465 158.017 55.4949 120.29 41.7544 180.094 111.435 +ENTPD6 3026.42 659.509 1964.75 2773.82 3755.52 1416.77 2530.05 1678.48 2086.15 851.509 3202.93 3159.59 1615.95 1258.42 2347.44 2110.08 1827.76 3688.02 2123.09 1245.69 +ENTPD7 184.467 233.429 134.546 80.9837 33.5146 251.889 245.711 109.27 168.256 493.234 87.6272 74.5449 79.1516 80.2124 70.9929 149.204 63.9447 138.185 44.5196 329.069 +ENTPD8 0.4803 119.179 1.185 79.7831 0 12.4348 2.4865 1.0199 18.4989 1.7823 0 3.6408 5.6561 4.6337 4.8368 0 7.1397 0.7628 3.7585 120.259 +ENY2 675.793 281.439 480.521 790.86 699.689 466.907 513.469 1010.08 666.49 1229.36 1269.08 1224.51 759.05 1080.8 662.099 925.994 1318.16 926.774 656.801 1145.26 +EOMES 1.9212 6.4421 30.8103 0 3.3531 1.2034 22.3788 0.34 8.4567 37.429 78.8804 34.5874 0 60.2375 22.0341 183.164 8.9246 84.6682 28.6587 6.4655 +EP300 971.662 2743.12 1479.48 1141.75 742.162 1567.59 685.454 825.132 932.874999999999 1458.84 550.891 781.553 334.276 1051.45 747.011 722.478999999999 1295.4 833.715 1169.84 1506.47 +EP400 2356.87 4064.55 2966.67 4419.83 1012.65 3109.51 1794.45 2139.5 1165.96 1098.81 1760.18 988.470999999999 2579.19 851.820000000001 2775.76 968.548000000001 3927.71 1456.14 1665.96 2459.05 +EP400NL 226.225 234.733 172.419 369.481 48.6205 231.849 244.923 149.251 103.594 184.917 101.781 131.068 142.534 96.5344 188.634 88.8067 156.626 138.825 41.8135 121.552 +EPAS1 1505.76 4121.73 2199.97 1402.01 5576.83 3012.84 5871.53 5695.01 2065.54 5010.58 2250.64 3567.35 1786.76 2201.76 4173.05 6339.5 1165.1 2170.1 3558.37 1232.76 +EPB41 1279.9 1040.79 533.521 559.032 713.034 495.824 567.737 242.817 916.036 374.767 354.154 804.988 106.889 515.316 322.499 554.459 256.738 845.919 1272.84 312.496 +EPB41L1 12352.5 9573.75 6795.44 8542.99 3181.57 9651.42 1253.63 12362.7 7747.36 191.155 22135.5 1942.96 13310 11213.4 12500.9 1049.03 12313.7 11138.8 17747.7 12214.2 +EPB41L2 1297.79 1411.62 196.119 243.997 1155.72 361.011 2907.58 695.939 590.909 447.365 1012.09 692.961 418.552 335.94 183.797 862.165 477.912 859.649 944.797 865.948 +EPB41L3 2861.67 310.025 1599.76 661.503 804.195 1390.69 2060.92 1105.28 717.759 348.892 418.575 1521.24 1375.57 2051.55 3083.17 1454.21 810.352 1193.75 1443.74 3264.22 +EPB41L4A 995.197 385.317 190.194 356.313 126.302 675.09 125.984 487.532 88.2664 175.56 745.547 330.704 299.208 889.275 113.933 527.289 390.005 380.625 451.962 359.483 +EPB41L4B 657.061 1418.06 597.837 981.41 3290.55 2044.12 4.5586 1195.03 2200.32 11.1396 519.084 419.296 2322.96 1471.96 2504.37 389.454 746.096 672.006 828.283 970.259 +EPB41L5 291.547 239.565 203.822 247.095 495.706 541.516 262.329 266.545 85.6237 109.168 225.191 236.65 94.457 291.92 128.98 218.316 150.379 233.41 234.437 621.121 +EPB42 0 0 0.5925 0 0 2.8079 1.2433 0 0 0 0 0 0 0 0 0 0 0 0 0.431 +EPB49 191.643 262.112 921.345000000001 651.433 1656.45 496.992 46.8297 562.667 406.977 277.598 1119.59 1648.66 29.9774 574.573 11.2858 2711.38 198.572 1987.03 715.997 53.0172 +EPC1 99.9039 611.596 208.562 236.251 128.537 428.801 175.715 355.279 162.262 159.073 238.55 225.728 69.5701 245.197 189.171 162.812 136.992 184.592 203.899 241.81 +EPC2 274.255 554.019 475.781 375.678 284.458 402.728 344.799 505.551 346.723 400.134 295.165 208.738 264.14 360.266 514.846 313.599 248.996 267.735 411.557 377.155 +EPCAM 2.4015 294.323 148.126 907.823 21.2366 1172.88 0 66.9761 49.1543 146.151 269.72 106.796 716.629 778.84 12.898 433.858 167.782 423.341 699.554 1352.59 +EPDR1 2555.24 1085.89 5491.33 2010.07 2646.75 2218.61 772.482 1247.73 793.869 937.507 1467.56 1925.36 1248.3 4907.42 2511.89 2277.52 2035.7 2392.07 1143.53 855.603 +EPGN 0 0 0 1.5492 0 0 0 0 0 0.4456 0 0 0 0 0 0 0 0 0 0 +EPHA10 6.244 18.1184 53.3254 142.525 7.2651 144.404 3.7298 5.0997 105.18 4.4558 99.2366 80.0971 14.7059 146.732 19.8845 25.9019 14.2793 44.241 88.3251 28.0172 +EPHA1 5.2834 3.6237 0.5925 1.5492 0 0 24.8653 0.34 0.5285 5.347 0 15.7767 1.1312 0.7723 0.5374 15.7262 3.1236 13.73 1.4094 0 +EPHA2 53.3141 229.499 120.871 190.55 127.978 204.974 159.967 107.434 122.622 4806.51 157.761 231.189 108.032 145.188 75.7759 382.054 39.7144 183.829 175.241 80.1724 +EPHA3 76.8492 274.191 72.2856 20.1394 0 58.564 269.789 28.5583 45.9831 2.6735 26.7176 3.6408 48.6425 57.5345 65.565 67.5301 200.357 143.402 16.9133 34.0517 +EPHA4 94.1402 41.0683 128.573 872.967 38.5611 475.331 36.4691 741.837 237.844 4.4558 198.473 54.6117 435.52 142.099 282.682 418.131 454.712 49.5805 258.398 784.052 +EPHA5 2.8818 0.4026 0.5925 1.5492 0 0 14.0903 0 5.2854 0 1.9084 8.4951 15.2715 0.7723 3.7619 0 3.5698 0 2.3491 0 +EPHA6 0 1.2079 1.185 2.3238 0 0 0.8288 0 1.0571 0 0 3.6408 0 0.3861 1.6123 0 0 0 0 0 +EPHA7 0.9606 1.2079 11.8501 16.2665 0 0 1.2433 4.0798 13.2135 0 20.9924 0.6068 2.8281 1.1584 21.4967 0 3.5698 6.1022 3.7585 2.5862 +EPHA8 5.7637 22.5473 1.185 46.4756 0 6.418 1.6577 2.7198 6.3425 0 12.7226 1.2136 2.8281 1.1584 5.3742 0 4.9085 0 6.1076 10.3448 +EPHB1 6.7243 10.4684 824.174 196.747 3.912 142.399 9.5317 37.7378 714.059 5.347 109.415 387.136 10.181 180.326 684.133 53.654 27.6662 322.654 428.941 1.2931 +EPHB2 291.547 457.791 572.952 426.801 15.648 229.442 1321.59 807.453 274.313 417.957 1063.61 65.534 1214.37 1390.48 112.32 227.567 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337.098 651.998 978.412 1057.17 1119.5 541.235 788.384 642.944 255.065 653.365 781.444 1136.39 510.007 913.863 713.201 637.104 717.14 440.897 640.194 +FDXACB1 176.47 95.0208 81.8012 48.0558 142.581 188.584 57.1902 36.7179 109.45 83.3241 117.615 51.5777 178.23 84.2514 81.6875 73.765 70.058 96.8726 124.172 92.6724 +FDXR 27514.9 5295.39 13305.3 7666.15 35928.3 16668.3 304.186 10777.7 12905.9 1142.92 17739.8 8786.41 45707.6 16211.2 14427 5382.05 14251.7 13554.5 21751.5 17221.1 +FECH 402.017 983.223 721.671 223.857 639.332 457.682 721.923 449.794 664.905 219.673 182.57 712.379 403.846 581.909 720.677 295.097 494.868 176.964 873.855 773.276000000001 +FEM1A 1171.47 1271.91 1997.33 1840.43 796.371 2162.45 716.535 2302.01 2084.57 518.213 1358.78 1754.85 1622.17 2379.38 2061 1181.31 2000 1321.89 1381.25 1915.95 +FEM1B 1495.68 2011.94 1039.25 877.614 1268.6 766.546 1213.01 1542.15 1826.11 1568.45 1395.67 1241.5 820.136 1190.46 924.359 1355.23 844.712 1726.16 2807.14 1231.9 +FEM1C 522.094 411.488 1020.29 679.318 723.161 521.059 606.714 639.503 1023.78 372.953 1008.27 793.082 386.312 714.741 637.915 799.26 626.06 668.955 675.593 513.362 +FEN1 460.135 349.483 695.008 618.125 172.687 1919.37 995.441 652.762 1688.16 2221.23 618.957 384.709 3062.22 742.543 740.024 265.495 1552.43 450.801 603.242 2680.6 +FER1L4 61.9597 87.3708 14.8126 21.6886 117.36 56.1572 245.752 35.6979 24.3129 110.505 15.2672 19.4175 313.348 11.5841 5.3742 48.1036 44.1767 374.523 1.4094 390.948 +FER1L5 10.0865 5.6368 8.8876 6.9713 18.4423 20.4573 2.0721 13.9392 5.814 0 4.4529 4.8544 11.3122 0.3861 0.5374 0.9251 4.4623 0.7628 89.7346 14.6552 +FER1L6 0 1.6105 0 0.7746 0.5589 0.4011 2.901 0 0 1.3367 0 0 0 0.3861 0 0.9251 1.3387 0 0 0 +FER 25.9366 71.2656 30.2177 20.914 20.1188 48.1348 25.2797 47.9372 58.6681 65.9463 64.2494 27.3058 14.1403 32.0494 26.8709 33.3025 14.2793 9.1533 60.1362 51.7241 +FERD3L 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +FERMT1 0.9606 135.284 62.213 27.8854 277.752 194.545 86.6142 208.068 9.5137 59.2626 238.55 413.228 103.507 773.434 442.295 1891.77 13.8331 542.334 53.5588 84.0517 +FERMT2 171.47 1039.19 405.273 448.49 692.423 351.785 1376.71 552.468 615.222 1313.58 460.56 605.582 230.204 272.227 348.784 854.764 308.791 256.293 546.394 871.121 +FERMT3 175.792 219.836 212.117 278.854 546.003 69.3943 1789.89 42.8375 197.674 718.726 174.936 314.32 238.688 53.6731 128.443 207.215 277.555 732.265 126.38 29.3103 +FES 93.1796 201.718 87.0982 91.402 430.878 84.2359 1076.25 97.5743 88.2664 505.291 136.132 142.597 218.891 83.0196 109.096 165.587 73.6278 212.815 128.259 15.9483 +FETUB 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +FEV 0 0.4026 0 0 0 0.4011 72.5238 0.34 1.0571 0 0 0 0 1.1584 1.6123 0 4.4623 0.7628 0.9396 0 +FEZ1 115.754 417.528 331.803 828.04 60.3565 148.416 67.1363 205.348 285.412 569.01 1379.13 520.631 161.199 1037.17 833.535 395.93 798.751 858.124 335.447 427.155 +FEZ2 730.067 1060.53 911.272 339.272 1263.02 591.255 1582.68 967.584000000001 540.698 998.997 416.031 842.84 1194 893.136 871.692 942.646 465.863 614.798 1240.78 1559.05 +FEZF1 0.9606 0.4026 0 0.7746 0.5589 83.4136 0.4144 0 1.5856 0.4456 0 0.6068 9.6154 3.8614 3.2245 0 0.4462 0 0.9396 35.2155 +FEZF2 0 0 0 0 5.5886 0 0.8288 0.68 1.0571 0 0 0 0 0 2.1497 0 0 0 0 0 +FFAR1 0.4803 0 0 0.7746 3.3531 0 0 0 1.5856 0 0 0 0 2.3168 8.0613 0 0.8925 0.7628 1.4094 6.4655 +FFAR2 0.9606 0 1.185 0 3.912 2.8079 3.7298 0.68 2.1142 15.5954 1.9084 1.8204 2.2624 0 4.2993 15.7262 0.4462 3.0511 2.3491 0.8621 +FFAR3 0.4803 1.2079 0 2.3238 1.6766 0.8022 12.0182 0 1.0571 0.8912 0 9.7087 1.6968 1.1584 1.6123 14.8011 0.4462 0 0.9396 3.8793 +FGA 0 0.8053 4.74 0 24.0308 0 0.4144 0 0.5285 0 0 0 0 0 0 0 0 37.376 1.4094 0 +FGB 0 0 0.5925 0 0 0 0 1.0199 29.5983 0 0 0 0 0 0.5374 0 0 0.7628 0.4698 0 +FGD1 339.577 360.757 665.975 1438.42 107.3 276.374 1497.72 273.684 721.987 322.602 665.394 471.481 66.7421 533.642 161.225 1195.19 541.276 1086.96 351.891 182.759 +FGD2 102.305 33.0157 27.2552 82.8815 169.892 14.8416 536.676 12.5793 30.6554 173.332 75.0636 129.248 76.9231 27.8019 31.7076 44.4033 19.1879 352.403 51.6796 3.0172 +FGD3 42.7474 32.6131 13.6276 42.6026 126.302 68.1909 389.971 72.0758 10.5708 231.258 49.6183 91.6262 48.6425 48.6533 29.0206 52.729 73.6278 207.475 23.9605 9.9138 +FGD4 233.91 38.6525 248.26 362.51 1256.87 352.988 218.815 124.433 383.192 75.7491 236.005 468.447 183.823 430.543 344.485 296.022 141.455 92.296 276.721 185.776 +FGD5 135.927 487.988 96.5783 105.345 329.167 303.249 274.762 478.692 112.579 133.229 248.092 259.709 367.647 187.663 175.198 501.388 139.67 228.07 244.773 58.1897 +FGD6 654.179 973.56 374.463 164.214 267.692 580.826 358.06 304.962 70.8245 420.63 540.076 287.621 140.272 415.87 143.49 616.096 202.142 323.417 267.324 314.224 +FGF10 0 0 6.5176 0 0 0 13.2615 0 3.1712 0 0 2.4272 0 0 0 0.9251 0 0.7628 0 1.2931 +FGF11 946.206 783.825 433.121 184.353 246.579 18.8528 29.424 20.3988 121.036 309.235 36.2595 6665.01 105.769 49.0704 23.109 92.5069 1178.05 28.9855 305.379 47.8578 +FGF12 1459.17 1429.74 749.519 345.469 10.6183 161.251 8.7029 1134.51 10.0423 4.0102 126.59 217.233 411.199 782.701 371.356 863.09 460.062 0.7628 22.0813 965.517 +FGF1 4.8031 21.3394 49.1779 5.4222 2.2354 4.4124 122.254 20.0588 22.7273 5.347 1.2723 30.3398 5.6561 18.1485 2.1497 54.5791 7.5859 4.5767 4.2283 1.2931 +FGF13 158.501 679.237 13.6276 27.1108 73.2102 20.8584 152.922 26.8584 179.175 2.2279 33.715 37.0146 1.6968 12.3564 46.7553 36.0777 1750.11 22.1205 163.965 2.1552 +FGF14 13.4486 34.2236 4.1475 22.4632 2.7943 1.2034 113.552 5.0997 21.1416 0 32.4427 23.0583 5.6561 33.594 13.9729 38.8529 24.9888 46.5294 1.4094 5.6034 +FGF16 0 0 0 0 0 0 0 0 1.0571 0 0 0 0 0 0 0 0.4462 0 0 0 +FGF17 17.2911 4.4289 19.5527 37.9551 17.3246 7.6213 52.6316 27.1984 5.814 0.8912 5.0891 1.8204 3.9593 6.1782 1.6123 1.8501 0.8925 12.2044 0 6.4655 +FGF18 3.8425 1.2079 11.8501 24.787 0 1.2034 39.7845 1.6999 0.5285 0.4456 7.6336 5.4612 1.1312 6.9505 0 22.2017 3.1236 8.3905 0.4698 5.1724 +FGF19 0 0.4026 0 0.7746 0 0 0 0 0 0 0 0 0 0.3861 0.5374 0 0.4462 0.7628 0 0 +FGF20 16.3305 4.0263 0 1.5492 1.1177 1.6045 0 0.68 0.5285 0 1.9084 8.4951 1.1312 6.9505 0.5374 9.2507 15.1718 4.5767 2.8189 17.2414 +FGF21 0 162.663 1.185 2.3238 0 0 1.6577 0 1.5856 0 0 0 0.5656 0 0 0 0.8925 0 0 0.431 +FGF2 47.5408 47.4379 19.5053 68.9388 24.3494 13.2852 729.507 40.4101 15.1057 593.526 132.71 283.465 36.6572 374.801 23.985 277.9 261.16 269.268 44.6981 23.1552 +FGF22 0.9606 0.8053 0 2.3238 0 0 0 2.0399 1.5856 0 0.6361 1.2136 0 0.3861 0 0 0.8925 0.7628 0 0.8621 +FGF23 0 0 0 0 0 0 0.8288 0 0 0 0 0 0 0 0 0 1.3387 0 0.4698 0 +FGF3 0 0.4026 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +FGF4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +FGF5 0 0.4026 0 0 0 0 26.1086 0.68 1.0571 36.5378 0 0 0 0.3861 0 0 0 0 0 0 +FGF6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +FGF7 10.0865 84.955 52.7329 63.5167 26.2663 12.0337 150.021 3.7398 41.2262 6.2382 33.715 73.4223 10.181 66.8018 52.6669 82.3312 40.1606 141.114 117.454 21.9828 +FGF8 0 0 1.185 9.2951 0 0.4011 1.6577 0 0 0.8912 5.0891 0 1.6968 0.7723 0 0 0.8925 1.5256 0 0.431 +FGF9 381.364 794.39 243.519 144.074 186.658 490.173 0 349.84 263.214 0.4456 193.384 408.981 339.932 1627.57 709.391 183.164 224.453 243.326 488.607 662.5 +FGFBP1 0 0 0.5925 0 0 0 0 0 0 15.1498 0 0.6068 0 0 0 0 0 0 0 0.431 +FGFBP2 4.3228 3.221 8.2951 1.5492 8.9417 2.8079 8.7029 15.2991 0 4.0102 7.6336 8.4951 0.5656 0.7723 4.2993 3.7003 2.6774 6.865 7.0472 0 +FGFBP3 85.0144 67.2393 211.524 109.218 65.3862 1011.23 49.3162 79.5554 152.22 46.3406 117.048 106.189 752.828 169.128 124.144 131.36 258.813 140.351 36.1757 453.879 +FGFR1 1055.72 407.865 4865.06 7736.64 463.292 1885.68 7615.42 5077.6 4513.21 302.997 6020.99 842.84 1628.96 1028.67 4458.95 2069.38 4232.04 7679.63 2257.46 1214.66 +FGFR1OP 401.628 212.629 103.837 202.115 253.162 482.266 97.041 185.874 426.49 275.869 519.396 74.4478 364.717 183.411 177.02 136.781 235.141 188.825 288.983 359.422 +FGFR1OP2 363.112 987.250000000001 744.186 926.414 538.179 575.612 571.073 503.511 689.746 621.143 594.784 678.398 330.317 509.316 626.629 543.016 614.012 599.542 569.885 608.19 +FGFR2 246.878 1090.73 144.571 231.603 209.012 1175.29 1.6577 176.79 59.7252 24.9527 280.534 615.291 934.955 191.524 248.824 235.893 273.092 397.407 776.133 262.069 +FGFR3 19.6926 145.752 10.0726 412.084 760.045 12.4348 3.7298 61.1964 11.6279 40.1025 22.2646 20.0243 27.7149 27.4158 9.1361 29.6022 55.3324 19.8322 142.824 12.5 +FGFR4 505.283 4785.66 931.418 549.961 6052.42 8474.53 38.5412 1648.9 3551.8 221.455 18811.7 42.4757 26747.2 418.187 3137.98 17.5763 914.77 12044.2 7930 7233.62 +FGFRL1 339.577 1688.63 5067.69 2494.97 9810.17 3773.37 894.322 3089.74 942.389 182.244 675.572 659.587 2244.34 1521 339.648 630.897 2768.85 2196.03 5850.13 2045.69 +FGG 0.9606 2.8184 311.065 1.5492 12783.8 2.4067 0 0.34 7430.23 1.3367 1.2723 171.723 19.2308 79.5444 100.497 2.7752 138.777 142.639 49.8003 2.1552 +FGGY 33.1412 188.431 101.911 33.3075 295.635 54.9539 77.0825 26.8584 47.5687 77.0859 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1731.51 4048.45 2093.32 1858.25 2633.89 1511.43 3936.59 2257.47 2815.54 2483.68 1795.17 2299.15 2382.92 2313.35 4918.45 1092.51 2570.73 1981.69 2967.35 2312.5 +GCNT1 19.6926 14.0921 286.772 140.976 56.4445 58.1629 347.286 13.2592 511.099 600.201 38.8041 74.0291 22.0588 67.188 75.2385 524.514 281.125 82.3799 54.4985 23.2759 +GCNT2 15.8501 55.9656 18.9602 6.1967 22.3543 15.6438 39.3701 92.4746 19.0275 94.9092 31.1705 59.466 88.8009 33.594 29.558 78.6309 7.5859 41.1899 40.8739 4.7414 +GCNT3 4.8031 0.8053 59.2505 0.7746 3.912 81.8291 21.1355 0 49.1543 20.4968 0.6361 240.291 8.4842 5.4059 90.2862 49.0287 0.4462 1.5256 75.1703 0.431 +GCNT4 1.4409 24.1578 32.5878 12.3935 11.1771 77.0156 1.2433 19.7189 2.6427 15.1498 17.1756 32.767 32.2398 24.7128 19.347 24.9769 29.4511 16.7811 12.2152 32.3276 +GCNT7 0.4803 0 0.5925 0 0 0.4011 0.4144 0.34 0 0.4456 0 0 0.5656 1.9307 0 1.8501 0.8925 0 0 0 +GCOM1 287.233 115.245 194.987 44.1518 3427.18 888.889 44.8031 7.8195 483.71 104.623 579.714 528.331 2330.04 638.432 95.4991 91.2488 239.17 385.728 894.888 704.466 +GCSH 8.1652 12.8842 40.2903 18.5902 11.736 46.9314 8.2884 49.6371 19.0275 5.7926 13.3588 53.3981 16.9683 35.1385 7.5238 6.4755 38.3757 8.3905 6.5774 68.1034 +GDA 0.9606 1.6105 13.0351 13.1681 0 2.4067 2.901 0.68 3.6998 4.9014 0 3.6408 73.5294 1.9307 4.2993 0 10.7095 0 3.2887 1.2931 +GDAP1 340.538 170.313 732.336 185.128 120.713 76.6145 105.678 1139.27 140.063 239.278 432.57 293.689 1373.87 342.504 275.695 353.377 967.871 231.121 414.846 360.776 +GDAP1L1 24.976 10.0658 16.5901 102.246 5.0297 0.8022 1.6577 155.031 2.6427 0.8912 62.341 113.471 23.7557 89.9701 60.7282 20.3515 9.3708 74.7521 2.8189 6.0345 +GDAP2 356.868 340.223 300.992 49.574 287.811 369.033 257.356 283.543 369.45 196.057 211.196 173.544 184.955 217.009 331.049 217.391 241.856 303.585 349.072 278.017 +GDE1 1568.68 1232.45 2262.18 1627.42 1992.32 2427.6 2463.32 964.184 2990.49 1061.82 1447.84 2217.84 1803.73 2187.47 2488.78 1543.94 1704.6 1620.9 2833.92 2026.29 +GDEP 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +GDF10 79.731 267.749 46.2154 221.534 0 2.8079 5.8019 115.593 5.814 0 22.9008 0.6068 3.9593 12.7425 18.8096 4.6253 128.96 189.931 1.8793 265.086 +GDF11 342.421 397.428 283.277 689.21 70.7904 194.962 653.506 608.68 246.295 90.6405 1166.45 272.919 1061.25 174.754 83.4663 426.448 629.415 667.811 673.784 565.961 +GDF1 10.5668 22.9902 6.8494 73.6019 1.6766 5.6598 40.373 294.154 27.2516 0.4456 8.6132 54.3083 16.4932 3.2667 14.3437 10.074 112.615 33.3867 4.7075 0.5905 +GDF15 94.1402 4253.39 2625.39 325.329 172.687 27.6775 844.592 9.8594 3512.68 2436.89 157.761 9608.01 61.086 23542 202.607 74.9306 152.164 2259.34 91.144 40.5172 +GDF2 0 1.6105 5.925 4.6476 0 0 0 0 0.5285 0 0 0 10.181 0.7723 0 0 0 0 0.9396 0 +GDF3 4.3228 4.0263 0.5925 0 5.0297 1.6045 1.2433 6.7996 0 0 12.7226 0.6068 0.5656 3.4752 1.6123 9.2507 0 7.6278 1.8793 0.431 +GDF5 0 1.2079 1.185 0 1.6766 0.4011 226.146 0 1.0571 45.6455 0.6361 1.8204 0 0.3861 0 8.3256 30.3436 2.2883 0 0 +GDF6 147.935 98.2418 50.9554 37.1805 0.5589 2.4067 6.6308 404.577 3.6998 1.3367 40.0763 7.2816 9.0498 60.6236 11.8232 8.3256 33.021 18.3066 32.4172 3.4483 +GDF7 0 3.221 0 0.7746 0 5.2146 0 7.1396 0 0 0.6361 0 2.2624 0 0 0 0 0 0 0.8621 +GDF9 262.248 18.1184 38.5128 50.3486 67.6217 26.4741 4.5586 19.7189 37.5264 6.2382 43.8931 43.6893 23.7557 64.0989 76.8507 23.1267 45.0692 57.2082 16.9133 21.1207 +GDI1 5188.28 3659.1 7494.59 9899.3 2906.61 3094.67 3851.64 4136.88 5937.1 4297.2 4349.87 3951.46 4167.42 5049.14 4883.51 6206.29 5846.05 5387.49 3668.31 2365.52 +GDI2 4624.4 8953.29 3952.6 2838.11 3876.79 11380.3 3491.09 3702.38 5065.01 5804.61 5153.94 4865.9 4603.51 3865.62 4369.74 3450.51 4224.9 4120.52 4402.63 5916.81 +GDNF 0.4803 0 0 0 0 0 0 1.3599 0 0 0.6361 0 1.1312 0.7723 0 0 2.2311 0 0 1.2931 +GDPD1 2.4015 7.2473 21.9227 0 35.208 43.3213 23.2076 9.5194 13.2135 6.2382 14.631 39.4417 6.7873 23.1683 9.1361 28.6772 4.0161 9.1533 15.0341 16.8103 +GDPD2 0 0 0 0 0 2.0056 0.4144 0 1.0571 0.8912 0 0.6068 0.5656 0 0 0 0.4462 0 0 0.431 +GDPD3 15.4371 334.01 211.785 103.811 50.6939 4.5648 29.1463 12.3583 13.9006 17.5337 20.3562 6.068 13.5747 5.2553 10.2109 163.561 52.1508 43.791 10.3359 40.0474 +GDPD4 1.4409 0.4026 4.74 0 1.1177 4.0112 1.6577 0.68 1.5856 0 0 1.2136 0 0.7723 3.2245 0 0.4462 11.4416 2.3491 0.431 +GDPD5 82.1326 138.907 162.939 285.05 84.3874 923.786999999999 370.493 80.2353 84.0381 169.322 197.837 92.8398 2165.72 227.435 110.171 91.5819 146.363 121.281 332.629 591.379 +GEFT 428.434 194.257 29.489 1300.33 80.9113 162.696 611.72 539.596 60.2537 40.5481 164.644 64.7937 108.02 124.765 18.8096 236.762 254.605 121.945 26.2908 740.905 +GEM 166.186 291.907 97.1708 134.005 34.6491 110.71 2864.9 312.102 200.846 234.377 299.618 819.782 53.733 93.8315 229.477 256.244 238.286 569.031 93.4931 102.586 +GEMIN4 511.527 385.317 388.091 370.256 357.109 263.137 666.39 367.859 454.546 297.649 381.043 842.233 638.575 392.316 395.539 401.48 724.23 359.268 374.442 178.448 +GEMIN5 437.56 479.533 974.67 206.816 470.557 556.759 450.477 599.045 709.302 578.812 649.491 500.607 446.833 588.86 976.488 599.445 640.339 479.786 867.277 408.19 +GEMIN6 376.561 103.476 201.452 320.682 226.896 301.243 296.726 195.829 218.287 362.705 283.715 238.471 472.851 345.207 200.994 341.351 210.62 299.771 155.978 304.741 +GEMIN7 141.21 208.562 601.392 602.634 396.788 701.564 486.117 540.229 645.877 494.597 874.682 462.379 933.823 410.851 491.737 560.592 409.639 526.316 379.61 411.207 +GEMIN8 235.831 211.381 767.294 383.424 282.781 133.975 299.213 297.823 606.765 289.183 610.687 725.121 213.801 937.542 313.852 741.906 482.82 906.941 560.958 236.638 +GEMIN8P4 27.3775 10.871 10.6651 17.8156 45.2674 27.6775 18.649 38.0778 43.8689 71.7389 19.084 17.5971 39.5928 35.9108 27.9457 20.3515 49.9777 48.8177 30.5379 26.2931 +GEN1 160.903 124.01 155.236 505.81 167.657 411.151 229.175 196.849 286.998 333.296 277.99 100.728 207.579 235.544 162.838 172.988 175.368 196.796 286.587 522.414 +GET4 3548.59 4114.62 2579.14 4691.71 4242.84 4338.55 1191.89 3490.24 3663.39 755.709 1751.91 1884.71 2374.43 5495.22 2594.65 1143.39 4370.39 3064.07 4759.69 2750.52 +GFAP 24.976 39.8604 45.0304 108.443 3.3531 0.4011 4.1442 86.015 7.3996 82.4329 30.5344 183.859 9.0498 368.762 27.9457 1.8501 173.137 25.9344 43.6927 18.5345 +GFER 416.907 252.852 653.533 945.004 328.049 369.434 669.291 568.447 613.636 526.679 489.186 712.985 625.566 625.157 1199.52 781.684 806.783 498.093 295.983 450.862 +GFI1 4.3228 4.0263 6.5176 19.3648 7.2651 3.209 41.0278 4.4197 14.7992 253.537 9.542 13.3495 11.3122 3.0891 3.7619 12.951 6.2472 30.5111 3.2887 12.931 +GFI1B 0 0 0 0.7746 5.0297 2.4067 2.4865 0.68 13.7421 0.4456 0 0.6068 0 0.3861 0.5374 0.9251 1.7849 22.8833 13.1548 0 +GFM1 1269.93 3428.4 1786.99 444.617 1470.91 1928.2 539.992 1208.29 1150.63 1223.13 661.578 1910.8 1084.28 1079.64 1905.15 915.819 1366.35 701.754 3090.91 1099.14 +GFM2 677.714 1657.63 1256.11 937.258 1620.68 1361.01 357.232 1552.01 1265.33 843.489 1780.53 1319.17 1514.14 1459.99 2650.54 841.813 1962.96 1404.27 2270.61 1198.71 +GFOD1 13.4486 13.6894 4.1475 6.1967 12.8537 26.073 25.2797 25.1585 17.9704 19.1601 5.7252 9.1019 13.5747 15.4455 32.7825 24.0518 9.817 22.8833 25.8398 12.931 +GFOD2 556.196 388.136 1283.96 784.663 1484.32 574.809 476.171 850.63 606.237 642.531 658.397 670.51 513.575 935.998 2428.05 806.66 749.665 876.43 459.948 320.259 +GFPT1 1923.15 4662.46 1716.49 844.307 1682.16 1714 3571.9 1303.14 1510.57 1821.99 938.931 1068.57 1031.67 1896.71 2234.58 1469.01 862.115 1763.54 926.474 1971.12 +GFPT2 57.1566 968.729 489.409 910.147 57.0034 14.4404 2607.96 117.633 201.903 2765.73 75.6997 1057.04 99.5475 206.97 511.084 136.91 77.1977 95.3471 177.12 64.2241 +GFRA1 143.612 14.8973 3.555 216.886 3.3531 1.6045 4.9731 6.7996 4.2283 0 45.1654 134.709 0 11.9703 11.8232 148.011 10.7095 18.3066 3.2887 9.4828 +GFRA2 7.6849 372.433 95.3933 423.703 62.5919 160.048 25.6942 370.918 10.5708 3.1191 54.0712 4.2476 595.588 32.0494 16.1225 17.5763 683.623 9.1533 54.0287 10.7759 +GFRA3 18.732 49.9262 1.185 13.1681 7.824 10.8303 6.6308 12.9192 12.1564 2.6735 9.542 0.6068 2.8281 8.8812 2.6871 0 425.703 5.3394 48.8607 2.5862 +GFRA4 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +GFRAL 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +GGA1 1280.02 966.313 1275.07 1745.16 1251.84 631.368 1501.45 672.821 1538.58 1152.28 721.374 1218.45 1353.51 1042.57 1302.7 565.217 2628.29 1353.93 1431.05 1331.47 +GGA2 4798.27 3047.91 4248.85 5956.62 5670.16 7121.14 1885.62 2698.08 5333.51 863.095 4114.5 3405.34 4895.36 4663.77 7595.32 1871.42 3283.36 4012.97 2771.44 2501.72 +GGA3 603.266 715.474 727.596 901.627 974.646 599.679 994.198 502.831 795.455 627.827 583.97 841.626 609.729 435.949 334.811 430.157 432.396 490.465 706.601 551.293 +GGCT 466.859 386.123 798.104 646.011 791.9 1351.79 966.432 326.381 1395.35 1235.6 575.7 966.626000000001 786.765 822.859 1145.77 526.365 1297.19 445.462 1284.47 939.655 +GGCX 310.759 608.777 573.545 299.768 801.959 577.216 1017.41 485.492 457.188 1297.98 440.84 259.102 664.593 485.375 544.404 496.762 282.909 444.699 739.488 900.430999999999 +GGH 509.126 518.991 330.618 840.434 270.487 901.725 62.5777 746.257 593.552 1646.43 1102.42 667.476 1342.19 583.454 499.261 797.41 1561.36 1054.16 307.728 4186.64 +GGN 1.4409 2.8184 8.8876 86.7545 0.5589 6.8191 4.5586 48.6172 5.2854 2.6735 30.5344 12.7427 3.3937 19.693 10.7484 14.8011 24.5426 12.9672 2.3491 3.8793 +GGNBP1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +GGNBP2 975.504 1021.07 1131.09 908.598 1200.42 1174.49 1015.75 1386.78 1147.46 1046.67 1237.91 1649.27 1321.83 1224.83 1329.57 1157.26 1349.84 1089.24 1118.16 1802.16 +GGPS1 1457.25 916.789 630.425 604.957 882.994 2083.03 771.654 778.895 663.319 961.568 629.771 583.131 1567.31 813.206 862.018 826.087 700.58 1019.07 1307.96 1738.36 +GGT1 28.3381 12.4815 58.658 87.529 1.6766 3.209 36.4691 5.0997 17.9704 50.3509 14.631 16.3835 10.181 7.3366 10.2109 3.7003 21.419 19.0694 12.2152 31.8966 +GGT3P 28.8184 1.2079 5.3325 67.3896 1.1177 2.8079 2.0721 4.0798 10.0423 2.2279 1.2723 1.2136 4.5249 1.5446 3.2245 1.8501 15.1718 1.5256 14.5642 0.431 +GGT5 499.52 1108.04 401.126 264.136 126.302 196.149 1290.1 355.619 274.841 4641.19 1589.06 149.272 1020.93 969.592 381.567 981.499 5523.43 1881.77 348.132 107.759 +GGT6 22.0941 134.478 247.075 20.914 74.3279 0 0 0.34 19.556 0 17.8117 16.9903 0 54.4454 0.5374 0 24.5426 6.865 1064.6 1.2931 +GGT7 756.004 615.622 80.5807 223.083 702.483 464.099 411.521 466.453 58.1395 425.978 178.753 419.296 2057.69 195 36.007 72.1554 257.474 497.33 409.208 1959.05 +GGT8P 0 0.4026 0 6.1967 0 0.4011 0 0 2.6427 0 0 0 0 0.7723 1.0748 0 0.4462 0 3.7585 0 +GGTA1 166.667 122.4 34.9578 60.4183 585.123 36.5022 1305.84 133.612 43.3404 213.88 173.664 300.971 65.0452 67.9602 52.1295 335.8 70.058 342.487 154.099 5.1724 +GGTLC1 0 0.4026 0.5925 1.5492 0 0.4011 1.6577 0 1.0571 0.4456 0 0 1.1312 0 0 0 1.3387 0 0 0 +GGTLC2 5.7637 4.8316 5.3325 29.4345 0 0.8022 10.775 3.0598 7.3996 13.8131 3.8168 1.2136 7.9186 0.7723 2.1497 2.7752 6.2472 12.9672 4.2283 3.0172 +GH1 9.6061 0 0 0 0 0.8022 0.4144 0 0 0.8912 0.6361 0 0.5656 0.3861 0 0 0 0 0 0 +GH2 0 0.4026 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +GHDC 2186.36 1240.5 1006.67 728.891999999999 3061.98 628.159 496.892 1133.15 921.776000000001 636.738 806.616 4991.5 2640.84 1477.75 2243.18 1672.53 1166.89 1324.94 1783.42 1583.19 +GHITM 5134.01 13858.1 7015.85 5532.15 11127.4 9367.03 3328.22 6591.2 6237.31 4677.29 6638.68 17902.3 5521.49 8860.7 7963.99 5312.67 5564.93 7339.44 14652.6 9989.66 +GHR 242.075 49.5235 1440.38 467.854 313.519 1034.1 75.8392 528.669 545.455 4.0102 1326.34 442.961 1104.07 1032.92 1388.69 887.141 327.532 404.272 876.673999999999 262.5 +GHRH 0 0 0 0 1.6766 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +GHRHR 0 0 0 0 0 0 0 0 0 0 0 0 0.5656 0 0 0 0 0 0 0 +GHRL 14.4092 1.6105 2.37 10.8443 2.7943 0 4.5586 0.68 1.5856 1.7823 5.7252 3.034 1.6968 1.9307 0 4.6253 0.8925 10.6789 0.9396 0.8621 +GHRLOS 4.3228 5.2342 14.2201 80.5577 3.912 9.2258 11.6038 23.7986 8.9852 19.6057 7.6336 7.2816 6.7873 11.198 4.8368 12.0259 16.9567 22.1205 4.6981 10.7759 +GHSR 0 0.4026 0 3.0984 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 0.7628 0 0.431 +GIF 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.9251 0 0 0 0 +GIGYF1 2433.72 2600.99 2624.2 5500.39 2403.08 2287.61 2278.49 1511.89 2099.89 1497.61 2018.45 2157.16 1006.22 1990.93 2280.26 1693.8 2132.98 2681.92 1784.36 806.466 +GIGYF2 1536.5 2152.86 1263.81 668.474 1841.43 1853.99 871.944 1409.56 966.701999999999 1213.77 972.646000000001 957.524 1614.25 1030.99 1151.15 1064.75 871.04 800.153 1407.09 1474.57 +GIMAP1 97.5024 55.563 32.5878 35.6313 228.572 61.3718 389.971 98.5943 52.8541 147.934 125.318 94.0534 98.9819 77.9998 56.4289 162.812 51.3164 308.925 78.9288 12.5 +GIMAP2 91.2584 46.3025 30.2177 227.73 128.537 290.814 367.178 161.151 261.099 209.87 219.466 94.6602 155.543 97.6928 43.5308 223.867 358.322 372.235 412.027 39.2241 +GIMAP4 417.867 320.494 267.812 262.587 570.593 393.903 1339 447.074 201.374 750.808 613.232 413.228 442.873 356.019 371.356 732.655 297.189 1400.46 679.822 116.81 +GIMAP5 280.98 239.162 130.351 237.8 772.34 203.369 1535.02 510.31 148.52 674.167 419.847 304.005 270.362 223.96 235.926 513.413 232.039 964.149 613.108 62.5 +GIMAP6 181.556 311.636 91.8382 104.57 347.609 231.448 614.588 277.424 83.5095 262.003 232.824 390.777 165.158 153.297 139.191 560.592 156.18 539.283 385.718 66.3793 +GIMAP7 217.099 130.452 75.2481 136.328 282.781 129.563 308.744 180.869 59.1966 318.146 236.641 260.315 61.086 160.633 64.4901 520.814 101.294 644.546 248.062 24.569 +GIMAP8 236.792 214.602 91.8382 163.439 362.139 183.714 580.191 449.114 88.7949 284.282 321.883 295.51 123.869 179.554 101.572 434.783 123.606 479.786 381.019 23.7069 +GIN1 75.4083 109.516 203.229 166.538 409.642 183.313 81.6411 215.887 213.002 103.375 291.985 272.452 187.217 322.811 399.839 238.668 324.855 138.062 419.544 185.776 +GINS1 44.1883 49.5235 159.976 213.788 30.1783 265.945 257.356 216.227 272.727 277.598 256.361 78.8835 362.557 103.485 320.838 172.063 443.552 112.128 124.031 764.224 +GINS2 123.919 91.7997 149.311 830.364 21.2366 647.012 217.157 254.985 585.624 798.931 332.061 154.733 1172.51 110.822 356.308 197.04 867.47 182.304 81.2779 536.638 +GINS3 293.948 266.541 463.339 954.299 539.297 466.907 186.904 363.439 994.715 257.547 559.796 598.301 572.398 547.157 1115.14 777.058 1044.18 677.346 398.403 967.672 +GINS4 143.132 51.1341 66.3605 203.718 37.4434 430.004 210.112 204.328 289.112 95.8004 223.919 118.932 207.579 114.683 216.042 91.5819 143.686 112.891 64.3646 758.621 +GIP 0 0 1.185 0 0 0 1.6577 0 0.5285 0.4456 0 0 0 4.6337 0 0.9251 0 0 0.4698 4.7414 +GIPC1 2082.13 3058.78 3191.23 3509.68 2906.05 4630.16 2021.55 3067.64 2904.86 1138.02 4003.82 2101.94 5583.71 2319.91 3619.51 2707.68 2314.15 3164 2404.04 4237.5 +GIPC2 21.1335 996.108 13.6276 3.873 965.145 8.4236 63.821 20.0588 7.3996 14.7042 24.8092 146.238 516.968 327.445 16.6599 51.8039 5.3548 262.395 448.203 1200.43 +GIPC3 93.1796 171.923 56.8805 129.357 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117.145 96.9216 77.6956 30.215 26.6158 74.6359 60.5204 18.4419 7.5238 30.2128 8.9246 19.8322 43.6927 9.0517 +HIGD1C 0 0 0 0 0.5589 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +HIGD2A 3065.32 1183.73 2298.33 6240.12 2296.9 2539.11 1661.42 2770.84 2673.89 2758.16 7568.7 3799.15 3778.28 2719.18 3647.99 5492.14 2487.28 3779.56 3115.34 1717.24 +HIGD2B 0 0.4026 0 0 0 0 0.4144 0 2.1142 0 0 2.4272 0 0 1.0748 0 0 0.7628 0.4698 0 +HILS1 0.4803 0 0 0 0 0 3.7298 0 0 0 0 0 0 0 0 0 0 0 0 0 +HINFP 352.546 205.341 300.992 408.211 216.278 549.539 330.709 266.204 372.622 413.056 242.366 290.048 288.462 274.93 286.981 151.711 275.77 244.851 211.417 279.741 +HINT1 2962.06 3046.3 5858.69 3290.47 6387.17 7991.18 2585.99 2751.46 5221.46 5125.54 9342.24 8976.33 5832.01 5775.85 6061.53 4600.37 5341.81 6179.25 7172.19 3497.41 +HINT2 1482.23 471.883 853.799 1069.71 961.792 2391.9 411.521 205.008 1164.9 929.932 571.247 2351.94 2086.54 1163.05 1262.93 866.79 1000.89 770.404 716.937 751.293 +HINT3 585.014 1378.2 897.645 381.875 1478.73 777.377 413.179 856.75 1239.96 225.465 786.26 1028.52 451.923 752.582 817.412 723.404 390.005 515.637 2638.48 906.034 +HIP1 151.297 2261.17 511.332 426.026 715.895 2360.21 788.645 729.258 543.34 207.642 447.201 882.281999999999 210.973 898.156 804.514 812.211 719.768 590.389 1563.07 1203.02 +HIP1R 2384.25 636.559 1189.16 1211.46 1037.24 2328.12 477 1103.58 640.063 444.692 810.433 1242.72 3868.21 1796.7 814.725 1020.35 1912.99 1079.33 761.569 772.414 +HIPK1 1483.19 2281.3 1835.58 958.172000000001 1316.11 988.769 782.014 1041.7 1372.62 561.435 809.796 866.505 343.326 1101.26 1791.75 1180.39 1052.66 1057.21 1453.61 1329.74 +HIPK2 1162.82 3330.56 3906.38 1962.82 2812.17 1457.28 2212.18 1453.76 2251.06 2439.12 1009.54 1763.96 601.244 1681.63 1628.91 2676.23 885.319 1691.08 2530.89 410.345 +HIPK3 73.487 1042.41 416.531 79.0085 135.243 167.268 126.399 267.564 146.406 121.644 68.0662 182.039 13.009 159.475 87.5991 147.086 59.3485 89.2449 216.115 413.793 +HIPK4 35.5427 2.4158 8.8876 6.9713 3.912 14.4404 4.9731 9.1795 8.4567 6.6837 5.7252 1.8204 12.4434 3.8614 13.9729 5.5504 7.1397 11.4416 4.6981 1.2931 +HIRA 929.395 437.752 526.737 505.035 457.145 315.291 810.613 287.623 872.648 572.129 254.459 484.83 510.181 469.161 734.113 174.838 1185.19 446.224 937.75 470.698 +HIRIP3 1385.21 417.528 754.851 1074.36 393.435 356.599 392.043 664.321 1088.79 450.485 639.313 717.233 611.425 722.077 1160.82 1286.77 989.29 1200.61 337.327 408.621 +HIST1H1A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.4698 0 +HIST1H1B 0 1.2079 0.5925 2.3238 0 0.4011 0.8288 0 1.0571 4.4558 0.6361 0 0.5656 0.7723 1.0748 0.9251 5.3548 0 5.6378 0.431 +HIST1H1C 12055.2 481.143 481.114 1831.91 146.421 362.214 1393.7 50.3171 1030.13 5318.03 143.13 664.442 710.973 313.544 1123.2 412.581 1410.53 1021.36 1105 220.69 +HIST1H1D 4.3228 3.6237 2.37 6.9713 0.5589 0.8022 8.7029 0.68 4.2283 8.4661 0 1.2136 0 2.703 3.2245 0 4.9085 3.0511 4.2283 1.7241 +HIST1H1E 0.9606 2.8184 2.9625 8.5205 0 2.8079 9.9461 0.34 8.9852 33.8643 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6.7063 21.6606 31.0816 10.8794 56.0254 30.7452 12.7226 9.1019 27.7149 35.1385 60.1908 2.7752 29.0049 39.6644 136.246 31.4655 +HIST1H3F 0 0 0.5925 0.7746 0 1.2034 0.8288 0 0.5285 1.3367 0 0 0.5656 1.9307 0.5374 0 1.3387 0 3.2887 1.2931 +HIST1H3G 0 3.221 0.5925 9.2951 0 4.4124 1.2433 0.34 4.7569 81.0961 0 0 7.9186 1.5446 4.8368 0 12.0482 3.8139 2.8189 2.1552 +HIST1H3H 115.754 10.4684 36.1428 38.7297 0.5589 22.4629 23.2076 3.7398 45.9831 59.2626 5.0891 12.1359 72.9638 18.9207 41.9186 7.4006 57.1174 12.9672 33.8266 8.6207 +HIST1H3I 0 0.4026 0 0 0 0 0 0.34 0.5285 0 0 0 0 0 0 0 0 0 0 0.431 +HIST1H3J 0 0.4026 2.37 2.3238 0.5589 0 0.4144 0 0.5285 4.4558 0.6361 0 0 0 1.6123 0 0.4462 0 5.168 0 +HIST1H4A 1.4409 0 0 5.4222 0 0.8022 0 0.34 1.5856 0.4456 0.6361 0 0 0 1.6123 2.7752 0 1.5256 0.4698 0 +HIST1H4B 2.4015 0 0 0.7746 0 0.4011 0 0 1.0571 2.2279 1.9084 1.2136 1.1312 0.3861 2.6871 1.8501 0.4462 0 0.4698 0.8621 +HIST1H4C 2.4015 0.8053 1.185 1.5492 1.1177 0.8022 0 0 2.6427 2.2279 0 0.6068 1.1312 0.3861 3.7619 0 0.4462 0 0.4698 0 +HIST1H4D 2.8818 0 0 3.873 0 2.4067 0.4144 0.34 2.1142 4.9014 4.4529 1.2136 2.8281 0.3861 4.2993 0.9251 0 2.2883 2.8189 1.2931 +HIST1H4E 15.8501 4.4289 0 6.9713 1.6766 2.0056 6.2163 0.34 3.6998 11.1396 1.9084 0.6068 0.5656 0.3861 3.7619 3.7003 2.2311 2.2883 2.8189 1.2931 +HIST1H4F 0 0 0 0 0 0.4011 0 0 0 0 0.6361 0 0 0 0 0 0.4462 0.7628 0.4698 0 +HIST1H4G 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +HIST1H4H 139.289 59.1867 35.5503 127.808 9.5006 16.0449 125.155 10.1994 72.9387 335.079 15.9033 15.7767 31.1086 33.594 99.9597 12.951 93.7082 45.0038 229.269 3.0172 +HIST1H4I 0 0.8053 2.37 1.5492 0 0.8022 1.6577 0.68 0.5285 2.6735 1.2723 1.2136 0.5656 1.5446 1.6123 0 3.5698 2.2883 1.4094 0 +HIST1H4J 2.8818 9.6631 94.8008 144.849 78.2399 5.2146 17.8201 27.5384 17.9704 42.3304 110.051 28.5194 1.6968 41.3167 88.6739 236.818 24.0964 54.9199 72.8212 0 +HIST1H4K 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +HIST1H4L 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +HIST2H2AA3 2912.1 495.638 293.29 1811.77 77.6811 192.94 805.636 154.691 670.719 4724.96 260.178 628.641 882.353 724.394 986.162 234.043 2093.26 942.792 337.327 79.7414 +HIST2H2AB 0.4803 1.2079 0 2.3238 0 0.4011 0 0.68 0.5285 1.7823 0 0 0.5656 0 1.0748 0 1.3387 0 0 0 +HIST2H2AC 186.359 6.0395 11.2576 62.7421 19.56 40.9146 16.5769 20.3988 20.6131 22.7247 26.7176 17.5971 32.8054 3.4752 34.3947 37.0028 13.3869 13.73 6.1076 12.069 +HIST2H2BA 28.3381 31.8078 21.3302 24.0124 8.9417 18.0505 10.3605 27.5384 20.0846 21.8336 7.6336 15.7767 2.2624 40.5445 46.7553 1.8501 71.8429 26.6972 31.0078 21.5517 +HIST2H2BE 6520.17 1302.91 709.821 864.446 79.3577 614.12 937.422 391.317 753.171 2437.34 150.127 846.481 687.783 881.938 2121.19 285.846 2728.69 662.853 800.564 95.6897 +HIST2H2BF 161.724 242.371 63.9905 268.009 48.0617 92.1781 52.5694 138.858 118.922 159.073 125.197 114.684 44.6833 365.472 489.05 31.4524 290.942 263.921 53.4273 131.465 +HIST2H3C 2.4015 8.0526 1.7775 8.5205 0 2.8079 2.901 1.3599 3.1712 26.735 1.2723 1.2136 2.2624 0.3861 2.1497 0 4.0161 3.0511 0.4698 0 +HIST2H3D 2.8818 7.65 1.7775 3.0984 0 1.6045 0 2.7198 1.0571 3.1191 0 0.6068 0.5656 2.703 5.9116 0 0.8925 2.2883 1.8793 3.0172 +HIST2H4A 409.222 576.567 92.4308 136.328 82.7108 81.8291 615.417 84.9951 96.1945 4182.24 69.9746 210.558 360.294 115.455 243.45 70.3053 290.495 241.037 127.79 27.1552 +HIST3H2A 168.108 487.585 201.452 123.16 180.511 359.808 78.7402 239.006 177.061 40.9937 111.959 563.107 393.665 184.574 766.358 312.673 455.154 294.432 52.1494 63.3621 +HIST3H2BB 4.3228 15.3 7.7026 6.1967 5.5886 8.8247 2.4865 3.7398 6.871 2.6735 2.5445 9.1019 3.9593 7.3366 15.5851 12.0259 13.8331 9.1533 2.8189 0.431 +HIST3H3 0 0 0 0.7746 0 0.4011 0 0 0.5285 0 0 0.6068 0 0 0 0 0 0.7628 0 0.431 +HIST4H4 22.5744 16.1052 24.2927 17.0411 3.912 2.8079 11.6038 9.5194 28.5412 10.2484 8.2697 23.665 8.4842 9.2673 22.5715 2.7752 32.1285 9.1533 7.0472 4.7414 +HIVEP1 586.455 421.957 528.514 404.338 382.817 434.416 268.545 422.935 577.696 196.948 307.888 189.927 246.041 283.039 582.561 234.968 270.861 192.982 309.138 241.379 +HIVEP2 745.437 800.832 226.337 246.321 473.911 251.103 1272.69 583.746 561.839 360.922 210.56 436.893 349.548 211.603 111.783 480.111 215.975 509.535 742.307 582.328 +HIVEP3 135.447 265.333 129.759 123.16 33.5314 239.872 106.092 407.636 107.294 194.72 279.262 70.3883 241.516 154.069 386.941 103.608 153.057 342.487 146.582 151.293 +HJURP 19.6926 96.6313 30.8103 415.957 6.7063 935.419 292.167 44.8774 385.307 1236.05 204.835 14.5631 493.778 14.6732 277.308 29.6022 240.964 57.2082 112.755 592.241 +HK1 838.617 3199.3 2962.52 2453.91 1545.24 928.600000000001 2634.07 3017.66 1235.2 4489.7 2116.41 2777.91 2185.52 2109.08 1773.48 1612.4 2563.59 1636.92 1292.93 2076.29 +HK2 153.218 27.3789 1886.54 474.826 7752.46 20.4573 1946.95 16.999 5572.94 1363.48 255.089 2972.69 193.439 33.9801 34.3947 5174.84 1146.81 115.179 1045.34 282.759 +HK3 36.5034 19.7289 12.4426 113.865 177.716 14.8416 600.497 10.8794 48.6258 233.04 31.8066 27.3058 69.5701 6.1782 31.1702 10.1758 28.5587 50.3432 22.0813 4.3103 +HKDC1 0 3.6237 4.74 6.1967 18.4423 8.8247 13.6759 1.6999 17.9704 4.0102 1.2723 10.3155 1.6968 0.7723 6.449 0 1.7849 3.0511 10.8057 3.4483 +HKR1 386.647 441.283 1091.99 1530.6 631.508 721.62 622.876 1079.44 1065.54 363.596 1075.7 842.233 666.855 1017.09 1473.6 765.957 882.195 942.792 443.505 578.448 +HLA-A 25050.4 9378.86 35415.8 24167.3 25626.8 12959.4 22755.8 8983.89999999999 49208.5 46041.7 62746.6 11878 22726.2 21295.4 2571.01 52328.4 10993.6 112862 71403.5999999999 6305.98 +HLA-B 6686.58 7261.4 20846.9 11582.5 24507.1 11121.9 33366.7 5547.48 61802.9 51884.8 46396.8 11497.6 16775.8 11231.5 9244.8 18610.6 21439.5 85295.4 112341 3785.88 +HLA-C 3774.04 4673.77 13155.8 4772.25 12441.2 9858.41000000001 23558.7 3532.03 46356.7 28076.8 29145.2 6464.75 21332.3 9613.33 3941.81 22222.9 20018.3 34815.2 64791.3 8185.24 +HLA-DMA 604.707 239.968 545.104 763.749 3245.84 442.84 3281.39 140.412 556.554 3242.06 1057.25 1350.73 1207.58 407.761 420.261 1234.04 668.452 2000.76 497.064 334.914 +HLA-DMB 556.676 269.762 201.452 195.972 1490.47 2152.03 2169.91 127.833 245.772 859.976000000001 447.837 1177.79 2520.36 389.613 431.546 493.987 267.738 1158.66 241.015 517.672 +HLA-DOA 164.745 134.076 20.7377 49.574 282.781 12.8359 1143.8 70.7159 50.74 274.479 134.224 777.913 60.5204 35.5247 133.28 411.656 37.037 786.423 67.1835 6.8966 +HLA-DOB 3.3622 3.6237 0 63.5167 4.9906 2.848 23.8293 3.3998 1.3002 14.0671 5.1908 42.6881 3.7783 1.4287 3.7619 15.7262 8.6881 83.1426 0 0 +HLA-DPA1 3979.83 1232.45 1790.55 927.188 5199.14 196.952 7614.17 721.438 608.88 5821.54 3372.14 10316.1 4414.59 506.613 1140.4 6287.7 1004.91 12313.5 1234.67 223.276 +HLA-DPB1 1895.29 735.203 492.964 640.589 2885.28 198.155 6553.67 555.188 447.674 3707.25 1752.54 4401.09 1463.8 310.068 712.616 2719.7 576.528 8193.75 1032.18 95.6897 +HLA-DPB2 1.4409 0.4026 18.3676 0.7746 8.3829 0.8022 22.3788 1.3599 0 1.3367 0 4.2476 0 1.1584 2.1497 1.8501 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576.11 440.682 811.069 861.65 304.864 483.83 468.628 784.459 385.096 877.956 444.914 900.862 +HOPX 453.41 98.2418 1101.47 83.6561 23.472 36.1011 126.399 45.8973 51.797 208.533 77.6081 169.903 82.0136 75.2968 53.2044 501.388 76.7515 955.759 54.9683 15.5172 +HORMAD1 0 0 1.185 0 0.5589 0 1.2433 0 0 0.4456 1.9084 1.2136 0 0 0 0 0 0.7628 0 1.7241 +HORMAD2 0 0 0.5925 0.7746 0 0 0 0 0 0 0 0 2.8281 0 0.5374 0 0.8925 0 0 0 +HOTAIR 208.934 1.2079 1.7775 106.894 0 16.446 2.0721 20.0588 20.0846 8.9117 11.4504 0 4.5249 0.3861 0 0 170.906 0.7628 0 13.3621 +HOXA10 1027.86 252.449 409.421 364.059 51.4148 933.414 234.148 480.052 346.195 178.679 405.216 5.4612 239.819 727.483 377.805 15.7262 809.46 658.276 264.036 829.31 +HOXA11 1073.97 170.715 109.021 242.448 26.2663 264.741 31.0816 188.349 209.302 58.3714 175.572 0 364.253 386.138 190.246 7.4006 460.062 218.917 101.95 392.241 +HOXA11AS 303.074 227.889 90.6532 366.383 39.12 146.009 7.4596 83.6351 161.734 24.0615 274.173 0 367.081 152.911 194.545 4.6253 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714.95 805.871 716.807 503.108 517.79 431.29 726.746 334.606 337.379 501.131 776.523 634.153 489.362 477.019 466.056 700.493 765.517 +HPS6 557.157 591.464 542.142 852.053 622.008 776.976 505.18 831.932 621.036 471.427 610.051 922.33 585.407 590.791 328.362 734.505 431.058 1028.22 535.119 606.034 +HPSE 35.0624 7.65 4.1475 3.873 277.193 21.6606 114.795 9.1795 7.9281 280.717 0.6361 8.4951 20.9276 4.6337 12.3606 11.1008 20.9728 3.8139 9.3963 1.7241 +HPSE2 0 0 0 0 0 1.2034 0.8288 0 1.0571 0 0 0 0 0 0 0 0 1.5256 0 0.431 +HPVC1 0 0 0 0 0 0 0 0 0 0 0 0.6068 0 0 0 0 0 0 0 0 +HPX 5.2834 11.6763 95.3933 68.9388 5.5886 2.4067 9.5317 4.7597 13.7421 3.1191 12.0865 6.6748 559.955 13.901 8.5987 1.8501 9.817 9.1533 19.7322 128.017 +HPYR1 0.4803 0 0.5925 0.7746 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +HR 9.1258 32.2104 151.681 319.907 2.2354 5.6157 3.7298 673.161 2.1142 6.2382 19.7201 5.4612 4.5249 134.762 4.8368 23.1267 146.81 89.2449 1287.29 17.2414 +HRAS 1200.29 364.783 507.184 1292.8 561.092 566.386 1154.16 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27.7149 33.594 16.6599 52.729 242.303 98.3982 25.37 5.1724 +KIF22 1303.07 450.543 1262.04 3599.54 341.461 1221.42 1108.58 1784.9 2939.22 1670.94 1828.88 1249.39 1554.86 1212.47 2363.03 1909.34 2651.94 1136.54 881.372 1525 +KIF23 63.8809 167.897 106.058 333.075 24.5897 711.191 267.716 82.9552 642.706 872.897 308.524 45.5097 337.67 84.9503 297.192 44.4033 361.892 180.778 243.364 726.293 +KIF24 35.0624 85.7603 103.688 478.699 18.4423 314.513 78.7402 41.1376 321.353 176.897 204.835 261.547 79.7681 323.197 379.96 156.337 167.787 228.07 149.401 151.297 +KIF25 0.4803 0 1.185 0 17.3246 1.6045 0.4144 1.3599 0.5285 0 0 0 0.5656 0 1.0748 0 0 0.7628 0.9396 1.2931 +KIF26A 114.793 259.697 657.68 2474.05 108.418 197.353 35.2259 1721.66 782.241 31.6364 202.29 135.922 144.796 171.831 2996.1 81.4061 1307.01 35.0877 459.948 81.8966 +KIF26B 16.3305 175.144 16.5901 14.7173 3.912 15.6438 309.159 41.4776 3.6998 6.2382 32.4427 15.7767 24.8869 10.8119 1.0748 26.827 127.175 3.0511 16.4435 54.7414 +KIF27 18.2517 32.2104 42.6603 60.4183 14.5303 17.6494 14.5048 16.3191 35.9408 65.0551 14.631 86.165 8.4842 49.0395 26.3335 36.0777 58.0098 30.5111 6.1076 14.6552 +KIF2A 153.218 407.059 294.475 185.902 401.259 570.397 510.982 336.92 376.85 441.127 251.908 306.432 364.253 270.296 601.37 153.561 336.457 140.351 553.441 373.276 +KIF2B 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +KIF2C 40.8261 97.8392 61.6205 426.026 19.56 801.444 837.961 74.1157 569.767 1885.71 223.919 52.1845 957.013999999999 20.4653 483.139 31.4524 329.764 63.3105 122.622 569.828 +KIF3A 869.837 2532.55 1129.91 931.836 482.293 1204.57 130.129 1256.91 579.281 237.05 870.865 679.005 391.968 1454.58 791.616 919.518999999999 1663.54 934.401000000001 927.884 1150 +KIF3B 794.428 3202.52 1070.06 309.063 1630.74 951.865 1217.99 1232.43 718.816 822.992 835.242 2170.51 1383.48 2074.33 1690.72 982.424 1688.09 824.561 513.977 1556.47 +KIF3C 236.311 1361.29 660.643 337.723 3406.79 1753.31 351.015 377.718 347.252 268.241 529.898 129.854 1174.21 782.315 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9.1246 291.418 8.3829 26.4741 495.669 262.349 17.7431 158.521 46.1896 94.5752 703.134 219.187 22.0341 51.8039 338.157 34.3249 17.3831 145.323 +KIF9 85.0144 131.66 95.9858 26.3517 86.0639 45.728 93.8707 56.0967 92.648 47.6774 62.9771 197.815 122.738 161.95 206.906 61.9796 208.875 54.1571 74.7005 81.8966 +KIFAP3 917.867 2181.05 1866.39 486.445 977.998999999999 505.415 1501.45 1024.7 634.778 446.92 538.168 1208.74 867.081 1022.88 970.575999999999 1517.11 896.475 1506.48 582.57 762.069 +KIFC1 37.464 148.973 69.3231 394.268 12.2948 1212.19 594.281 52.017 909.091 1711.48 247.456 42.4757 672.511 36.6831 254.736 40.7031 444.444 94.5843 190.275 1570.26 +KIFC2 1254.77 194.813 433.82 5719.16 267.804 227.838 77.7331 551.965 227.315 628.535 743.333 1065.55 138.371 423.678 185.371 779.066 664.793 746.949 42.7531 1137.82 +KIFC3 196.446 1352.44 2367.06 7098.37 1170.25 2172.48 514.298 1611.85 1295.45 2802.72 3737.91 729.369 3753.39 3743.6 2191.05 599.445 456.939 1888.63 416.256 4010.78 +KILLIN 17.7714 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136.638 +KITLG 578.77 161.052 61.6205 137.878 24.0308 257.922 1298.38 142.792 265.856 575.248 204.835 1077.06 82.5792 125.495 621.792 611.471 423.918 262.395 233.968 352.155 +KL 11.0471 49.5235 15.4051 13.1681 112.33 16.446 13.2615 65.6162 9.5137 7.1293 15.2672 14.5631 1.6968 13.901 21.4967 46.2535 15.618 9.1533 24.9002 13.7931 +KLB 6.7243 4.4289 5.925 2.3238 3.3531 1.6045 2.0721 0.68 2.1142 0 1.9084 1.8204 2.2624 2.3168 2.1497 3.7003 3.1236 2.2883 37.5852 0.431 +KLC1 2211.5 2261.37 1846.09 1809.45 681.939 1152.03 2540.97 1616.34 1588.65 1515.87 1669.74 1123.54 1994 1433.29 1101 1794.63 1703.4 998.757 2069.68 1298.98 +KLC2 1423.15 1445.85 1440.38 1274.98 492.353 1360.21 699.544 901.968 1089.32 818.091 617.048 545.51 639.14 920.552 607.819 401.48 750.112 623.951 702.373 1650.43 +KLC3 3.8425 9.2605 50.3629 277.498 60.9154 103.089 5.3875 94.5349 258.05 5.347 519.459 12.7427 14.7059 53.6731 40.3063 2.7752 32.1285 139.763 28.1889 81.0345 +KLC4 1133.17 637.895 827.83 691.758 1095.43 666.402 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274.746 1218.21 249.428 313.836 1159.05 +KLF5 58.5975 15.7026 23.1077 60.4183 7.824 5.2146 498.55 23.7986 29.5983 1686.98 17.1756 7.2816 5.6561 20.8514 19.347 10.1758 20.5266 35.0877 16.9133 180.603 +KLF6 1322.29 2081.6 1183.23 971.34 1499.41 3548.34 2884.38 3657.85 2458.77 1758.72 698.473 875 618.213 2354.67 2744.05 468.085 1105.31 900.076 659.62 5321.55 +KLF7 68.2037 64.4209 46.2154 29.4345 53.0914 13.2371 143.39 39.4377 74.5243 63.7184 22.2646 37.6214 18.6652 16.9901 54.8166 44.4033 24.5426 24.4088 51.2098 68.9655 +KLF8 14.4092 74.4866 31.4028 41.828 74.8868 11.6326 17.4057 15.6391 97.7801 4.4558 41.9847 63.7136 5.6561 18.5346 12.3606 62.9047 7.5859 40.4272 63.4249 3.8793 +KLF9 1769.93 987.652 583.025 1567.78 2603.71 418.773 2140.49 2333.62 1869.98 1567.56 1000.64 4006.07 415.724 1744.96 1394.6 1496.76 1965.19 736.842 1396.76 345.69 +KLHDC10 137.848 1524.76 956.303 205.267 300.106 498.195 204.31 574.567 658.034 233.486 258.27 608.01 78.6199 671.107 590.085 236.818 409.192 291.381 787.879 287.069 +KLHDC1 74.928 68.8498 97.1708 213.013 57.0034 19.655 27.3518 88.0549 75.5814 34.3099 82.0611 86.165 28.8462 83.7919 52.1295 65.6799 109.326 70.9382 135.307 16.8103 +KLHDC2 1195.49 1587.97 1921.49 975.988 1115.48 2035.7 587.236 2140.18 1376.32 544.057 1136.13 1109.22 2751.7 1326.38 1503.16 770.583 1623.38 744.47 1382.19 807.328 +KLHDC3 2652.74 1755.87 2748.63 3987.61 4839.14 5344.56 3232.49 3490.92 4196.09 2290.74 4378.5 1894.42 7577.49 1325.61 2704.82 3589.27 2508.26 2479.02 3358.23 2824.57 +KLHDC4 624.246 274.968 481.369 550.891 293.959 149.254 362.818 231.146 518.684 449.932 448.69 571.602 479.802 506.891 330.329 302.868 397.22 422.548 231.553 193.293 +KLHDC5 600.865 733.995 1190.34 896.979 695.777 555.154 654.787 778.895 674.419 547.176 606.87 853.155 481.335 790.809999999999 595.459 673.451 990.629 837.529 865.398000000001 1069.4 +KLHDC7A 0 4.8316 1.185 0 0 0 0 0 0 4.9014 0 0 0 0.3861 0 0 0 20.595 0 0 +KLHDC7B 5.2834 689.303 1.185 3.873 112.889 0 171.571 1.3599 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2666.26 1595.02 2545.03 3995.16 1787.23 2677.82 2512.59 3066.48 1591.81 +LAS1L 820.365 607.569 1767.44 1875.29 425.29 377.056 793.203 572.187 1451.9 1141.14 1563.61 1208.13 532.805 1349.94 1433.83 1057.35 1695.67 1347.83 1028.89 413.793 +LASP1 1484.15 2631.19 3245.15 1576.3 1854.85 2538.31 8632.82000000001 2253.39 2889.01 6526.01 3972.01 2933.86 4462.67 2355.05 2895.07 4655.87 1546.18 1977.12 2766.27 4187.93 +LASS1 311.239 102.228 51.8086 687.049 1.1177 16.4019 82.7103 2150.98 82.1564 9.3572 78.5369 311.59 43.4615 59.6737 130.222 48.2054 327.367 300.709 12.6756 14.0647 +LASS2 6540.83 15125.2 12570 8470.18 13931.7 25155.2 3062.16 7584.96 10408.6 10391.4 10133 13362.3 4640.84 13419.1 18080.3 15639.2 5182.95 13782.6 12459.5 8488.79 +LASS3 0 0.8053 0 12.3935 0.5589 1.2034 0.8288 0 5.814 0.4456 0 1.2136 0 1.9307 0.5374 0.9251 1.3387 0.7628 0 0 +LASS4 268.492 313.246 104.873 1116.96 309.048 2466.11 374.637 1448.32 1149.05 134.566 396.31 574.636 257.919 327.831 51.5921 962.072 389.112 348.589 403.571 2608.62 +LASS5 361.191 1350.02 719.301 1286.6 805.312 613.317 1791.13 1336.8 920.719 1241.39 878.499 816.141 1492.08 610.484 755.609 1127.66 961.177999999999 855.835 486.728 857.759 +LASS6 518.045 1905.86 308.713 183.532 63.162 681.629 556.958 410.094 392.685 691.665 337.029 196.851 859.774 249.055 263.689 320.102 336.506 403.326 725.605 1258.74 +LAT 113.602 30.0523 96.7383 194.043 43.7473 32.0979 157.588 26.2363 75.6395 180.657 78.6705 72.8883 14.1403 47.8579 53.4838 226.91 115.181 243.196 19.4738 14.1681 +LAT2 209.414 31.0025 39.1053 151.82 72.0925 34.4966 411.106 32.9781 58.1395 442.464 116.412 259.709 225.113 68.7325 121.456 125.809 46.8541 399.695 51.6796 28.8793 +LATS1 62.44 523.419 98.3558 45.701 122.948 115.122 165.769 109.134 136.364 92.6813 48.9822 87.9854 40.724 70.6632 77.3881 83.2562 41.9456 51.106 196.852 178.017 +LATS2 1630.16 1153.94 551.029 378.002 850.58 385.88 455.035 525.949 718.288 473.655 498.092 415.655 419.118 450.236 534.731 342.276 359.215 712.433 1900.87 1598.28 +LAX1 1.9212 18.9236 3.555 14.7173 0.5589 2.4067 9.5317 0.68 2.1142 5.347 2.5445 6.6748 2.8281 0.7723 2.6871 2.7752 8.9246 21.3577 2.8189 0.431 +LAYN 50.9126 101.463 150.496 48.7994 167.098 85.0381 82.8844 153.331 47.0402 61.0449 42.6209 64.9272 309.955 89.5839 87.0617 67.5301 58.9023 73.2265 104.299 70.2586 +LBH 2900.1 444.101 181.899 733.54 65.3862 5703.17 6488.6 783.314 1380.55 1499.39 1708.02 876.82 1313.35 739.84 1533.25 1205.37 430.165 3512.59 568.006 535.345 +LBP 0 0.4026 0 4.6476 0.5589 0 12.4327 0 0 0 6.3613 0.6068 0 0.7723 0.5374 13.876 0.4462 3.0511 0.4698 0.431 +LBR 278.098 297.544 173.604 258.714 363.257 363.016 1104.85 158.771 538.055 1072.07 276.718 236.044 430.995 117.386 148.327 261.795 229.362 392.83 262.626 681.034 +LBX1 0 0.4026 0 1.5492 0 0 2.0721 0 0 0 0 0.6068 0 0 0 0 0 0 0 0 +LBX2 1.9212 4.4289 3.164 5.0658 39.4441 46.1853 11.1894 0.5202 3.1712 40.7709 2.1883 2.4272 29.9774 2.3168 15.8592 4.6253 1.3387 3.0511 1.4094 4.5 +LBXCOR1 4.3228 5.6368 7.7026 8.5205 7.824 2.0056 9.5317 6.7996 14.7992 2.6735 17.1756 3.034 2.8281 2.3168 1.0748 4.6253 5.3548 7.6278 1.8793 3.8793 +LCA5 250.24 132.063 57.473 44.9264 58.1211 20.4573 92.4161 210.108 54.4397 120.308 102.417 67.3544 23.19 188.821 45.6805 123.959 87.9072 99.1609 115.105 214.655 +LCA5L 36.5034 31.8078 74.6556 36.4059 195.6 47.3325 36.4691 59.4965 57.0825 43.6671 85.2417 64.3204 75.7919 109.277 133.28 76.7808 153.503 61.0221 136.716 17.2414 +LCAT 268.17 73.009 287.43 893.501000000001 105.624 90.3851 317.447 90.8529 181.38 284.799 216.285 55.3095 296.471 209.885 106.946 200.111 182.361 333.242 31.0078 162.569 +LCE1A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE1B 0 0 0 0 0 0 0 0 0 0 0 1.2136 0 0 0 0 0 0 0 0 +LCE1C 0 0.4026 0 0 0 0 0 0 0 2.6735 0 0 0 0 0 0 0 1.5256 0 0 +LCE1D 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE1E 0 0 0 0 0 0 0 0 0 0 0 0.6068 0 0.7723 0 0 0 0 0 0 +LCE1F 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE2A 0 0 0 0 0 0 1.6577 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE2B 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE2C 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE2D 0 0 0 0 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE3A 0 0.4026 0 0 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE3B 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE3C 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE3D 0 0 0 0 0 0 0.4144 0 2.6427 0 0 0 0 0 0 0 0 0 0 0 +LCE3E 0.4803 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE4A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCE5A 0.4803 0 0.5925 1.5492 0.5589 0.4011 0 0.34 2.1142 0.8912 0 0 0 0 0 0 0.4462 1.5256 2.8189 0.431 +LCE6A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCK 14.8895 28.1841 8.8876 9.2951 30.1783 5.2146 213.013 16.3191 8.9852 217.445 12.7226 84.9515 3.9593 19.3069 7.5238 52.729 44.6229 298.246 20.6718 0 +LCLAT1 177.714 405.449 485.854 315.26 171.569 415.564 295.068 357.659 290.169 459.842 335.878 373.18 478.507 327.059 528.819 547.641 180.277 355.454 451.962 530.172 +LCMT1 1035.06 611.998 1634.72 1255.62 1312.2 1484.96 605.056 1068.9 1797.04 454.049 1698.47 1099.51 1643.67 1649.58 1886.34 1304.35 1769.3 1443.94 1003.05 568.103 +LCMT2 231.508 171.923 272.552 182.029 212.924 186.522 157.066 277.084 481.501 413.501 404.58 243.932 263.575 278.405 241.838 231.267 302.99 567.506 568.945 123.707 +LCN10 9.1258 18.9236 268.405 34.8102 27.384 6.418 4.9731 0.34 1094.74 18.2689 0 35.3944 0 3.4752 1.6123 24.9769 390.134 11.4416 1702.88 3.4483 +LCN12 35.0624 8.8579 72.2856 16.2665 176.599 113.117 0.4144 0.34 11.6279 1.7823 0 25.4854 70.1357 3.4752 1.6123 5.5504 68.7193 1.5256 20.6718 111.638 +LCN1 0 0 0 0 0 0 0.4144 0.34 0 2.2279 1.2723 0 0.5656 0 1.0748 2.7752 0 0 0 0 +LCN15 0 0 0 0 0 0.4011 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCN2 2.4015 439.27 509.554 934.16 0 1.6045 0.8288 0 85.0951 15.5954 8.2697 520.631 1.6968 6.1782 2.1497 6.4755 163.32 74.7521 486.728 2.1552 +LCN6 0.4803 0 0 0.8211 0.5589 8.4236 0 0 1.982 0 1.2723 1.6201 0 3.4752 5.3742 4.6253 35.5689 0.7628 3.0162 0.431 +LCN8 0 0 0 0.7746 0 0 0 0 0 0 0 0 0 0 0 0 4.0161 0 0 0 +LCN9 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LCNL1 0 0.4026 0 0 59.7977 0 1.6577 0 0 0 0 0 0 0.3861 0 0 0.4462 1.5256 0 0 +LCOR 13.8232 142.559 31.1598 17.0411 7.2651 36.8472 10.8952 17.39 18.4302 14.7042 9.542 22.9915 7.3529 14.7929 5.5945 11.1008 4.0161 17.4676 31.7125 68.944 +LCORL 215.49 113.22 117.665 174.369 68.4655 68.3795 83.3485 351.672 216.406 62.6668 167.074 85.5643 40.1357 179.067 73.5832 145.8 258.688 443.44 307.757 142.974 +LCP1 1117.68 5452.42 288.55 324.555 1945.94 179.302 3541.65 397.777 630.55 1941.85 786.896 1567.35 549.208 2017.57 1398.9 1065.68 729.585 3161.71 5062.72 1324.57 +LCP2 127.281 96.6313 41.4753 119.287 148.097 52.9483 736.013 66.6361 93.0233 453.158 107.506 268.204 125 41.7029 78.463 256.244 62.4721 625.477 91.6138 11.2069 +LCT 0 0 0.5925 8.5205 0 1.2034 1.2433 0 0 0.4456 1.9084 0 0 0 0 0 4.4623 0 0.4698 1.2931 +LCTL 0 0 0 0 0 0.4212 0.9242 0.7514 0.5708 0.9714 2.8372 0.6796 0.6222 1.6874 1.1823 0 0 4.0656 0.498 1.431 +LDB1 555.716 2869.55 987.113 2006.2 747.75 1989.57 933.278000000001 1596.21 913.319 442.464 2298.98 4378.64 355.769 857.612 687.895 2506.94 546.185 1405.8 1089.97 713.362 +LDB2 461.095 1741.38 230.484 449.264 574.505 1141.6 706.175 4288.17 425.476 78.4226 926.845 270.024 385.747 1332.56 1076.99 691.027 2937.08 413.425 552.032 1327.59 +LDB3 53.7944 21.742 9.4801 17.0411 45.2674 12.8359 10.3605 4.7597 18.4989 7.1293 5.7252 30.3398 12.4434 5.7921 4.8368 71.2303 9.3708 12.2044 21.6115 4.3103 +LDHA 12727.2 3690.11 39832.3 9919.44 10228.2 17327.3 33160.4 4300.07 30558.1 33132.2 18934.5 8223.3 27392.5 9160.73 10758.6 9730.8 24432.4 6409.61 10655.9 36109.1 +LDHAL6A 0 0.4026 1.7775 0 1.1177 1.2034 0 1.3599 0.5285 0 0 27.9126 0 2.3168 0 0 0.4462 0 0.9396 0.431 +LDHAL6B 0.4803 0.4026 0 2.3238 0.5589 0.8022 0.4144 0.34 0.5285 0.4456 1.9084 0 0 0 0 0 0 0.7628 0 1.2931 +LDHB 16385.7 13617 20625.1 12584 17018.9 19395.5 6493.99 27432.3 19753.2 9596.97 27771.6 25018.2 26709.8 25391.6 19111.1 16933.4 29194.6 21916.9 33406.2 24783.6 +LDHC 0.9606 1.2079 0.5925 0 20.6777 0.4011 2.4865 38.7577 0.5285 0 0 93.4466 0.5656 0 1.0748 0 0 0.7628 1.4094 0.431 +LDHD 19.2123 155.415 1086.06 44.9264 59.2388 40.5134 40.6133 13.5992 326.11 30.2997 161.578 2661.41 83.1448 1008.59 289.131 586.494 527.889 46.5294 142.354 484.483 +LDLR 8531.22 10610.1 22062.5 2247.1 20577.7 84194.8999999999 116.867 21911 30399.6 1099.7 24942.1 4682.04 25974.5 24639.8 7362.09 662.35 7505.13 11237.2 24059.7 52301.3 +LDLRAD1 0 4.0263 15.4051 0 170.451 4.4124 0 0 0.5285 0 0 0.6068 2.2624 10.4257 5.9116 4.6253 0.4462 0 14.0944 7.3276 +LDLRAD2 129.962 158.117 97.5441 455.647 158.441 197.144 237.978 158.645 215.55 327.562 261.889 63.1129 793.626 212.356 131.275 339.167 123.708 324.333 114.762 113.328 +LDLRAD3 195.485 124.815 645.83 210.689 134.685 142.8 224.202 162.171 720.93 395.678 192.112 199.636 54.2986 327.831 537.955 231.267 318.161 160.946 186.516 207.759 +LDLRAP1 665.706 473.091 1494.3 1408.99 1211.6 1931.01 628.264 644.263 1858.88 845.717 1349.24 780.947 703.62 1552.66 1797.66 1012.03 715.306 1016.02 1415.08 381.897 +LDOC1 2461.58 496.041 2302.47 1849.73 352.08 601.284 58.0191 1181.09 1941.33 553.86 1693.38 1423.54 1932.13 1806.74 1712.21 2618.87 1427.93 1341.72 756.871 59.9138 +LDOC1L 340.538 927.66 792.179 287.374 369.963 610.91 157.48 557.908 964.059 506.183 318.702 523.665 522.059 910.898999999999 985.624 277.521 1233.38 225.019 1203.66 812.069 +LEAP2 2.8818 2.0132 1.185 7.7459 0.5589 0.8022 3.3154 0.68 8.9852 3.1191 5.7252 5.4612 1.1312 8.495 13.4354 2.7752 8.4784 8.3905 4.6981 2.5862 +LECT1 0 0 0 0 0 0 0 0 0 0.4456 0 0 0 0 0 0 0 0 0 0 +LECT2 0 0.4026 21.5079 0.7746 0 0 1.6577 0 0 0 3.327 0 0 2.3168 0 0 0.8925 0.7628 1.4094 0 +LEF1 3811.72 3207.76 1047.55 1583.27 19.0011 528.279 908.827 2957.15 140.063 29.8541 853.053 108.01 494.909 2290.18 349.322 2776.13 1243.19 1630.05 158.797 941.81 +LEFTY1 7.6849 10.2953 12.2648 46.282 13.9714 101.007 50.8744 3.8384 6.0307 2.0987 2.5445 3.0947 62.9186 4.5139 9.4102 3.7003 9.0228 3.8139 7.3103 16.9698 +LEFTY2 2.8818 5.6368 0 0 96.1234 57.3606 31.4961 0 0 0 2.5445 7.2816 146.493 0.3861 1.0748 0.9251 57.5636 0 28.6587 5.6034 +LEKR1 41.7867 21.3394 8.8876 13.1681 20.6777 8.8247 5.3875 10.1994 21.1416 4.4558 13.9949 20.6311 18.0995 18.1485 5.9116 11.1008 27.22 9.1533 11.2755 9.9138 +LELP1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LEMD1 0.9606 0.8053 2.9625 0 0 0 2.0721 2.3799 13.7421 0.4456 1.2723 0 0 1.5446 2.6871 0 0 0.7628 0.9396 0.431 +LEMD2 1573.49 1259.43 778.551 1233.93 1488.79 1101.89 1597.18 945.485 1729.92 1092.57 1208.02 915.048 1051.47 779.612 895.338 1230.34 857.653 963.387 1391.59 1218.53 +LEMD3 450.528 962.689000000001 651.755 814.872 442.056 451.665 461.666 976.763000000001 840.909 312.354 874.046 606.189 316.176 809.345 538.492 647.549 643.016 843.631 661.968 3149.57 +LENEP 0 0.8053 0 0 0 0 0 0 0 0.4456 0 1.2136 0 0 0 1.8501 0 0 0 0 +LENG1 240.154 212.186 284.402 413.633 278.87 580.826 297.555 483.452 347.78 277.598 533.715 305.825 780.543 378.801 286.981 411.656 301.651 575.134 225.981 340.517 +LENG8 1857.9 2546.34 2928.36 7626.64 1905.75 2153.23 1895.27 2629.44 3301.25 1636.33 7152.44 4729.41 940.057 4053.87 1945.69 1340.93 3158.6 3038.36 817.524 2072.58 +LENG9 48.439 266.437 227.32 385.755 108.927 354.589 71.5789 656.464 394.313 109.016 264.86 231.153 350.667 311.42 1093.94 201.156 213.106 215.644 50.693 92.0776 +LEO1 345.821 252.852 303.955 261.038 242.544 353.389 479.901 368.199 576.11 761.056 540.076 231.189 322.964 345.207 517.533 338.575 323.962 562.166 675.123 312.931 +LEP 0.4803 0 43.2529 5.4222 0.5589 1.2034 0 0 4.7569 26.2894 0.6361 0.6068 0 0 2.6871 0 3.1236 4.5767 0 0 +LEPR 82.6129 196.58 107.261 101.82 192.336 26.9635 45.288 140.442 118.922 213.59 145.674 192.985 33.9367 224.041 124.847 201.665 27.6975 147.979 235.419 47.1121 +LEPRE1 1789.63 1361.29 1116.28 1869.09 483.411 1764.14 4801.91 1395.62 1763.21 2667.71 1099.87 538.228 2910.07 1263.83 2313.05 1131.36 1292.28 1276.13 590.557 1385.78 +LEPREL1 3013.93 613.206 1985.48 334.624 1422.29 4854.79 1120.6 426.675 2035.41 279.826 1753.82 773.665 1542.99 1102.42 275.158 560.592 2074.07 1242.56 948.555 3585.34 +LEPREL2 1189.24 2498.72 792.765 4390.4 26.8251 22.4629 4608.76 1285.81 116.279 39.6569 117.684 566.748 163.462 155.613 73.0888 110.083 3563.59 541.571 25.37 61.2069 +LEPROT 156.58 636.462 355.485 28.3114 437.495 375.764 225.744 586.095 332.452 460.131 118.957 372.548 119.909 343.195 650.646 173.913 202.111 84.6682 313.324 414.957 +LEPROTL1 1271.85 936.518 1168.42 1050.35 4838.58 1994.79 908.413 1927.69 1362.05 780.216 1638.68 2185.68 3104.07 1373.88 1579.47 1497.69 950.915 1868.04 1766.97 3206.9 +LETM1 920.749 1183.33 1469.41 2941.91 1371.99 1277.98 737.256 2584.87 2119.98 681.297 1420.48 2807.65 2106.33 2239.6 1976.08 1396.85 3379.3 2668.19 4640.36 831.034 +LETM2 50.4323 19.3263 24.2927 76.6847 45.8262 20.8584 34.397 97.2343 59.7252 55.6979 68.0662 78.8835 40.724 44.4058 87.0617 55.5042 49.0852 110.603 24.9002 60.3448 +LETMD1 1197.89 2112.2 822.989 1257.94 1288.72 910.951 1007.46 1221.55 1148.52 793.584 1099.87 1796.72 1476.81 1844.19 1191.99 756.707 1957.16 1093.82 1313.13 3183.62 +LEUTX 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LFNG 62.44 177.157 59.2505 67.3896 199.512 60.9707 498.135 278.104 69.7674 290.966 346.056 342.233 64.4796 64.485 379.417 1973.17 101.294 139.588 59.6664 28.4483 +LGALS12 2.4015 0.4026 0.5925 0 0.5589 0 3.7298 0 0.5285 4.4558 1.2723 0.6068 0 0 0.5374 1.8501 0 0 0 0 +LGALS13 0 0 0 0 0 0 1.6577 0.34 0 0 0 0 0 3.8614 0 0 3.1236 0 0.9396 0 +LGALS1 491.354 2941.62 9379.94 19287.4 1131.68 4675.09 27889.3 3295.43 9709.83000000001 14174.9 7923.66 9763.96 2614.25 11201.5 13185 14688.3 3032.57 15139.6 2035.71 6115.95 +LGALS14 0 0 15.4051 0 0.5589 0 0 0 0 0.4456 0 0 19.2308 1.5446 0 0.9251 4.4623 0.7628 0 0 +LGALS2 0.9606 2.0132 0 0 16.2068 0.4011 4.5586 3.3998 1.5856 19.6057 0 6.068 0 0 0.5374 4.6253 1.7849 6.1022 5.168 0 +LGALS3 7607.11 3192.05 359.058 4421.38 2336.02 956.278 5354.33 640.863 2067.12 9264.57 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18.0995 3.8614 5.9116 8.3256 5.3548 29.7483 7.0472 0.8621 +LGI1 0 4.8316 0 2.3238 0 0 4.5586 6.4596 0.5285 0 0 0 0 0.3861 0 0.9251 0 73.9893 0 0 +LGI2 12.488 18.521 7.1101 48.7994 133.008 5.6157 566.1 18.3589 8.4567 23.1703 16.5394 39.4417 12.4434 10.8119 13.4354 39.778 2.6774 12.2044 29.5983 1.7241 +LGI3 40.3458 18.521 79.3956 128.583 24.5897 302.046 12.0182 14.2792 4.7569 4.4558 5.7252 21.8447 466.629 438.266 7.5238 6.4755 25.4351 6.1022 33.3568 149.138 +LGI4 68.2037 8.8579 2.37 13.9427 11.736 16.446 138.831 63.5763 38.5835 74.4124 29.8982 16.9903 13.009 8.495 5.3742 80.481 30.3436 29.7483 5.6378 5.6034 +LGMN 774.736 1484.5 1315.95 1421.38 5690.28 842.76 12711.1 1184.15 2216.17 2534.92 1655.22 1413.23 1813.35 1030.99 1288.73 1958.37 1148.15 1661.33 4208.6 1586.64 +LGR4 826.608999999999 831.029 673.678 343.145 3091.6 1263.14 265.23 387.577 874.207 46.7862 576.972 603.762 632.353 783.859 563.751 342.276 318.608 308.162 965.469 1460.34 +LGR5 5.2834 4593.61 931.418 76.6847 0 0.8022 9.1173 114.913 31.1839 0 52.799 240.898 1.6968 540.593 7.5238 56.4292 1124.5 3.8139 4.6981 577.155 +LGR6 7.2046 23.3526 1.7775 5.4222 2.7943 0 6.2163 2.3799 2.6427 316.364 2.5445 4.2476 2.2624 0.7723 0 3.7003 24.9888 26.6972 3.7585 1.2931 +LGSN 0 0.4026 5.925 10.8443 1.1177 11.6326 0.4144 0.34 44.926 11.5852 3.8168 0 0 37.4554 4.8368 5.5504 0.4462 0 26.7794 6.8966 +LGTN 1131.12 1174.07 590.727 467.854 637.655 346.971 846.664 436.875 669.662 924.139 569.338 661.408 507.353 671.107 788.392 691.027 423.025 938.215 402.161 484.914 +LHB 2.8818 0.8053 2.37 11.6189 2.2354 0.4011 1.6577 0.68 28.0127 1.7823 0.6361 0 32.2398 2.703 0.5374 0 5.801 2.2883 3.2887 17.6724 +LHCGR 12.488 0 0.5925 0 0 0 0.4144 0 0 1.3367 0 0.6068 0 0 0 0.9251 0 0 3.7585 2.1552 +LHFP 588.857 980.808 412.383 278.079 205.659 352.186 1313.72 1140.97 366.279 484.349 794.529 402.306 177.036 737.137 533.118 1667.9 1051.76 1146.45 568.476 108.621 +LHFPL1 7.2046 9.2605 2.37 2.3238 0 0 0.8288 12.9192 1.0571 0 3.8168 3.034 5.0905 14.6732 0 7.4006 222.222 12.2044 7.9868 4.7414 +LHFPL2 787.704 1212.32 1413.12 919.442 1246.25 1247.49 3406.13 945.145 797.04 703.576 728.371 1243.93 1319 1166.91 1726.19 966.697 766.622 652.174 1259.1 955.172 +LHFPL3 0 0 0.5925 0 0.5589 0 1.2433 0 3.6998 0 0.6361 0 0 0.3861 0 0.9251 21.8652 0 0.4698 0 +LHFPL4 0 4.4289 0.5925 288.923 3.3531 89.8516 0 0.34 1.0571 0.4456 2.5445 231.189 4.5249 5.7921 0.5374 0 4.9085 20.595 2.3491 0.8621 +LHFPL5 0.4803 0 0.5925 0 0 0 0 0 0.5285 1.7823 0 0 0 0 0 0 0 0.7628 0 0 +LHPP 205.572 569.319 872.76 526.723 1081.39 822.302 608.786 483.112 407.505 448.702 936.387 755.461 311.086 315.474 239.688 1171.14 86.5685 668.955 448.203 399.138 +LHX1 0.9606 1.6105 0 3.873 0 14.8416 0.4144 0.34 0.5285 0.4456 6.3613 0 1.6968 0 0 0 3.5698 0 0 0.431 +LHX2 71.0855 9.2605 1.7775 177.382 0.5589 201.765 31.9105 5.7797 7.3996 11.5852 8.2697 2.4272 92.1946 3.0891 12.898 0 215.975 1.5256 2.3491 67.2414 +LHX3 0.4803 0.8053 2.37 0.7746 0 2.4067 4.9731 3.0598 0.5285 1.3367 0 0 3.9593 3.4752 3.2245 0 9.3708 0 0 0 +LHX4 3.9385 7.7788 1.268 2.3238 0 2.1781 2.5653 7.0308 0 0.459 0 0.6311 2.681 1.7724 0 1.0453 5.0067 2.4867 2.3491 6.5603 +LHX5 1.4409 0.4026 71.6931 17.0411 0 0 0.4144 7.4796 14.2706 0 0.6361 0 3.9593 0 1.6123 0 30.7898 0.7628 0 15.5172 +LHX6 36.9837 59.1867 82.3582 132.456 31.296 64.5808 203.481 126.133 38.055 7.5749 58.5242 20.0243 78.6199 162.95 42.9934 95.2821 224.9 133.486 38.5248 44.8276 +LHX8 0 0 1.185 0 0 0 0.7915 0 0 0 0 0 0 0 0 0 0 0 0 0 +LHX9 0.4803 0.4026 1.185 1.5492 0 0 28.1807 0 0 0 0 0 0.5656 0 0 0 0.4462 0 0 0.431 +LIAS 116.715 184.405 233.447 359.411 413.554 202.166 181.517 466.113 485.201 52.1332 311.069 573.422 228.507 508.543 589.547 290.472 577.867 358.505 559.079 116.379 +LIF 132.084 43.8867 951.563000000001 105.345 21.7954 85.4392 46.8297 8.4995 790.169 749.025 126.59 26.699 174.208 244.425 171.974 26.827 576.975 125.095 125.91 125.431 +LIFR 695.485 938.531 424.233 716.499 404.053 1963.9 898.467 2557.33 184.989 248.635 389.313 388.349 799.774 449.464 263.872 928.77 2377.96 215.866 845.196 1063.36 +LIG1 451.489 401.423 737.668 1484.12 909.819 1495.39 672.192 837.711 1573.47 848.39 1648.22 596.481 1243.21 898.928 1277.44 342.276 1618.92 511.823 553.911 2412.5 +LIG3 542.747 679.237 414.161 194.423 418.025 329.723 307.087 474.612 334.567 209.87 275.445 413.835 275.452 355.633 455.73 282.146 277.108 394.356 275.781 496.552 +LIG4 414.986 460.207 434.899 568.552 275.516 139.19 138.002 248.525 452.96 82.4329 220.738 395.024 92.1946 417.029 358.458 226.642 232.486 524.79 675.123 437.931 +LILRA1 2.4015 0.8657 0 1.433 2.7943 0.4011 17.2109 1.0199 0 7.5749 1.2723 9.7087 1.6968 1.1584 1.6123 2.7752 0 8.3905 2.3491 0 +LILRA2 27.8578 3.9659 6.5176 7.8621 22.9131 10.4292 73.133 9.1795 14.7992 77.9771 12.7226 61.2864 70.1357 16.2178 40.8437 18.5014 5.801 70.9382 22.0813 2.5862 +LILRA3 3.8425 3.221 7.1101 1.5492 1.1177 0.8022 23.2076 1.3599 3.1712 10.694 0.6361 0 0 0 0.5374 2.7752 2.2311 7.6278 0 0 +LILRA4 22.0941 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53.3827 344.436 60.4326 118.325 100.679 32.4356 28.4831 65.6799 44.1767 270.023 51.6796 6.0345 +LILRB5 27.3775 5646.09 3231.52 560.806 6341.91 56.5584 828.844 13.2592 881.078 238.833 940.204 192.354 149.887 22.7821 5083.97 138.76 124.944 1437.83 943.387 394.397 +LILRP2 0 0 0 0 0 0 0 0 0 16.9322 0 0 0.5656 0 0 0 0 0 0 0 +LIM2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +LIMA1 320.365 682.861 984.743 312.936 1000.35 1447.25 3454.21 526.629 980.444 317.701 1101.78 1483.62 279.977 755.285 579.874 1836.26 775.1 1181.54 1671.6 471.121 +LIMCH1 1523.05 283.049 172.419 144.074 1073.56 530.285 404.476 791.474 513.742 773.978 1094.15 593.447 112.557 779.612 224.103 515.264 1510.93 999.237 1306.55 948.276 +LIMD1 402.416 627.552 434.792 288.799 495.052 369.033 1612.51 407.218 311.126 319.546 390 749.199 309.282 320.34 73.8573 295.19 315.364 307.712 413.733 525 +LIMD2 298.016 81.6092 119.84 755.654 86.3545 48.933 765.69 113.948 43.0603 591.195 186.711 201.754 174.581 44.4638 41.6445 538.76 74.8639 853.623 65.1257 99.4655 +LIME1 96.1431 142.66 54.7356 421.588 130.135 45.9968 287.92 178.054 141.374 180.813 338.887 111.068 242.381 113.814 131.786 301.027 261.397 913.532 89.3822 66.6853 +LIMK1 361.671 820.158 876.907 783.889 912.613 493.382 6199.75 404.577 1467.76 1957 209.924 1321.6 283.371 437.108 654.037 513.413 471.664 1674.29 2375.85 602.155 +LIMK2 200.288 424.372 546.289 482.572 389.523 299.639 715.707 276.404 466.173 1762.28 241.094 397.452 269.796 436.336 298.804 235.893 459.616 432.494 603.712 281.034 +LIMS1 70.6052 510.938 244.112 48.0248 202.306 454.071 147.949 211.128 98.8372 100.256 63.6132 99.5146 78.6199 128.97 232.702 103.608 62.0259 79.3288 280.009 362.069 +LIMS2 321.806 257.683 96.5783 203.718 359.345 221.42 261.086 262.805 161.734 98.0283 408.397 248.786 185.52 271.455 121.456 561.517 149.041 254.767 277.66 75 +LIMS3 144.798 65.2946 62.4559 38.8226 68.8008 124.3 97.0908 52.8771 29.2812 2.4463 32.8626 19.0413 215.351 50.5686 55.1122 48.2886 13.4092 13.4325 72.1306 133.957 +LIMS3-LOC440895 152.512 39.3893 77.9677 324.462 115.622 708.432 71.5789 63.0561 45.7717 51.9149 88.6387 37.9976 153.993 55.6193 83.5416 73.8205 22.2892 71.9985 52.84 180.267 +LIN28A 4.8031 0 3.555 5.4222 0 0 0.4144 0.34 8.4567 0.4456 71.883 0 1.6968 1.5446 0 0 0.4462 2.2883 0 0.431 +LIN28B 0 0 0 1.5492 2.7943 0 0.4144 0.34 5.2854 0 0 0 2.2624 0 1.0748 0 0 0 0.4698 0.431 +LIN37 299.611 93.3619 327.24 1184.94 260.31 365.455 291.148 396.485 519.704 332.213 698.766 214.593 387.777 291.619 547.698 238.529 429.398 624.356 152.117 176.194 +LIN52 24.0154 144.544 181.306 111.541 42.4731 164.46 87.0286 98.9342 152.22 114.515 51.5267 100.728 48.6425 47.1088 177.348 41.6281 98.6167 24.4088 210.007 77.5862 +LIN54 271.854 363.978 244.704 492.641 243.103 324.91 288.438 385.198 650.634 231.258 307.252 486.044 202.489 545.999 369.743 495.837 561.356 494.279 651.163 393.966 +LIN7A 8.6455 10.4684 8.2951 81.3323 2.2354 7.6213 60.92 72.7558 6.3425 0.8912 3.8168 21.2379 6.2217 24.3267 34.3947 11.1008 70.058 4.5767 14.0944 65.0862 +LIN7B 26.8972 100.658 198.489 438.42 68.7394 34.8977 33.5682 134.632 298.626 74.4124 228.371 128.034 199.661 175.693 338.036 133.21 197.233 199.847 119.333 93.1034 +LIN7C 962.056 489.599 751.889 493.416 716.454 573.205 447.99 709.539 720.402 1008.35 729.644 439.32 714.932 517.424 502.486 777.983 516.734 721.587 792.577 833.621000000001 +LIN9 56.6763 143.739 58.0655 88.3036 19.0011 151.223 105.678 85.335 119.979 225.465 69.9746 61.2864 74.6606 54.4454 110.171 55.5042 58.0098 63.3105 80.8081 293.103 +LINGO1 259.366 142.531 40.8828 635.941 48.0617 98.2752 388.313 362.419 99.3658 83.3241 548.982 75.2427 32.2398 851.433 10.2109 323.774 620.705 866.514 47.9211 75.8621 +LINGO2 0 0 1.185 10.8443 135.802 0 0.4144 1.0199 3.6998 0 0 154.733 0 0 15.5851 49.0287 0 0 0.4698 0 +LINGO3 0 0 30.3599 25.7088 1.3971 0 8.5039 0 6.3425 0.9134 1.2723 4.3689 0 0.3861 0 1.8501 6.4525 2.1739 0 0 +LINGO4 0 1.2079 72.8781 0.7746 11.1771 0.8022 2.0721 0 1.0571 3.1191 2.5445 0 0 0.3861 0 0.9251 0 0 94.9025 0 +LINS1 186.359 153 252.407 177.382 212.924 241.877 170.327 193.789 283.298 843.489 344.784 113.471 190.611 281.108 610.506 113.784 223.561 445.462 334.508 116.81 +LIPA 2010.57 1589.18 2655.01 838.11 3215.66 4959.49 2323.25 1770.96 1732.03 1816.2 1388.04 2738.47 15246 2256.59 2349.05 1341.35 1162.87 1070.94 1740.66 8379.31 +LIPC 2.4015 1.2079 1.185 0 1.1177 1.2034 403.233 0.34 0.5285 4.9014 0.6361 1.8204 0.5656 0.3861 0 2.7752 0.4462 3.0511 0.9396 0 +LIPE 2461.23 479.452 3790.7 655.686 3193.49 5220.51 27.7663 4169.32 2289.06 12.4763 2852.41 2147.38 5652.15 3938.43 2720.28 1909.34 2185.1 3594.88 1619.68 3606.9 +LIPF 0 0 0.5925 1.5492 0 0.4011 0 0 1.0571 0 0.6361 1.8204 0 0.3861 0 0 0 3.0511 1.8793 0.431 +LIPG 29.2988 13.6894 223.967 4.6476 5.0297 296.43 384.169 48.6172 98.3087 69.9566 29.2621 6.068 246.606 32.0494 64.4901 4.6253 24.9888 57.971 338.736 560.345 +LIPH 45.6292 24.5605 0 1.5492 263.221 470.116 0.8288 0 34.3552 35.6467 11.4504 32.767 125 20.4653 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11.4416 7.517 0.431 +LRIG1 859.428 216.128 186.278 235.709 82.0793 77.5251 2172.47 590.44 115.365 193.298 671.138999999999 741.038 47.9921 130.252 102.787 707.53 124.453 378.955 151.125 91.5474 +LRIG2 145.533 167.494 99.5408 142.525 90.5348 132.371 208.869 141.092 141.649 68.6198 81.4249 80.0971 63.914 84.5641 81.1501 65.6799 78.9826 40.4272 84.0968 91.8103 +LRIG3 144.092 100.658 46.8079 45.701 133.008 102.286 1036.88 383.838 25.8985 142.141 164.122 275.485 206.448 240.564 18.8096 222.942 162.874 104.5 84.0968 1096.98 +LRIT1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.4698 0 +LRIT2 2.8818 0 2.9625 0 0 5.2146 0 0 0 1.3367 0 1.2136 2.8281 0.7723 0 0 1.7849 0 0 0 +LRIT3 6.7243 1.6105 13.6276 58.0945 0.5589 1.6045 2.0721 2.0399 9.5137 0 29.2621 10.3155 0.5656 6.5643 6.449 10.1758 3.5698 41.1899 13.1548 1.2931 +LRMP 59.0778 75.6945 24.2927 34.8567 146.979 69.7954 167.012 271.304 29.0698 49.0141 62.341 55.2184 59.9548 82.2473 83.2997 44.4033 35.2521 127.384 53.5588 12.5 +LRP10 1779.06 3739.63 3178.2 2838.11 1922.47 2162.45 4046.83 3529.33 4106.24 1490.92 1963.1 2559.47 2356.33 1373.11 1372.56 2825.16 1895.14 1102.97 4017.85 3298.28 +LRP11 2135.45 1091.92 3772.42 1134 4166.21 2456.48 1179.86 1718.9 3007.83 2529.58 1501.23 839.794 8195.13 2556.22 2832.19 2694.73 2669.25 989.253 4857.86 2898.27 +LRP12 545.149 922.829 194.934 272.657 114.566 29.6831 429.341 1051.9 190.803 341.762 249.364 426.578 124.434 683.85 166.062 517.114 403.391 421.815 246.653 1265.09 +LRP1 1237.27 3516.57 3295.51 1075.14 1842.55 1020.06 50280.6 3885.63 1357.29 3283.5 1129.13 2688.11 748.303 846.028 1669.22 15245.1 1379.3 1968.73 1058.02 536.638 +LRP1B 1.4409 0.4026 0.5925 0 0 0.4011 0 4.0798 5.2854 0 0 9.7087 2.2624 1.9307 33.8573 6.4755 2.6774 0.7628 76.5798 1.2931 +LRP2 0 0.4026 2.9625 1.5492 0 1.2034 4.1442 0.34 2.1142 0.4456 0 0.6068 1.1312 1.9307 0.5374 0 2.2311 0 0.4698 0.8621 +LRP2BP 134.966 47.913 78.2106 313.71 19.56 32.8921 37.7124 175.43 73.4672 15.1498 90.3308 86.7718 16.4027 78.7721 36.007 46.2535 70.5042 205.95 51.6796 37.931 +LRP3 1177.71 902.697 4204.33 4630.33 312.96 1734.46 1104.76 5510.74 2553.9 962.081 3234.05 3123.79 680.995 3389.84 3619.44 3453.27 3266.62 3823.02 995.969000000001 1072.41 +LRP4 222.382 231.102 162.518 141.751 1444.34 276.181 371.604 170.949 195.032 284.563 113.69 786.845 78.0543 240.239 199.339 228.492 84.7836 166.285 694.353 109.845 +LRP5 2012.49 2551.87 2456.53 2006.97 374.993 2902.13 563.614 345.42 1135.31 3955 1896.95 1035.19 245.475 1358.82 97.81 1901.02 1045.52 1873.38 1274.14 1225.86 +LRP5L 129.203 69.2524 72.2856 95.275 79.3577 64.9819 78.3257 29.9183 99.3658 61.4905 57.888 35.1942 109.728 113.525 69.8643 24.9769 210.174 131.198 58.7268 179.31 +LRP6 656.58 1388.27 631.61 808.675 350.962 807.06 970.162 1779.12 893.763 541.384 898.855 837.985 767.534 790.424 303.641 614.246 797.412 766.59 745.126 1169.83 +LRP8 19.2123 366.394 366.168 67.3896 24.5897 72.6033 116.453 30.9382 343.552 1194.61 13.3588 50.9709 75.2262 35.5247 29.558 30.5273 115.127 32.0366 85.976 51.7241 +LRPAP1 2472.14 4160.78 3595.32 2669.25 3444.79 4477.34 4501.86 5972.77 2950.85 2478.33 5786.26 11002.4 4661.76 5138.72 1963.72 9619.8 4821.51 9079.33 4525.25 3269.4 +LRPPRC 2676.75 4245.74 3908.16 2164.99 4804.49 3157.64 2259.01 2505.31 2725.69 3157.4 2267.18 2480.58 3766.97 3518.1 5194.14 1511.56 3825.97 1752.1 4747.47 3381.03 +LRRC10 0 0 0.5925 0.7746 0 0 0 0 0.5285 0 0.6361 0.6068 0 0 0.5374 0 0 2.2883 0 0.431 +LRRC10B 13.4486 124.815 199.674 323.78 18.4423 42.5191 61.3344 33.3181 392.178 6.2382 66.7939 24.8786 19.2308 68.3464 3.2245 48.1036 527.889 151.792 73.7609 18.9655 +LRRC14 1314.97 808.212 562.844 1673.07 674.965 604.124 637.012 1769.37 986.337000000001 1789.93 1331.04 1252.86 1046.17 1590.85 457.643 521.489 1591.58 1622.4 668.203 860.767 +LRRC14B 0 0 0.5925 3.0984 0 0 0 0.34 0.5285 0 0 0 0 0.7723 0 0 1.3387 0 0 0 +LRRC15 0 3.6237 17.7751 9.2951 1.1177 8.0225 370.908 1.0199 1.5856 2.6735 1.9084 20.6311 6.7873 0.3861 6.449 52.729 0.8925 3.8139 0 31.8966 +LRRC1 378.002 46.7051 86.5057 97.5988 149.774 114.32 185.661 60.8565 135.835 61.0449 163.486 53.3981 66.7421 91.1285 52.1295 100.833 57.1174 171.625 256.049 223.707 +LRRC16A 416.907 320.494 363.798 295.895 111.771 186.522 170.327 64.9362 241.543 239.724 223.919 183.252 303.733 259.871 266.559 212.766 255.689 51.106 427.061 524.138 +LRRC16B 10.0865 14.0921 41.4753 111.541 23.472 443.642 12.4327 44.1974 11.0994 4.9014 9.542 13.3495 95.5882 7.3366 8.0613 1.8501 12.0482 9.1533 17.3831 15.9483 +LRRC17 963.016 162.26 37.9203 50.3486 20.6777 50.5415 3881.06 66.9761 67.1247 10.2484 81.4249 44.2961 58.8235 60.2375 61.2656 123.959 109.772 47.2921 52.1494 731.897 +LRRC18 0 0.4026 0 3.0984 0 0.4011 2.901 0 0.5285 0 2.5445 0.6068 1.1312 0 0 0 0 1.5256 0.4698 0 +LRRC19 0.4803 3.6237 1.185 6.1967 2.2354 6.418 3.7298 0.68 14.7992 2.6735 0 1.8204 11.8778 2.703 5.3742 6.4755 0.8925 6.1022 0.4698 3.0172 +LRRC20 253.122 722.319 398.756 111.541 167.657 959.487 658.516 235.266 207.188 639.412 175.572 647.452 567.308 314.702 369.206 245.143 327.086 511.823 362.227 728.448 +LRRC23 233.91 260.502 274.33 240.899 701.924 95.4673 405.719 157.751 448.731 244.18 236.005 339.199 201.357 214.306 422.948 377.428 231.593 262.395 103.359 275.431 +LRRC24 26.5322 75.159 38.5484 113.919 104.082 121.508 48.0274 444.582 54.3605 22.2613 62.7226 26.875 301.114 165.692 61.5021 27.0768 259.862 67.1472 5.0411 234.491 +LRRC25 72.5264 160.649 274.922 120.062 347.609 23.2651 762.536 160.131 226.216 331.068 216.921 686.286 125 5576.21 856.643999999999 111.008 293.619 594.966 477.801 22.4138 +LRRC26 0 0.4026 0 18.5902 0.5589 0.8022 0.4144 0 0 1.7823 0 0 0 0 1.0748 0 5.801 0 0 0 +LRRC27 162.344 243.189 85.9132 153.369 116.36 140.578 120.787 103.694 126.85 212.989 122.137 330.097 119.344 122.792 117.695 139.685 85.676 172.387 46.0418 67.2414 +LRRC2 57.1566 543.954 13.0351 15.4919 269.369 0.4011 29.0095 1.3599 6.3425 1.3367 0 44.2961 14.7059 0 2.6871 2.7752 0.4462 5.3394 105.708 52.5862 +LRRC28 149.856 159.844 95.3933 43.3772 236.955 127.557 220.472 88.7348 164.905 249.972 234.097 109.223 177.602 158.316 137.579 121.184 91.477 243.326 490.486 175.431 +LRRC29 70.6052 72.0708 152.866 162.665 98.9176 43.3213 80.8123 185.969 190.803 32.082 145.674 251.214 97.8507 176.465 92.9733 256.244 188.755 375.286 80.3383 29.3103 +LRRC30 0 0 0 0 0 0 0 0 0 0 0 0 0 0.3861 0 0 0 0 0 0 +LRRC31 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.4698 0.431 +LRRC32 620.077 1504.23 564.065 228.505 659.451 718.01 1808.12 530.709 693.446 215.662 1237.28 771.845 569.005 1008.98 480.451 1108.23 738.51 1420.29 722.575 384.914 +LRRC33 66.7627 72.8761 15.4051 12.3935 206.218 67.3887 502.694 73.0957 34.8837 211.206 82.6972 151.092 72.9638 54.8315 55.8914 146.161 46.8541 109.077 69.0627 8.6207 +LRRC34 17.7714 79.3182 20.7377 17.8156 17.3246 10.4292 21.1355 16.999 16.3848 47.2318 17.1756 69.7816 6.7873 35.9108 25.2586 49.9537 21.419 68.6499 20.6718 15.9483 +LRRC36 3.8425 8.0526 10.6651 9.2951 40.7965 12.0337 1.6577 20.0588 4.7569 0.4456 1.9084 1.8204 19.7964 13.1287 149.402 0.9251 29.0049 2.2883 1.4094 39.6552 +LRRC37A2 44.121 35.0288 74.8571 51.8978 36.7225 87.9101 47.2027 37.0578 60.7135 32.5276 30.6679 78.8592 54.9887 51.7695 153.503 156.198 78.8443 65.3547 32.6803 91.1121 +LRRC37A3 271.374 221.044 295.66 1149.5 116.242 252.306 200.166 200.588 369.979 21.388 203.562 296.723 32.2398 320.88 296.117 370.028 320.393 440.122 215.175 95.6897 +LRRC37A4 109.51 294.725 147.534 212.912 103.947 159.126 95.3005 99.6142 106.21 70.4021 65.5216 274.763 66.6968 118.892 42.9934 86.013 118.251 77.8032 102.889 322.358 +LRRC37A 363.593 173.534 280.255 391.17 140.273 221.42 143.804 219.287 161.205 229.03 155.852 388.349 184.389 178.782 235.389 353.377 253.458 363.844 139.065 259.483 +LRRC37B 130.644 206.147 85.3207 279.628 111.213 158.444 228.346 150.271 127.907 51.2421 119.593 320.995 58.2579 141.326 89.7488 187.789 103.079 109.84 72.3514 164.655 +LRRC37B2 718.06 344.652 167.086 402.788 230.249 505.816 372.98 307.342 358.88 341.762 263.359 510.315 302.602 357.563 81.1501 319.149 368.586 159.42 239.136 789.224 +LRRC3 28.8184 92.2024 271.367 281.177 34.6491 62.5752 25.6942 208.068 146.935 65.9463 76.972 49.7573 19.7964 52.5147 257.961 137.835 305.221 53.3944 91.6138 59.9138 +LRRC39 70.0096 215.286 9.7112 71.2393 203.005 8.6081 90.4434 21.327 61.7336 8.2477 21.0496 112.512 2.9016 13.6963 10.6086 2.7752 6.7827 180.091 26.9063 25.4784 +LRRC3B 0 70.0577 0 0 0.5589 0.8022 2.4865 0.34 1.5856 0 1.2723 30.9466 0 1.1584 2.1497 0.9251 13.8331 1.5256 0.4698 331.034 +LRRC40 233.429 289.089 142.201 160.341 97.7999 173.285 133.444 208.068 245.243 420.185 106.234 197.815 87.1041 160.633 300.416 141.536 135.208 171.625 321.353 185.345 +LRRC41 2094.14 2093.28 1978.97 1173.51 1805.11 1459.69 1659.76 2425.08 1883.19 2444.91 1239.19 1328.88 1791.86 1334.11 2323.26 1306.2 1376.62 1169.34 1094.2 1300 +LRRC42 549.472 740.84 609.095 181.255 1308.84 951.865 724.409 396.757 792.283 1704.36 442.748 468.447 1126.7 396.95 1011.96 302.498 573.851 247.14 585.389 523.707 +LRRC43 17.2911 31.8078 5.925 27.8854 13.9714 0.8022 3.7298 7.8195 1.5856 0.8912 0.6361 22.4515 0 7.3366 0.5374 2.7752 18.2954 6.865 0.9396 0.8621 +LRRC45 439.481 98.6444 161.161 467.854 268.251 314.079 382.511 224.727 281.712 1191.04 220.738 228.762 417.986 195.772 168.749 160.962 420.348 223.494 148.461 610.776 +LRRC4 161.864 43.0815 18.3676 143.3 57.0034 175.291 116.038 87.3749 59.7252 20.0512 60.4326 84.3447 76.9231 125.495 275.158 56.4292 43.2842 111.365 124.031 18.1034 +LRRC46 21.1335 20.1315 23.1077 24.0124 3.3531 42.9202 9.5317 9.1795 41.2262 10.2484 34.9873 100.728 27.7149 23.9405 58.0411 67.5301 55.7787 46.5294 0.9396 22.8448 +LRRC47 1070.61 1390.69 1206.93 979.086 1253.52 980.345 1593.45 767.675 1272.2 1976.16 1246.82 1068.57 1254.52 1305.53 2033.05 747.456 1231.59 1022.88 1378.44 825.431 +LRRC48 50.9126 30.5999 23.7002 4.6476 13.4126 12.0337 15.748 5.0997 10.5708 12.4763 5.7252 108.617 17.5339 10.8119 24.7212 52.729 25.4351 19.8322 2.3491 3.4483 +LRRC49 144.572 173.131 108.428 99.1479 49.1794 37.3045 190.22 173.05 68.1818 36.5378 144.402 71.6019 41.8552 238.633 61.803 167.438 261.49 872.616000000001 86.4459 51.7241 +LRRC4B 18.2517 17.7157 4.1475 1189 11.1771 40.9146 35.2259 564.367 77.6956 3.1191 18.4478 25.4854 13.009 9.2673 6.449 63.8298 130.299 9.1533 8.9265 3.4483 +LRRC4C 135.447 2.4158 245.889 129.357 0 3.209 1.2433 249.546 210.359 0 99.2366 10.3155 5.0905 69.1186 31.1702 147.086 134.315 99.1609 169.133 55.1724 +LRRC50 56.6763 2.4158 11.8501 27.1108 64.2685 9.627 16.5769 2.3799 26.9556 6.6837 7.6336 10.3155 27.7149 29.7326 55.8914 5.5504 42.3918 0.7628 4.2283 1.7241 +LRRC52 0 0 0 0 0 0 0.8288 0 0 0 0 0 0 0 0 0 0 0 1.8793 0 +LRRC55 1.9212 9.6631 0.5925 3.873 5.0297 1.2034 12.8471 41.4776 2.1142 0 10.8142 3.034 11.8778 6.9505 1.6123 11.1008 7.1397 14.4928 22.0813 0 +LRRC56 25.9366 37.042 67.5455 79.7831 62.5919 26.8753 29.8384 57.7966 70.8245 45.4495 13.3588 9.1019 26.5837 33.594 13.9729 12.951 78.0901 19.0694 9.3963 40.9483 +LRRC57 220.941 306.402 225.152 107.668 460.498 393.502 302.942 272.664 541.226 347.555 213.104 195.995 354.638 237.475 408.438 134.135 201.249 252.479 378.67 353.448 +LRRC58 1463.5 2598.98 2819.73 329.202 2483.56 1890.89 661.417 1169.19 987.844 799.376 742.366 1515.78 698.529 963.413 5459.09 1459.76 799.643 539.283 1268.97 1958.19 +LRRC59 3609.15 2107.11 3948.37 2528.48 2498.9 3719.78 4367.45 2194.86 4425.73 4295 3202.12 2487.82 3882.94 3565.9 5146.17 2565.93 3111.64 2866.94 2705.94 5663.09 +LRRC61 3.3622 163.065 334.765 178.931 322.46 202.166 30.2528 263.825 1.0571 661.245 147.583 120.146 5.0905 366.445 0.5374 325.624 175.814 446.224 14.0944 0.431 +LRRC6 183.477 26.171 27.8477 37.1805 59.7977 20.8584 10.775 48.2772 9.5137 55.6979 96.056 86.165 11.8778 235.544 34.9322 54.5791 71.8429 93.8215 4.6981 52.5862 +LRRC66 5.2834 134.076 38.5128 515.105 1.1177 3.6101 16.1625 7.1396 11.0994 0.8912 46.4377 13.3495 3.9593 76.8414 10.2109 60.1295 41.0531 4.5767 8.4567 112.5 +LRRC67 0 0.4026 1.185 0 0.5589 0.8022 0 4.0798 0 0 2.5445 4.2476 1.6968 6.5643 4.2993 0.9251 8.9246 3.0511 0 0.8621 +LRRC69 2.4015 0 0 0 1.1177 0 1.2433 0 0.5285 1.3367 3.1807 1.2136 1.6968 0.7723 1.0748 0 1.3387 1.5256 0.4698 0.431 +LRRC70 19.6926 42.699 14.8126 24.0124 87.7405 34.9619 65.8475 82.5438 46.8446 17.8233 30.3499 22.4515 23.19 32.4356 46.1749 53.654 27.6662 40.4272 42.2222 21.5517 +LRRC7 0 0 27.8477 0 0 0 0.8288 0 5.814 0 0 0 0.5656 0.7723 12.3606 0 0 15.2555 0.4698 0.8621 +LRRC8A 861.191 901.489 1318.32 3408.99 1059.03 2421.58 2634.89 3552.11 1690.8 1401.36 757.633999999999 1162.62 1524.89 2243.46 2007.26 1896.39 2240.96 805.492 1120.04 1007.33 +LRRC8B 849.664 530.264 1504.96 118.513 727.073 784.998 164.525 997.842 1847.25 384.538 554.707 850.121 132.919 680.761 349.322 1188.71 680.5 580.473 903.923 318.966 +LRRC8C 485.591 325.325 159.976 269.558 343.697 151.223 643.597 604.145 224.63 793.584 361.323 1054 117.647 261.029 148.865 740.981 418.563 418.764 272.023 336.207 +LRRC8D 2945.24 2242.65 479.336 331.526 663.363 1840.75 478.657 1885.87 255.814 601.537 456.743 523.058 1507.35 1183.9 261.722 409.806 1672.91 760.488 977.214 2007.76 +LRRC8E 3.3622 39.0551 352.54 751.356 109.536 10.8303 19.0634 30.9382 97.7801 108.277 110.687 699.636 16.4027 413.167 128.98 617.946 24.5426 12.2044 97.7214 3.8793 +LRRCC1 279.059 174.742 299.215 365.608 227.455 139.19 145.876 211.468 230.972 196.948 199.745 385.315 106.335 367.217 337.498 184.089 584.114 337.147 194.033 286.638 +LRRFIP1 1038.9 1562.21 501.259 422.153 919.319 1324.11 1554.91 1020.62 1015.33 1667.37 1064.89 1055.83 689.48 513.177 833.535 1386.68 572.958 726.163 987.55 1332.76 +LRRFIP2 1468.78 2429.47 615.02 678.544 1380.93 867.629 1361.79 761.896 843.552 606.884 774.809 1021.84 664.593 654.503 663.173 936.17 669.344 652.937 600.893 1631.9 +LRRIQ1 0 12.0789 5.3325 19.3648 0 0 0.4144 2.7198 12.685 0 9.542 8.4951 0 22.396 12.898 15.7262 1.3387 9.9161 0 0 +LRRIQ3 5.2834 12.0789 2.37 6.1967 10.0594 0.8022 0.4144 0.68 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1235.25 1100.63 2529.14 1003.12 1627 1440.92 968.103 +MAN2C1 2232.95 1340.76 1629.98 2600.31 4819.58 940.634 1058.85 1212.37 1603.59 988.303 1903.94 1454.49 871.041 1156.87 726.051 1128.58 941.544 2527.08 1398.17 971.552 +MANBA 709.414 1828.34 904.162 652.208 1249.6 794.625 1597.6 724.498 780.655 333.742 856.87 1148.06 798.643 1166.14 571.812 1607.77 569.835 882.532 1124.74 517.672 +MANBAL 1665.71 1706.75 920.753 1268.01 1971.09 843.161 1860.75 1921.57 1042.28 1621.03 2291.35 1827.67 1925.34 1835.7 1660.08 1779.83 2215.08 2272.31 1424.48 1158.19 +MANEA 99.4236 566.904 389.276 106.894 361.021 387.084 265.23 231.526 432.875 225.911 297.71 256.675 140.272 182.643 223.566 325.624 114.681 299.771 1129.9 253.879 +MANEAL 691.643 231.512 396.978 413.633 181.07 1515.44 124.327 650.722 1263.74 440.682 655.216 331.311 808.823 247.128 989.923 707.678 669.79 351.64 276.721 713.793 +MANF 872.718 1283.18 1118.06 529.822 771.222 840.754 1354.75 593.265 1054.97 2008.69 815.522 983.01 1712.67 1236.41 629.854 1151.71 740.741 973.303 639.417 1077.16 +MANSC1 390.97 1227.62 158.199 108.443 612.507 645.808 184.832 634.403 267.97 236.605 658.397 469.053 547.511 874.602 91.8984 661.425 398.483 854.31 655.861 1072.84 +MAOA 2395.29 335.391 4564.66 903.95 4829.08 1269.55 130.129 146.191 4082.45 1717.72 2224.55 2797.33 467.76 1699.01 3667.34 2731.73 1828.2 956.522000000001 3360.11 1308.62 +MAOB 2067.24 1733.32 4120.87 759.876 473.352 0.8022 5.8019 1290.57 1026.96 262.894 3499.36 4016.99 16.9683 4079.54 1075.91 5234.04 5610 3230.36 3313.6 998.707 +MAP1A 140.73 656.288 316.99 259.489 103.388 211.793 3287.19 208.068 725.687 75.7491 634.224 1586.16 75.2262 852.206 479.377 1677.15 572.512 1518.69 563.777 33.1897 +MAP1B 1056.68 4193.4 7703.16 6515.1 408.524 1826.71 4035.23 3063.56 706.131 896.513 2087.79 3620.15 1243.78 2023.36 1601.5 19747.5 3582.33 1893.97 1115.81 578.017 +MAP1D 66.7627 44.692 45.6229 37.1805 115.124 85.0381 96.9747 41.1376 29.0698 48.5686 54.0712 49.7573 67.8733 46.3365 97.2726 51.8039 40.1606 38.1388 38.5248 47.8448 +MAP1LC3A 807.397 381.694 274.922 824.942 781.841 425.19 863.655 313.802 261.099 247.744 386.768 898.058 1190.05 524.761 675.534 630.897 517.626 631.579 156.448 991.810000000001 +MAP1LC3B2 299.712 345.86 670.715 598.761 450.997 230.646 365.935 429.735 674.419 245.516 294.529 550.364 262.443 799.691 526.132 365.402 403.838 316.552 345.314 300.431 +MAP1LC3B 3047.07 2279.69 6294.18 5271.11 3786.81 1790.21 4871.11 4794.4 6693.45 1814.86 2475.19 4976.34 2227.38 8901.63 6189.44 4926.92 4683.62 3691.08 2878.55 2615.95 +MAP1LC3C 0 41.4709 0.5925 2.3238 1.6766 1.6045 246.995 3.3998 5.2854 0 4.4529 1.2136 0 12.3564 3.7619 5.5504 6.6934 4.5767 0.9396 2.1552 +MAP1S 693.084 791.169 1190.93 1811.77 693.541 960.69 1307.09 1221.55 1605.71 584.159 1370.87 804.612 931.561 942.176 923.284 1250.69 1185.63 1469.87 493.775 973.707 +MAP2 73.9673 251.644 178.344 82.1069 391.2 77.8179 92.4161 980.843 248.943 10.2484 113.868 878.641 69.0045 299.643 161.225 298.797 180.277 1070.94 278.13 18.5345 +MAP2K1 805.154 1127.18 1966.47 711.131 982.738 1039.29 1823.1 852.783 2101.21 2202.29 1097.71 1098.76 1010.75 784.23 1571.88 1015.25 798.559 1158.61 1798.76 1071.33 +MAP2K2 1909.7 2117.43 4468.08 7451.59 3353.7 4178.9 4204.72 3730.26 3767.97 2573.24 4788.8 4608.62 4917.99 4052.51 6915.49 6055.5 3599.73 3881.77 1999.06 3316.38 +MAP2K3 1054.76 514.562 748.926 441.518 559.415 1103.09 1097.39 661.942 1431.82 866.659 710.56 1161.41 794.118 787.335 993.685 808.511 564.926 697.941 889.359 449.569 +MAP2K4 1079.25 764.595 694.416 604.957 1222.78 445.648 709.076 780.595 645.877 245.071 846.692 1139.56 311.652 550.246 305.791 1000.93 397.59 411.899 972.046000000001 787.5 +MAP2K5 201.729 259.697 207.377 99.1479 418.025 288.809 388.313 283.884 557.082 193.829 291.985 263.956 376.131 323.583 484.751 168.363 287.372 430.206 562.838 124.569 +MAP2K6 8.6455 43.0815 2.37 4.6476 7.2651 10.4292 174.886 58.1366 3.1712 176.451 13.9949 14.5631 10.181 25.4851 9.6735 78.6309 5.3548 30.5111 11.7454 46.1207 +MAP2K7 1245.44 770.232 929.64 1588.69 1267.49 1276.37 927.891 1874.65 1084.04 639.412 1351.78 1085.56 1098.98 1339.9 1427.92 1049.95 1160.64 1041.19 519.145 910.345 +MAP3K10 1028.82 414.307 1032.74 1098.37 551.033 671.079 293.825 570.147 926.533 185.808 692.112 561.286 384.615 832.513 1287.12 578.168 571.174 790.236 264.975 438.362 +MAP3K11 2137.85 1136.63 1187.97 1533.69 1511.71 2062.98 1351.84 1481.29 1213.53 2006.46 957.378999999999 937.5 1683.82 1149.53 803.439 1524.51 966.979 1829.14 937.28 1264.22 +MAP3K12 69.1451 396.406 308.843 1025.14 460.263 207.24 670.158 677.516 215.211 65.2958 161.578 513.277 114.796 237.05 255.918 552.359 462.767 197.696 260.456 139.065 +MAP3K13 23.1076 250.887 74.8156 27.1108 25.7186 55.1143 5.8019 36.4221 57.241 29.511 21.673 34.5934 16.4027 37.1696 26.9407 34.2461 23.7439 27.4905 42.3115 56.1164 +MAP3K1 246.878 353.912 318.175 501.937 367.728 342.559 161.625 363.099 310.782 440.682 496.819 219.66 223.416 291.148 263.335 276.596 371.709 415.713 502.232 267.672 +MAP3K14 455.331 272.581 476.374 254.841 462.175 475.323 1564.44 237.986 581.395 376.072 734.733 610.437 252.262 617.048 397.689 791.859 674.699 470.633 311.487 642.672 +MAP3K15 989.625000000001 334.002 572.17 1025.04 1004.56 1053.72 2.3083 845.031000000001 241.829 0.9134 2495.18 309.939 1164.59 901.013999999999 568.072 133.756 552.039 646.781 3584.55 434.797 +MAP3K2 259.366 666.353 290.92 111.541 188.335 195.347 273.518 237.986 300.211 201.849 138.041 257.888 128.394 216.623 472.928 199.815 151.718 140.351 305.379 328.448 +MAP3K3 613.127 496.165 521.25 672.696 818.993 560.373 1752.75 431.38 679.984 916.658 655.528 962.688000000001 531.301 436.278 324.874 951.526 307.108 609.382 577.581 457.431 +MAP3K4 360.231 407.059 373.87 270.333 1368.64 256.719 1106.09 252.265 609.408 312.799 416.667 338.592 328.054 236.316 281.07 398.705 388.219 250.191 710.829 439.224 +MAP3K5 952.449999999999 508.925 2495.63 1640.59 9178.66 1182.11 815.168 356.299 3411.73 786.008999999999 1082.06 800.971 300.905 671.107 2377 710.453 771.084 1045.77 2946.21 1415.52 +MAP3K6 845.821 271.776 399.941 2691.71 269.928 350.983 981.765 374.998 626.321 1446.36 591.603 1014.56 265.837 288.445 461.642 847.364 746.096 607.933 299.742 287.069 +MAP3K7 370.317 1071 612.65 604.183 510.795 367.028 657.273 533.429 1090.38 291.857 1031.81 586.165 451.923 507.771 452.506 610.546 350.29 311.976 1316.42 786.638 +MAP3K8 104.227 26.5736 37.3278 43.3772 141.95 19.2539 769.167 21.0788 63.4249 115.406 85.2417 142.597 23.19 78.3859 173.048 72.1554 20.5266 143.402 15.9737 19.3966 +MAP3K9 44.6686 151.389 63.398 23.2378 12.8537 28.8809 3.7298 18.3589 63.4249 60.5993 20.3562 10.3155 28.8462 28.9603 3.2245 12.0259 70.5042 21.3577 163.495 22.8448 +MAP4 4085.49 8228.56 2854.69 2642.14 3633.13 2887.69 11338.2 3001.69 3243.66 3492.93 3079.52 7646.24 1736.43 2031.86 3019.75 2107.31 2240.96 2939.74 1508.57 4395.69 +MAP4K1 193.084 53.1472 31.4028 89.0782 84.9462 37.3045 178.201 12.5793 54.4397 139.913 61.0687 83.1311 19.7964 30.1187 49.9798 73.0805 109.772 269.26 15.0341 12.069 +MAP4K2 367.916 505.704 197.304 395.817 621.449 937.826 290.924 267.564 127.907 547.622 195.293 168.689 1169.12 182.643 182.722 141.536 199.911 305.873 272.962 695.259 +MAP4K3 1060.04 1141.05 486.447 652.982 793.018 624.95 421.882 842.471 652.748 346.218 698.473 416.869 402.149 590.791 501.411 496.762 568.496 781.083 578.342 1374.14 +MAP4K4 787.704 894.645 556.362 905.5 613.625 1514.24 8014.5 913.867 491.543 3940.29 587.786 915.048 447.398 473.019 421.336 1447.73 704.596 420.29 602.772 1610.34 +MAP4K5 449.568 596.296 790.994 681.642 274.957 271.962 638.21 583.066 792.283 652.334 377.226 373.18 172.511 471.088 463.791 582.794 830.878999999999 364.607 715.997 412.5 +MAP6 665.706 397.799 20.7377 677.769 368.287 92.2583 27.7663 1012.12 49.1543 43.6671 879.771 183.859 53.1674 776.137 13.4354 799.26 546.631 774.218 408.738 425 +MAP6D1 54.2747 21.742 52.7329 68.9388 32.9725 72.2022 40.6133 31.6182 60.7822 93.1269 36.2595 44.2961 75.2262 36.2969 46.7553 19.4265 32.1285 32.7994 31.4776 53.4483 +MAP7 310.759 43.4841 162.346 187.452 314.636 151.223 241.194 300.882 257.928 145.706 466.285 123.18 93.3258 157.158 33.3199 267.345 79.4288 119.756 760.16 359.052 +MAP7D1 1021.13 1086.7 1218.19 1367.93 866.228 741.276 4302.11 1318.78 1530.66 2552.75 1510.18 2400.49 852.376 1352.64 1593.98 2367.25 829.54 1545.39 1155.27 803.879 +MAP7D2 208.934 351.899 147.534 169.636 0.5589 1.6045 3.7298 487.192 5.814 0 209.924 103.762 63.3484 350.613 3.2245 241.443 325.301 22.1205 4.6981 187.5 +MAP7D3 40.8261 169.507 259.517 90.6274 49.7382 68.1909 306.672 155.031 162.262 315.027 148.855 205.704 72.3982 197.702 153.164 186.864 145.471 110.603 89.7346 14.2241 +MAP9 339.577 42.6788 137.461 234.702 259.868 57.7617 26.523 1135.53 551.269 5.7926 345.42 1285.19 70.1357 507.385 123.069 555.042 270.861 336.384 981.912 80.6034 +MAPK10 537.464 10.871 12.4426 1216.89 54.768 104.292 290.924 1063.46 262.685 9.8028 858.143 234.223 31.1086 171.445 5.9116 719.704 466.31 819.222 316.655 148.276 +MAPK11 92.219 68.0445 75.2481 1298.99 107.3 99.4785 427.269 84.6551 57.611 455.832 78.2443 83.7379 211.538 105.416 77.9256 94.3571 128.068 70.1754 59.6664 123.707 +MAPK12 162.44 40.4201 49.96 834.043 80.1736 36.5784 240.754 285.274 20.8087 445.28 40.8206 139.515 160.073 116.448 56.4611 48.1684 367.372 38.6117 48.8983 165.647 +MAPK13 802.594 2496.31 23.1077 189.775 1152.36 574.408 292.167 481.072 83.5095 537.819 3045.8 36.4078 92.7602 1743.41 24.7212 650.324 571.62 630.053 2167.25 67.6724 +MAPK14 778.578 2823.65 1061.77 806.352 1526.8 1679.5 1244.92 1457.5 1728.33 1648.66 1891.22 825.85 1996.61 1404 1143.09 1013.88 1318.61 842.868 1244.07 2821.55 +MAPK15 0 0 0.5925 216.886 8.9417 1.2034 0 0 7.3996 70.8477 2.5445 0.6068 0 5.7921 0 0 2.2311 1.5256 0 0.8621 +MAPK1 3134.49 4155.95 1929.79 1508.91 1581.01 1468.51 2222.13 1800.54 1915.43 2321.04 878.499 1796.12 1414.03 1927.21 1576.78 1120.26 3264.17 1244.85 3600.19 4042.67 +MAPK1IP1L 2274.26 1657.23 3049.62 2582.49 1278.11 1973.53 1843.76 2321.72 2838.27 3119.97 2134.22 1334.95 2546.38 1623.71 1811.64 2202.59 3063.81 1508.77 3439.51 3116.81 +MAPK3 946.681 1699.38 2347.24 1299.16 2543.42 947.136 1584.28 1787.88 1511.37 569.553 968.804 1587.12 1577.88 1087.41 1119.73 2653.55 1183.92 1032.92 850.416 1311.56 +MAPK4 399.616 1536.44 3970.97 2927.96 901.436 6103.09 2.901 2654.23 3188.69 6.2382 1537.53 385.315 4169.68 1349.94 2135.16 642.923 870.147 2543.86 2703.78 546.552 +MAPK6 633.525 930.479 493.557 398.916 460.498 969.916 1083.3 453.194 2235.73 1057.81 975.191 533.981 551.471 484.217 796.453 701.203 433.289 812.357 1885.84 1211.21 +MAPK7 968.3 621.053 992.12 972.091000000001 765.835 661.761 938.247 618.699 698.05 433.998 625.897 905.467 571.833 714.274 412.119 1298.8 659.924 768.856 333.568 780.948 +MAPK8 85.4947 440.88 113.168 109.992 91.6525 220.618 75.0104 194.129 182.875 136.794 152.036 194.782 24.8869 135.921 117.695 92.5069 74.5203 86.9565 169.603 224.569 +MAPK8IP1 1028.82 307.207 2198.19 1194.42 3553.21 3338.55 568.587 905.707 2958.77 184.026 481.552 614.078 2350.11 3592.24 3722.69 217.391 1734.94 992.371999999999 1799.86 1185.34 +MAPK8IP2 227.185 746.879 682.566 248.644 570.593 25.2708 42.6855 191.749 41.7548 405.926 19.7201 290.048 7.9186 584.226 166.6 18.5014 305.667 119.756 68.1231 375.431 +MAPK8IP3 3930.36 777.077 3853.65 10326.1 1023.83 1041.72 847.493 3772.76 3519.56 546.731 4077.61 2884.1 569.57 3587.61 1697.7 2849.21 2200.8 3712.43 621.095 743.534 +MAPK9 889.529 1750.23 1466.45 1483.35 751.103 806.659 684.625 1027.76 1043.34 997.215 2319.97 1792.48 656.109 1666.57 1968.02 1235.89 1186.97 1498.86 2013.62 1163.36 +MAPKAP1 1611.91 1805.8 2031.7 1831.91 1864.35 1978.34 2121.01 2068.1 2263.74 1629.94 1376.59 3466.63 2372.17 2903.76 2149.67 2784.46 4737.62 988.558 1978.39 2487.07 +MAPKAPK2 2214.22 3678.83 2807.29 1958.17 2143.22 1626.96 4922.09 2317.65 2571.35 3746.91 2266.54 1916.87 2825.79 2187.86 2232.97 2156.34 1470.33 4437.07 2191.21 1694.83 +MAPKAPK3 591.739 1658.43 1542.29 1191.32 1282.58 1539.11 827.186000000001 729.938 2152.75 349.783 2223.92 2975.73 401.018 1254.18 1015.18 3037 719.322 1983.98 3295.28 490.517 +MAPKAPK5 402.714 1028.64 583.054 528.273 969.879 641.26 670.564 649.332 846.57 463.406 695.948 956.189 458.71 808.943 992.938 651.249 869.634 756.011 1211.54 519.659 +MAPKBP1 699.328 369.615 620.352 625.871 165.98 750.903 319.105 421.575 543.869 279.381 808.524 328.884 583.145 422.821 477.227 245.143 447.122 1199.85 637.068 284.483 +MAPKSP1 1791.07 1117.3 1090.21 2442.29 644.362 653.831 755.077 2364.22 1776.43 483.458 1372.14 2082.52 502.262 2163.92 1312.37 1895.47 1155.73 2558.35 2148.93 586.638 +MAPRE1 3000.48 4213.53 2473.71 1841.21 3547.62 2570 2903.03 3531.03 4024.31 3168.1 5678.75 2098.91 4613.12 2818.8 5296.79 3283.07 3933.07 3304.35 3382.19 8568.97 +MAPRE2 1593.18 2940.81 1736.63 737.413 1375.91 2281.19 1289.27 3835.66 1797.04 311.463 1788.8 1177.18 1346.72 2243.85 990.461 2567.99 1590.81 2002.29 1594.08 9900.43 +MAPRE3 664.265 401.423 645.83 1108.44 1876.64 653.831 712.391 823.771999999999 897.463 252.646 1712.47 1075.85 358.597 919.78 630.928 1085.11 610.888 983.218999999999 1434.81 452.586 +MAPT 94.1402 153.402 888.757 362.51 1959.91 297.633 45.172 117.973 165.962 12.0307 367.048 210.558 285.068 108.891 119.307 470.86 66.4882 18.3066 102.419 41.8103 +MARCH10 3.3622 8.5358 3.555 13.1681 4.2976 0.7541 0 0 14.7992 1.6086 0 0 0 7.1049 0.5374 0 2.6774 1.5256 4.5102 1.2931 +MARCH11 1.9212 3.221 2.37 66.615 0 1.2034 0.4144 7.1396 1.0571 0 5.7252 0 15.8371 3.4752 6.9864 1.8501 43.2842 9.9161 3.7585 0.431 +MARCH1 21.1335 17.3131 30.2177 3.873 19.56 4.4124 108.579 8.8395 13.7421 62.3816 14.631 62.5 6.2217 13.901 24.1838 20.3515 24.9888 67.8871 14.5642 3.0172 +MARCH2 423.631 322.104 1062.36 488.768 638.773 582.03 850.394 350.52 650.106 425.532 488.55 587.985 359.728 596.583 632.541 800.185 460.955 748.284 418.605 697.845 +MARCH3 288.665 86.9682 187.232 176.607 186.099 364.22 185.247 234.246 470.402 30.2997 414.758 115.898 423.077 291.148 898.562 161.887 197.68 233.41 313.366 148.707 +MARCH4 126.801 4.8316 0.5925 13.1681 0.5589 12.0337 2.901 25.8385 5.814 11.5852 57.888 0.6068 17.5339 9.6534 2.1497 0 10.2633 11.4416 7.9868 18.1034 +MARCH5 892.891 1651.99 1137.02 1122.39 1084.74 1971.52 776.212 1601.31 952.959999999999 781.553 1489.19 1803.4 946.266999999999 1251.09 1133.41 1246.99 845.605 1090.01 1173.13 1804.74 +MARCH6 855.908 2541.81 2807.88 5709.53 1194.28 4912.15 1238.29 3955.33 2093.02 1727.97 4765.9 1751.21 1503.39 2632.3 2364.64 1481.04 1860.33 779.558 2619.69 2331.47 +MARCH7 1085.01 1498.19 808.769 676.22 1464.76 1074.61 1064.24 947.865 727.273 1381.31 807.888 740.898 996.606 763.78 756.147 864.94 705.489 669.718 918.957 1359.91 +MARCH8 34.5821 777.882 157.606 80.5577 93.3291 142.399 26.523 253.965 99.3658 35.6467 66.1578 200.243 9.0498 132.445 61.803 60.1295 44.1767 88.4821 151.75 138.362 +MARCH9 982.229 674.406 594.282 1333.08 325.255 476.534 843.348 783.994 498.414 68.1742 634.86 684.466 1050.9 368.375 368.668 980.573 793.396 434.02 109.937 1617.24 +MARCKS 1464.46 698.564 2441.71 1505.81 3031.8 267.549 12960.2 1132.13 2499.47 2593.74 1711.83 1213.59 2993.78 459.504 2627.97 2177.61 1970.55 1599.54 1296.69 915.948 +MARCKSL1 838.136 1683.8 3975.11 3572.42 2964.18 2065.78 1368.42 3887.67 1072.41 2524.23 6571.25 489.685 9054.3 5549.18 405.213 1876.97 3719.77 2353.17 1127.08 802.155 +MARCO 19.6926 7.2473 4.74 2.3238 1151.24 0.4011 340.24 1.3599 9.5137 36.5378 0 76.4563 1.1312 0.7723 2.6871 0.9251 2.6774 9.1533 0 1.7241 +MARK1 81.6523 14.0921 315.213 436.871 12.2948 13.6382 364.277 224.727 45.4545 78.8682 134.86 85.5583 137.443 130.901 29.558 111.933 440.875 12.2044 226.92 173.707 +MARK2 652.257 1253.39 639.313 400.465 569.475 829.523 836.718 704.439 760.042 959.786000000001 472.01 509.709 911.199 588.86 378.342 433.858 672.914 639.97 840.028 825.862 +MARK3 2026.42 1350.02 1946.97 3990.7 1118.83 1079.82 1628.26 1093.72 2107.29 1779.21 1358.14 879.248 1707.58 1122.5 1906.22 1125.81 1966.53 1123.57 3777.78 1155.17 +MARK4 366.474 1065.36 1868.17 3101.47 766.751 1053.35 671.363 2367.62 2426.53 745.015 2065.52 991.505 531.109 947.582 1260.24 1364.48 1012.94 1350.11 894.056999999999 1093.1 +MARS2 134.966 259.294 442.009 134.779 464.969 571.199 64.2354 326.381 326.11 125.209 305.98 257.282 310.52 322.425 612.656 111.008 379.741 209.763 602.302 289.224 +MARS 1476.55 5161.9 2442.97 3072.16 1921.23 2680.52 3976.17 1687.67 3338.04 1210.83 2346.67 2025.65 2531.69 2422.03 3945.89 1248.84 2672.95 2695.85 3006.4 7032.97 +MARVELD1 23.8425 420.479 80.5984 40.7668 390.417 58.6442 2828.08 47.9168 102.595 1007.53 88.1679 132.555 101.578 66.2651 43.2084 129.408 169.255 42.7155 39.3939 66.0474 +MARVELD2 1.4409 122.802 34.3653 20.1394 6.7063 36.1011 0.4144 23.7986 12.1564 52.5788 1.9084 64.9272 0 59.8513 20.4219 51.8039 16.0643 0.7628 26.7794 147.845 +MARVELD3 5.4611 4.5175 2.607 70.1549 0 1.5203 5.4289 9.3223 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46.1095 365.991 647.015 192.874 325.255 287.605 38.1268 100.974 134.778 107.385 168.575 357.403 54.8643 310.841 336.423 462.535 133.423 208.238 254.639 184.483 +MASTL 611.912 367.199 112.576 336.948 180.511 1119.13 229.59 295.443 624.736 479.447 359.415 198.422 279.412 234.386 285.906 206.291 236.948 299.771 240.075 1179.31 +MAT1A 44.6686 376.862 11.8501 75.9101 3323.52 961.492 5.8019 62.5564 594.609 0.4456 117.048 297.33 432.692 6.5643 0 42.5532 19.1879 444.699 805.732 56.4655 +MAT2A 2458.69 2208.03 3315.06 2694.81 2060.5 3429.2 2941.15 3612.63 2183.93 6365.6 2191.48 3441.75 1946.83 2134.96 3163.78 1016.65 3101.74 2803.97 2609.35 3456.47 +MAT2B 1285.78 1177.69 1987.26 414.407 2743.99 1400.72 1096.15 2289.77 1295.98 2129.89 2202.93 2756.67 1046.38 2559.32 2019.08 2453.28 2830.88 2581.24 3242.66 2058.62 +MATK 9.1258 25.3657 18.3676 491.867 17.8834 26.8753 92.4161 27.1984 73.4672 81.5417 29.2621 54.0049 124.434 6.9505 41.3812 60.1295 46.4079 75.5149 31.9474 4.7414 +MATN1 1.9404 1.4012 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1473.22 309.88 838.885 86.6228 225.832 25644.4 806.093 131.078 327.504 381.043 669.296 175.339 206.197 314.389 1580.94 522.088 395.881 38.055 242.672 +MMP25 14.4092 11.5434 30.7391 60.426 3.3252 7.8861 71.3054 15.3331 25.0846 34.5594 17.2646 30.7828 5.6561 17.6928 6.8037 26.309 11.0397 31.4874 12.0272 2.931 +MMP26 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +MMP27 0 0 1.185 0 0 0 0 0 0 0 0 0 0.5656 0 0 0 0 0 0 0 +MMP28 246.878 29.7946 43.8454 128.583 16.7657 132.371 1371.74 73.4357 10.5708 685.307 235.369 57.0388 28.2805 40.1583 16.1225 322.849 80.3213 28.9855 5.6378 12.931 +MMP3 0 0.8053 170.049 0 0 0 50.5595 0 2.6427 0 0 0 0 0 1.6123 2.7752 0 0 0 0 +MMP7 0 2.8184 1.185 1.5492 0 0 118.11 0 4.2283 3.5647 0 0 0 0 0 0 1.3387 0.7628 0.4698 10.7759 +MMP8 0 0 0 0 0 0 12.0182 0 1.0571 0.4456 0 0.6068 0 1.5446 0 0 0.8925 0 0.4698 0.431 +MMP9 20.6532 219.434 43.8454 597.986 19.56 12.8359 934.107 32.9781 105.18 1192.38 39.4402 46.1165 75.7919 92.2869 26.3335 33.3025 114.235 114.416 40.404 46.9828 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46.5898 578.58 10.6651 7.7459 58.68 8.4236 327.808 23.7986 43.3404 188.927 31.1705 185.68 78.6199 18.5346 23.109 64.7549 12.9407 218.917 21.6115 5.6034 +MNS1 12.9683 41.0683 15.9976 41.0534 16.2068 167.268 94.9026 20.3988 44.926 176.005 83.3333 38.835 50.3394 13.1287 101.034 44.4033 59.7947 46.5294 36.6455 122.845 +MNT 1186.36 763.79 785.069 640.589 411.318 575.612 753.419 775.155 765.856 311.017 411.578 586.772 371.041 702.77 573.425 481.961 498.884 443.936 412.497 423.276 +MNX1 11.5274 0.4026 13.6276 99.9225 0 14.8416 1.2433 10.5394 14.7992 0.4456 13.9949 0 9.6154 1.1584 5.3742 4.6253 1.3387 6.1022 3.7585 5.1724 +MOAP1 732.469 911.555000000001 2044.14 687.839 1493.27 582.832 260.671 1047.48 1104.12 491.924 545.165 922.33 824.095 1309.01 1328.5 419.056 1467.2 448.513 2201.08 598.276 +MOB2 1068.68 407.865 427.196 560.031 633.744 388.287 1049.73 729.938 552.326 780.662 713.104 466.626 1059.39 642.919 348.247 609.621 582.329 524.79 452.901 489.655 +MOBKL1A 840.058 454.57 400.533 756.003 471.675 583.634 348.943 1406.16 640.592 417.957 602.417 729.369 529.412 1271.55 950.154 1361.7 1316.38 845.919 910.5 1056.47 +MOBKL1B 343.9 694.537 323.508 292.796 460.498 890.893999999999 369.664 418.516 545.455 1144.7 409.033 344.053 435.52 279.564 440.683 363.552 410.977 395.118 748.414 722.414 +MOBKL2A 753.122 781.103 1433.27 1324.55 1104.3 2675.89 1493.58 2077.28 930.233 1050.69 1203.56 840.413 924.208000000001 1163.82 1039.37 1704.9 977.688 1361.56 567.066 1393.97 +MOBKL2B 73.487 164.273 508.962 157.242 113.448 443.241 58.4335 13.2592 670.719 726.746 293.893 225.728 334.842 968.047 862.554999999999 205.365 25.8813 210.526 254.17 371.121 +MOBKL2C 268.492 199.705 190.739 273.37 249.25 281.187 647.327 216.227 255.285 880.472 311.069 398.058 352.941 205.811 165.525 256.244 212.405 482.075 287.996 99.569 +MOBKL3 4254.08 1490.94 3213.75 810.225 2551.74 7633.77 831.33 1951.83 3158.03 851.509 1541.98 702.67 17266.4 2025.29 4353.62 787.234 1537.26 995.423000000001 3404.75 7134.48 +MOBP 0 1.2079 1.185 5.4222 0 1.2034 0.4144 0 2.1142 4.9014 1.2723 1.2136 0 1.1584 2.1497 0 0 0 0 0.431 +MOCOS 111.912 1017.45 782.699 402.788 826.549 1254.31 48.4874 454.214 515.328 140.804 167.303 416.262 939.479999999999 281.88 1215.64 257.169 570.727 67.1243 1044.4 606.897 +MOCS1 1051.68 630.857 751.533 378.59 2637.41 833.129 521.79 841.036 1177.64 135.618 759.943 923.447 1120.19 1234.34 350.289 1503.76 650.785 484.157 2726.94 532.884 +MOCS2 2327.09 620.453 2455.34 2584.04 1998.47 1484.56 821.384 1894.37 1386.36 1387.99 3652.67 3228.76 1665.72 3038.52 2055.62 2798.33 2050.42 4702.52 3960.54 1479.31 +MOCS3 113.833 233.123 196.119 109.218 399.024 138.789 256.942 295.103 229.387 201.404 353.69 375 409.502 405.831 246.137 370.028 424.364 316.552 346.723 181.465 +MOG 0 0 0.5925 0 0 0 0.4144 0.34 0 0 0 0 0 0.3861 0 0 0 0 0.4698 0 +MOGAT1 0 0 0 0 0 0 0 0 0 0.8912 0 0 0 0 0 0 0 0 0 0 +MOGAT2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +MOGAT3 0 0.8053 0 0 0 0 0.4144 0 1.0571 0 0 0 0 0 0 0 0 0 0 0.8621 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573.02 459.924 413.228 168.552 308.138 475.077 687.327 334.226 800.915 372.563 285.345 +MORC4 803.074 2042.14 6659.75 1200.62 258.192 835.138 442.603 660.922 1860.99 554.751 2390.59 2286.41 507.353 4987.74 1162.43 1977.8 3453.37 1176.96 1262.86 1009.05 +MORF4 1.9212 6.4421 1.185 1.5492 3.912 0.8022 4.1442 5.0997 1.5856 1.3367 1.9084 2.4272 2.2624 2.703 2.1497 2.7752 0.8925 0.7628 4.6981 3.4483 +MORF4L1 5319.88 5865.12 2515.18 2371.8 6055.77 3140.79 6060.09 4338.83 6145.35 4061.49 5319.97 3587.99 6393.1 3358.63 5313.45 3320.07 3083.89 4460.72 6713.65 5003.88 +MORF4L2 9871.76 4548.11 15089.3 20433 5851.23 5537.51 4443.02 7585.64 22847.2 6147.71 14999.4 5990.29 3126.13 12857.2 12829.2 10219.2 11500.7 10326.5 9735.96 4988.79 +MORN1 15.3698 14.4947 30.2177 15.4919 43.5908 26.8753 46.8297 7.1396 39.6406 121.199 15.9033 41.8689 15.2715 29.3465 73.0888 24.9769 54.44 3.8139 13.6246 11.2069 +MORN2 440.922 257.683 456.821 303.641 402.377 390.694 331.538 398.117 399.049 507.965 374.682 247.573 471.719 494.256 444.982 437.558 469.88 347.826 185.107 605.172 +MORN3 1.4409 0.8053 0.5925 0 3.3531 6.8191 0.8288 1.3599 1.0571 5.7926 0 1.8204 1.1312 0.3861 2.1497 0.9251 4.0161 0.7628 0 0.8621 +MORN4 155.139 454.167 284.995 310.612 226.337 352.587 94.9026 299.523 250 163.529 288.168 521.845 143.1 324.356 193.47 350.601 201.249 304.348 170.543 187.931 +MORN5 1.4409 0.8053 4.74 5.4222 1.1177 8.0225 1.2433 9.5194 1.5856 0 0 10.3155 9.0498 13.901 26.3335 56.4292 52.6551 8.3905 1.4094 0 +MOS 0 0 0 0 0 0 0 0 0 0 0 0 0 0.3861 0 0 0 0 0 0 +MOSC1 146.013 111.126 29.6252 144.849 103.388 152.026 28.1807 158.091 33.8266 96.6915 67.43 46.1165 449.095 108.505 25.2586 101.758 155.734 96.1098 139.065 265.517 +MOSC2 242.075 200.913 290.327 387.297 338.108 419.575 95.317 252.945 591.966 130.556 521.629 566.141 424.774 316.633 180.572 263.645 390.451 362.319 710.829 538.793 +MOSPD1 275.696 458.596 920.16 353.215 637.097 629.763 197.679 232.207 773.784 298.986 534.351 712.379 276.018 971.909000000001 410.587 793.71 323.516 323.417 1014.8 431.466 +MOSPD2 66.2824 323.312 299.807 45.701 74.8868 109.507 194.778 155.031 217.759 152.389 76.972 167.476 24.8869 228.207 211.205 148.936 149.487 125.858 347.193 265.948 +MOSPD3 652.257 282.647 1761.52 510.457 779.605 1309.67 630.75 656.842 787.526 416.62 262.723 408.981 357.466 958.007999999999 740.024 455.134 1011.6 496.567 726.333 621.121 +MOV10 3191.16 1236.48 756.629 1044.93 1913.53 1728.84 2303.36 1300.42 832.981 1391.11 1594.15 674.757 2543.55 631.335 753.997 1242.37 853.637 1604.12 958.891 1350.86 +MOV10L1 0.9606 7.65 0 237.8 40.7965 15.6438 7.874 58.4766 69.7674 0.8912 0.6361 1.2136 0 0.7723 2.1497 3.7003 316.377 2.2883 0 0 +MOXD1 557.637 1596.83 506.592 33.3075 37.4434 108.303 2937.84 6.1196 44.926 12.0307 163.486 145.631 1004.52 652.959 12.3606 6790.93 3376.17 102.212 18.3228 850.431 +MPDU1 2162.35 858.005 1231.22 1580.94 1878.32 1449.26 3093.28 1368.76 1338.27 1490.03 1403.33 1987.26 2378.39 1069.22 2172.26 2002.78 1479.72 1161.71 1255.81 1587.94 +MPDZ 500.48 456.18 243.519 609.605 321.343 269.555 441.359 359.019 76.1099 404.589 373.41 1314.32 113.688 569.553 462.717 501.388 267.738 318.841 339.676 340.517 +MPEG1 159.942 301.973 49.1779 113.865 1070.77 45.728 1666.8 86.355 116.808 1054.7 466.921 546.116 187.217 32.0494 67.1772 381.129 88.7996 722.349 474.982 11.6379 +MPG 1447.17 1395.92 2562.58 2475.6 953.968000000001 712.395 1435.14 2601.53 1540.7 1252.09 1403.94 1879.85 1919.12 2874.79 3014.91 2144.31 3639.45 2829.14 1121.45 613.362 +MPHOSPH10 844.38 447.322 790.401 705.654 762.28 830.726 759.221 703.759 744.715 1149.6 851.145 485.437 623.303 825.948 1039.9 815.911 652.387 1064.84 768.616 735.345 +MPHOSPH6 223.343 188.431 764.924 1225.41 141.95 292.018 284.708 287.963 547.569 399.688 599.873 412.621 348.982 438.266 799.14 793.71 459.17 624.714 309.608 372.845 +MPHOSPH8 488.473 1122.53 683.158 248.644 808.666 301.645 324.078 752.716 539.112 335.524 541.349 640.17 242.081 713.968 843.746000000001 237.743 552.432 565.98 1117.69 618.534 +MPHOSPH9 94.1402 631.324 166.494 179.706 89.9759 450.461 104.849 268.244 252.643 312.354 190.204 236.044 178.167 181.871 284.831 104.533 202.588 125.858 208.128 219.397 +MPI 1329.01 578.982 1472.97 680.867 974.087 334.938 943.224 561.647 1881.08 1030.63 1793.89 658.374 1277.71 787.721 632.541 877.891 910.754 1750.57 2936.81 471.983 +MPL 8.1652 10.0658 4.1475 3.0984 10.6183 9.2258 0 1.6999 8.4567 2.2279 4.4529 7.2816 4.5249 8.1089 1.0748 0.9251 5.3548 1.5256 1.4094 3.8793 +MPND 614.793 361.159 563.472 635.941 395.112 1188.13 396.602 914.887 505.814 201.404 668.575 606.189 417.421 681.147 413.812 350.601 649.264 1089.24 377.731 1837.07 +MPO 0 28.9894 0 0 0 0.4011 2.901 0 0 0 0.6361 0.6068 0 0 0 1.8501 0 0.7628 0 1.2931 +MPP1 1020.65 353.912 813.509 454.686 896.406 658.243 1051.8 292.043 788.055 748.58 2232.19 1701.46 655.543 1050.29 711.004 978.723 1030.79 2049.58 2351.42 535.776 +MPP2 97.0221 42.6788 9.4801 77.4593 4.4709 27.2764 246.581 26.5185 11.0994 51.2421 10.8142 41.2621 94.457 3.4752 13.9729 1.8501 126.729 3.8139 29.1285 212.5 +MPP3 29.2988 12.0789 174.789 75.1356 15.0891 285.199 105.678 21.0788 23.2558 91.7901 7.6336 26.0922 332.579 22.396 202.607 12.0259 79.4288 4.5767 20.6718 386.638 +MPP4 2.8818 2.0132 2.9625 11.6189 3.3531 4.8135 2.901 0.68 1.5856 0 3.1807 1.8204 1.1312 3.0891 0.5374 3.7003 3.5698 2.2883 0.4698 3.0172 +MPP5 580.692 546.369 434.306 310.612 392.317 440.834 221.301 434.155 383.192 503.955 326.336 533.981 613.688 371.078 644.364 566.143 586.345 293.669 1208.83 469.828 +MPP6 9.6061 20.1315 27.8477 35.6313 231.925 140.794 43.9287 3.3998 198.732 143.032 36.8957 82.5243 70.1357 35.5247 62.8779 103.608 30.3436 44.241 309.608 22.4138 +MPP7 149.856 134.881 36.1428 44.1518 566.122 205.375 20.3067 45.5574 69.2389 14.7042 262.087 2336.77 0.5656 194.613 26.8709 265.495 87.0147 385.202 272.962 32.3276 +MPPE1 483.67 997.316 375.648 294.346 604.683 610.108 766.266 584.766 426.533 282.945 243.639 777.306 423.077 513.177 747.548 472.711 351.629 450.801 489.077 487.931 +MPPED1 0 0.8053 0.5925 39.5043 0.5589 0 0 0 0.5285 0.4456 0 0 0.5656 0.3861 0 0 0 0 0 0 +MPPED2 428.914 19.7289 17.1826 278.079 271.046 4.0112 17.8201 489.232 115.751 0.8912 231.552 318.568 50.905 153.297 13.9729 291.397 167.336 257.818 210.477 90.5172 +MPRIP 2959.65 5514.43 1439.79 975.988 1990.09 1685.12 1813.92 2876.57 1539.64 2900.75 1953.56 1758.5 1032.24 1302.06 1429.53 1577.24 1300.76 1946.61 1832.75 1171.55 +MPST 663.785 622.467 1656.64 3160.34 598.535 1516.25 759.221 1387.8 1760.04 1019.94 1238.55 1247.57 1638.57 1863.11 2108.29 924.144 2887.1 1927.54 1070.71 1064.22 +MPV17 903.458 926.452000000001 776.774 1412.08 1049.53 1186.12 1524.24 743.537 767.442 1314.92 947.837 1186.29 1006.22 671.107 812.038 2000 544.4 1416.48 1459.24 1139.66 +MPV17L 80.2113 68.0445 286.18 219.984 80.4754 189.33 0 99.9542 203.488 28.9629 75.0636 74.0291 90.4977 308.524 441.22 48.1036 179.384 84.6682 27.2492 55.1724 +MPV17L2 704.131 316.467 1951.71 2757.55 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711.736 1162.47 359.878 504.31 +NACA2 129.203 130.452 116.131 162.665 111.771 181.308 81.2267 132.252 108.351 102.93 208.015 118.325 177.602 155.227 269.246 233.118 130.745 152.555 104.299 77.5862 +NACA 15499.5 19103.6 18727.9 18511.2 14501.2 25121.5 10277.2 17898.9 15449.3 12996.3 33959.3 15751.8 19441.2 17076.2 32035.5 26346.9 18615.4 18494.3 14876.2 12628 +NACAD 150.816 489.599 40.2903 292.796 137.479 11.6326 260.671 25.4985 12.685 31.1908 15.9033 9.1019 101.81 7.3366 4.8368 13.876 74.5203 27.46 37.1153 251.724 +NACAP1 182.517 242.786 223.967 233.153 186.658 278.781 140.489 196.849 191.861 154.617 385.496 205.704 251.131 215.079 386.403 310.823 206.604 202.136 174.301 129.31 +NACC1 1367.44 2559.52 3120.13 4361.74 992.529 2219.01 1172.81 2563.11 3373.68 1247.63 3190.2 1574.64 1656.67 2007.92 2437.73 2642.92 2637.66 2276.89 1533.47 2424.14 +NACC2 27.3775 192.457 95.9858 60.4183 27.384 45.728 21.1355 141.432 41.7548 75.7491 22.9008 105.582 18.6652 86.4948 45.6805 49.0287 143.686 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5438.6 491.867 1944.26 1744.48 4208.04 1000.56 4794.4 5616.13 789.44 1764.56 751.131 1342.99 2297.46 671.6 2651.94 1549.96 4523.37 1146.12 +NANOG 4.3228 8.0526 2.37 6.9713 0.5589 2.4067 0.4144 26.1785 3.6998 0 19.7201 7.8883 6.7873 14.6732 2.6871 5.5504 22.3115 10.6789 15.5039 20.6897 +NANOS1 245.437 228.291 161.161 187.452 90.5348 356.599 147.534 144.152 155.92 197.393 342.239 192.961 211.538 416.256 91.8984 142.461 144.132 213.577 101.01 180.172 +NANOS2 0 0 0 0.7746 0 0.4011 0 0 0.5285 0 0 0 0 0 0.5374 0.9251 0 0 1.4094 0.431 +NANOS3 0 2.0132 1.185 52.6723 0 1.2034 5.3875 1.3599 0.5285 2.2279 3.8168 1.2136 2.8281 1.5446 1.6123 0 3.5698 0.7628 0.4698 2.5862 +NANP 381.364 130.855 235.817 134.779 412.995 228.64 192.706 374.658 182.875 85.552 274.173 423.544 368.778 493.484 234.851 325.624 351.629 307.399 217.524 333.19 +NANS 1659.94 1055.29 1898.39 2218.44 815.931 2070.6 1464.65 3628.95 2780.66 1908.47 2234.73 1575.85 2654.41 4739.84 3054.14 3528.21 6694.66 1782.61 1350.72 1100 +NAP1L1 5910.66 26833.7 24744.2 10749 5965.24 8957.48 10352.3 15829.8 7782.77 7038.43 12119.6 8588.59 9817.87 19310.7 11445.4 13791.9 13329.3 10194.5 3920.6 18297.8 +NAP1L2 304.995 208.562 354.318 738.188 137.479 71.3999 23.2076 381.118 368.393 5.347 637.405 317.354 36.1991 144.029 274.62 564.292 59.7947 48.8177 977.214 6.8966 +NAP1L3 1496.16 198.094 1023.85 535.244 71.5337 186.923 196.85 873.749 1379.49 3.5647 516.539 189.927 312.783 1084.27 1164.05 440.333 273.539 177.727 1028.42 4.3103 +NAP1L4 4707.01 2287.75 2182.79 2604.18 1894.52 2622.54 3471.2 3177.12 3021.14 4813.19 2112.6 1708.13 4174.21 2401 1658.47 1621.65 3166.44 2672.77 3197.56 4096.55 +NAP1L5 779.539 605.154 21.3302 420.604 403.495 316.887 408.206 1442.2 485.729 15.1498 532.443 564.927 329.185 1303.99 32.7825 892.692 1323.07 773.455 591.496 305.603 +NAP1L6 0 12.4815 0 187.452 0 0.4011 1.6577 0 0 0 0 0 1.1312 0.3861 61.2656 0 0 43.4783 0.4698 0 +NAPA 4445.04 5713.52 14967.9 22402.1 7386.53 9065.68 2951.1 13204.1 10045.9 3986.96 12232.6 6656.18 6575.33 17929.2 18950 14671.8 14572.8 13111.5 8329.29 3788.14 +NAPB 1043.71 291.907 557.547 853.602 785.753 584.035 254.041 517.11 556.554 99.8106 661.578 672.33 682.692 995.848999999999 522.907 472.711 701.473 2001.53 1064.6 491.379 +NAPEPLD 430.461 832.438 595.61 269.063 538.38 656.799 288.562 657.297 591.194 266.405 347.08 730.449 252.726 749.957 727.605 378.113 562.825 590.122 692.943 414.905 +NAPG 1147.93 1063.35 882.24 368.706 568.357 679.503 963.945 813.233 704.545 432.216 418.575 657.767 651.584 749.879 800.215 757.632 541.276 606.407 849.424 831.466 +NAPRT1 3033.14 280.633 1290.48 1570.88 978.558 1080.63 537.505 114.573 69.2389 6161.52 285.623 131.675 2902.71 1417.13 1601.5 460.685 191.432 316.552 345.314 2104.31 +NAPSA 0.4803 4.0263 5.925 37.1805 3.912 13.2371 10.3605 5.4397 12.1564 2.6735 8.9059 9.1019 1.6968 5.0198 6.449 0.9251 3.1236 6.865 5.168 1.7241 +NAPSB 35.0624 5.6368 0.5925 37.9551 45.8262 9.627 149.606 14.9591 12.1564 55.6979 78.2443 152.306 80.8824 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1694.17 5130.09 2161.98 2407.09 1888.99 2855.87 2766.59 1325.35 1561.64 +PCNAP1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.4462 0 0 0 +PCNP 2449.57 4529.99 1526.29 1185.9 1515.62 1182.91 2632.82 1689.36 1705.6 2354.02 1782.44 3052.18 1379.52 1677 1977.16 1984.27 1857.21 1494.28 1968.52 2883.19 +PCNT 1205.57 696.551 2941.19 539.117 640.45 2587.65 632.408 861.17 589.852 961.123000000001 861.323 430.825 1395.93 924.027 4075.24 617.021 1432.4 938.978000000001 942.917999999999 469.828 +PCNX 2615.75 3629.31 4150.5 3064.29 1460.29 1907.74 1019.89 2051.44 2570.3 1829.56 2276.08 1366.5 2316.74 1438.75 2985.89 1757.63 2279.79 1156.37 5045.34 1903.88 +PCNXL2 106.148 176.755 97.1708 161.115 40.2377 40.9146 490.675 105.054 21.6702 147.488 152.036 108.01 24.8869 147.891 36.007 235.893 55.3324 158.657 32.4172 108.19 +PCNXL3 1589.82 2088.44 1629.39 1319.91 2205.25 2791.42 1749.69 1072.98 1801.8 1341.65 821.883 737.864 2011.88 1186.6 1025.39 653.099 1622.49 839.817 1970.87 1512.5 +PCOLCE2 91.2584 1.2079 24.8852 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0.8053 14.8126 0.7746 8.9417 5.6157 2.4865 0 4.7569 153.726 47.0738 2.4272 5.0905 25.8712 34.3947 10.1758 0.4462 3.0511 10.8057 2.1552 +PCTP 360.231 410.683 428.381 284.276 799.724 265.543 552.839 328.421 484.144 286.51 311.705 612.864 270.928 315.474 224.103 413.506 369.032 295.957 732.91 409.914 +PCYOX1 1686.84 2941.62 2283.51 955.074 3207.84 4604.09 2259.01 2228.23 1744.71 2075.08 1954.83 2616.5 2940.61 1844.19 1697.7 4231.27 1734.94 2057.97 1895.7 4762.5 +PCYOX1L 521.134 623.674 1551.18 872.967 755.574 1888.49 186.904 785.014 1217.23 291.411 1120.23 668.082 1063.91 627.088 784.63 1240.52 1285.59 894.737 872.445 834.052 +PCYT1A 85.975 580.19 284.402 191.325 165.98 391.897 230.833 370.238 198.203 300.769 509.542 498.18 344.457 398.494 235.926 338.575 299.866 272.311 485.788 404.741 +PCYT1B 0 7.65 19.5527 24.787 415.789 2.4067 26.1086 8.1595 33.8266 0.4456 10.1781 476.335 0.5656 439.811 3.7619 507.863 284.248 213.577 214.235 0 +PCYT2 1801.63 434.438 930.825 371.03 2313.67 2331.73 305.429 625.564 1267.44 864.877 486.005 1299.76 4570.7 272.227 524.52 390.379 363.231 760.488 1256.75 4040.09 +PDAP1 3457.25 3298.35 2765.81 2941.13 2555.65 2044.93 4380.02 2203.41 3662.26 3123.98 2222.01 2862.26 1903.28 2981.37 3367.46 2570.77 3079.88 2485.89 3489.78 1689.66 +PDC 0 0.8053 4.1475 0 0 0 2.901 0.34 0 0 0 0 0 0 0 0 0 2.2883 0 0 +PDCD10 425.072 807.677 297.437 89.8528 421.937 527.076 412.764 372.958 384.778 1145.15 416.031 770.024 469.457 310.068 390.703 390.379 327.086 259.344 667.606 583.621 +PDCD11 483.67 1797.34 964.598 622.773 947.821 1728.04 1187.32 984.922999999999 657.505 1109.95 713.74 847.087 850.679 665.701 851.807 421.832 550.647 894.737 801.503 902.155 +PDCD1 4.3228 18.1184 2.37 6.9713 3.3531 0.8022 92.4161 2.3799 6.3425 88.2255 2.5445 18.8107 9.0498 1.1584 2.1497 30.5273 25.4351 388.253 2.8189 0 +PDCD1LG2 1.9212 10.871 2.9625 5.4222 26.2663 0.4011 215.499 1.3599 8.4567 156.4 12.7226 7.8883 3.9593 5.4059 6.449 25.9019 10.2633 52.6316 10.8057 0.8621 +PDCD2 731.028 454.972 436.676 317.583 894.73 478.54 679.652 336.58 667.548 588.17 803.435 388.956 761.312 484.989 542.255 518.039 431.504 407.323 1066.95 1043.1 +PDCD2L 158.982 143.336 295.66 170.411 139.155 203.771 115.209 186.649 220.402 217.445 220.738 157.16 155.543 174.534 296.117 222.017 226.685 151.792 140.944 130.603 +PDCD4 5081.7 2166.98 1199.46 10296.8 8595.34 2579.22 1761.18 5565.15 3572.61 1258.7 6531.83 1040.88 1436.73 2364.17 1521.93 1349.76 2415.83 5474.17 2699.95 2881.63 +PDCD5 729.587 562.475 1710.56 2134 1546.36 1705.98 781.6 1173.95 2155.39 1710.59 2968.19 1515.17 1533.37 1424.85 1765.42 2443.11 1589.47 2372.23 1086.68 655.603 +PDCD6 3162.82 1489.73 3534.88 3638.26 2583.04 3802.25 1707 5825.22 3441.33 2410.6 4429.39 3076.46 2903.85 5081.19 4514.85 3270.12 5279.79 4612.51 5594.55 1324.14 +PDCD6IP 4388.09 5889.27 3129.61 2597.21 2371.23 2328.12 2498.14 2610.71 2550.74 1547.96 3654.58 4393.2 1444.57 2895.65 2385.06 3570.77 1795.63 2331.81 4016.44 3528.45 +PDCD7 620.077 430.009 326.47 378.776 421.937 383.474 485.288 620.804 684.989 744.569 765.267 395.631 369.344 374.167 404.138 338.575 428.826 1007.63 616.866 388.362 +PDCL2 0 0 0 0 0 0 0 0 0.5285 0.4456 0 0 4.5249 0 1.0748 0 0 0 1.4094 1.7241 +PDCL3 791.547 318.078 479.929 350.891 357.109 624.95 391.629 456.593 449.789 653.67 523.537 353.155 739.819 382.662 565.363 664.2 437.305 414.188 510.219 774.138 +PDCL 360.231 236.344 256.555 534.469 219.072 326.113 465.81 535.129 468.288 491.033 276.081 283.374 394.231 382.276 339.111 532.84 526.997 302.06 226.451 453.879 +PDDC1 2538.42 1525.97 2790.7 1769.95 1514.5 3397.91 1360.13 4122.26 872.093 1303.78 1501.91 1702.67 1938.91 2308.72 1437.06 1825.16 1488.17 1370.71 1404.28 1175.43 +PDE10A 193.564 767.413 130.944 519.752 16.7657 107.1 397.016 140.752 176.004 77.5315 122.137 35.801 76.3575 30.5049 108.021 74.9306 48.1928 40.4272 433.169 142.241 +PDE11A 63.8809 5.2342 14.2201 76.6847 30.7371 7.2202 8.2884 9.5194 48.0973 2.2279 124.682 23.0583 3.3937 6.5643 7.5238 867.715 59.3485 569.031 45.572 42.2414 +PDE12 578.29 1447.86 830.692 431.449 749.427 676.294 337.339 623.524 717.23 233.486 905.216 1290.05 538.462 857.612 632.003 1029.6 627.845 647.597 1169.37 993.103000000001 +PDE1A 69.1643 105.087 40.8828 6.1967 4.4709 20.0562 434.729 19.3789 250.529 6.2382 108.779 33.3738 13.009 26.2574 13.4354 135.985 33.021 102.975 114.165 5.6034 +PDE1B 44.6686 31.4052 45.0304 103.796 58.68 85.0381 304.6 52.017 155.391 65.9463 41.9847 115.898 61.6516 45.5642 63.9527 265.495 45.0692 79.3288 98.661 121.552 +PDE1C 2.4015 2.4158 4.74 3.0984 0 1.6045 6.2163 0.34 3.6998 0.4456 0.6361 3.6408 1.1312 1.1584 5.9116 10.1758 0.8925 0 4.2283 0 +PDE2A 844.861 32747.9 3169.31 163.439 782.399 2515.84 300.87 32416.8 98.8372 53.47 655.216 290.655 23061.1 17326.8 349.859 574.468 7882.2 2151.79 490.016 5744.4 +PDE3A 0.9606 53.9525 3.555 4.6476 0 17.6494 19.4778 35.018 9.5137 126.1 2.5445 4.8544 0.5656 2.3168 12.3606 20.3515 11.1557 7.6278 3.7585 3.0172 +PDE3B 22.0941 37.4446 14.2201 52.6723 6.1474 2.0056 38.5412 317.202 11.6279 916.565 25.4453 32.1602 328.62 194.613 19.8845 13.876 187.416 51.106 17.8529 305.172 +PDE4A 60.5187 228.291 132.721 292.796 454.909 89.8516 491.09 73.4357 88.2664 513.757 81.4249 189.927 106.335 87.2671 60.7282 148.011 57.5636 175.439 124.031 21.1207 +PDE4B 119.116 175.144 1397.72 67.3896 201.747 516.245 469.126 84.9951 244.715 1899.52 126.59 146.845 35.6335 57.1484 45.1431 160.962 39.7144 129.672 595.725 309.914 +PDE4C 75.8886 6.8447 227.522 44.1518 33.5314 17.2483 15.748 9.1795 96.723 2.2279 13.3588 12.7427 45.2489 19.3069 7.5238 5.5504 27.6662 72.4638 2.3491 11.6379 +PDE4D 127.935 57.0165 190.194 192.099 49.7382 34.8977 461.31 169.422 71.3531 2480.56 216.756 32.767 19.7964 105.458 347.639 18.5014 324.9 73.2265 375.255 98.25 +PDE4DIP 574.448 355.523 563.472 295.12 1355.23 584.837 1704.1 207.388 856.765 2947.09 185.751 658.374 319.57 459.89 1147.92 372.803 243.195 502.67 526.192 347.845 +PDE5A 378.002 147.697 52.1404 237.645 35.7668 158.042 109.822 332.742 90.2748 33.4187 199.109 84.8058 84.8416 149.922 17.7348 712.933 192.325 758.658 43.6927 237.931 +PDE6A 15.8501 8.4552 797.511 17.8156 154.803 312.074 1.2433 0.68 516.913 5.7926 103.69 3.034 304.864 96.1483 499.798 1.8501 12.4944 45.0038 1481.79 37.5 +PDE6B 8.1652 53.1472 2.9625 52.6723 38.5611 2.8079 55.947 115.277 3.6998 11.5852 5.7252 9.7087 3.9593 1.5446 5.3742 3.7003 16.9567 16.0183 2.3491 0.8621 +PDE6C 0 0 0 0 0 4.4124 0 0 0 0 0 0 0 1.1584 0 0 0 0.7628 0 0 +PDE6D 941.403 306.804 639.905 885.36 501.295 2192.54 566.515 1139.61 669.133 467.417 1015.27 295.51 1647.06 666.86 683.595 661.425 705.935 663.616 573.174 1042.24 +PDE6G 30.2594 14.4947 39.1053 10.8443 21.2366 25.2708 30.2528 26.5185 10.5708 16.041 54.0712 160.194 117.081 52.9009 61.2656 172.063 18.7416 28.9855 17.8529 69.3966 +PDE6H 0 0 9.4801 0.7746 33.5314 0 0 0.68 8.4567 0 5.7252 2.4272 11.8778 7.7228 19.8845 0.9251 1.3387 0 11.7454 0 +PDE7A 44.1883 53.5498 148.126 324.555 630.39 57.7617 258.599 108.114 165.962 801.603999999999 216.921 172.694 155.543 117 134.892 265.495 254.797 395.881 145.173 146.121 +PDE7B 207.973 131.66 412.976 753.679 78.2399 598.075 670.535 520.17 672.304 36.9834 914.757999999999 72.8155 841.629 327.059 215.505 192.414 503.793 138.825 884.191 790.517 +PDE8A 1363.59 437.257 1327.8 1601.86 634.302 1304.85 797.762 1015.52 1815.01 1268.58 1869.59 297.33 888.575 983.493000000001 2519.41 354.302 610.888 2104.5 1455.49 694.397 +PDE8B 27.8578 253.255 53.9179 281.952 2419.85 1292.42 21.5499 121.713 155.391 33.4187 343.512 455.097 126.697 549.088 190.783 141.536 110.219 110.603 863.518999999999 1057.33 +PDE9A 345.821 506.106 469.264 1294.35 353.197 585.64 158.724 402.877 426.004 42.3304 730.28 168.689 635.747 216.623 942.631 72.1554 550.647 199.085 408.738 146.121 +PDF 198.775 250.496 169.913 112.138 150.316 302.483 232.201 200.041 178.467 213.448 158.671 346.468 604.864 324.402 237.651 453.691 213.78 282.799 123.542 260.022 +PDGFA 413.545 168.702 216.857 659.179 16.7657 328.119 164.525 108.454 242.072 592.18 60.4326 228.762 137.443 235.544 182.185 250.694 92.8157 99.1609 79.8685 23.7069 +PDGFB 288.665 362.367 109.613 318.358 433.673 575.612 595.11 395.397 450.846 148.379 352.417 464.199 320.136 164.881 200.457 501.388 274.431 352.403 423.303 99.569 +PDGFC 890.49 851.966 923.122 224.632 855.61 35.7 893.078999999999 1534.67 564.482 193.829 468.193 1029.73 492.647 1987.45 214.43 888.067 711.736 688.787 652.572 1241.38 +PDGFD 347.743 582.203 958.08 295.895 68.7394 639.791 1997.93 1197.41 69.2389 62.3816 713.74 7491.5 276.584 2867.46 694.881 10950 2592.59 178.49 610.289 2400.43 +PDGFRA 50.5956 480.366 163.466 805.531 12.0154 44.0393 1401.79 29.8571 35.518 23.5713 314.51 288.932 81.8835 367.993 188.134 1211.48 241.08 436.323 57.5335 48.4741 +PDGFRB 1077.33 2344.52 1088.43 1039.5 649.95 1094.26 29643.6 1454.1 1924.42 600.201 1603.69 1347.09 1528.28 1118.64 629.854 3157.26 1197.68 1379.86 757.811 315.948 +PDGFRL 9.6061 4.8316 31.4028 357.862 5.5886 61.3718 1278.49 8.8395 44.3975 172.886 24.173 6.6748 23.7557 16.9901 24.1838 95.2821 13.8331 5.3394 2.8189 18.1034 +PDHA1 2162.63 1587.35 2996.49 2861.09 1299.05 1214.63 1359.9 1195.19 2162.51 2144.12 2824.79 6395.16 1208.15 2623.26 1934.68 2578.55 2805.84 3202.95 3586.7 1293.22 +PDHA2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.7628 0 0 +PDHB 2742.56 1990.2 1589.69 711.851 3055.83 2217.81 1502.28 1665.56 1036.47 903.197 2074.43 3173.54 3996.04 1380.83 1679.43 2707.68 891.12 1303.59 2007.99 2771.98 +PDHX 644.572 709.048 774.611 360.186 1404.1 1076.6 287.94 962.493999999999 880.766 639.559 555.343 825.085 1556.02 1006.46 527.255 560.019 680.134 374.523 1059.69 1249.93 +PDIA2 0.5764 2.8184 1.5287 444.431 1.1177 2.1741 0.949 2.4003 0.6818 83.7696 1.2723 1.8204 18.2523 0.7723 1.0748 2.1647 1.1111 1.5256 0 0.9224 +PDIA3 7975.95 6145.26 9652.44 6340.02 6138.43 5131.54 11506.8 6294.7 12605.1 28028 11974.5 3916.24 7102.36 7397.19 4511.07 9497.64 5533.67 24935.1 9052.36 5118.06 +PDIA3P 2117.68 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696.118 480.549 1903.22 425.862 +PSMC2 2118.16 1900.42 2604.06 1831.91 2604.83 3505.01 2660.17 2478.46 2650.63 2479.67 2360.05 2618.93 2321.27 2585.96 2947.74 2012.95 2784.03 3008.39 4751.23 1723.28 +PSMC3 2850.14 1377 2060.73 2901.63 2365.64 3000.8 4341.48 2625.67 2208.77 4828.78 2111.96 1770.02 6985.29 1662.71 1686.42 1941.72 2690.76 2274.6 2119.33 3068.97 +PSMC3IP 145.231 63.3136 44.1831 225.089 17.1569 107.132 311.082 116.647 228.504 561.533 56.7812 74.6541 344.627 33.1769 126.358 88.9639 233.19 56.6667 30.8386 399.129 +PSMC4 5302.59 1091.93 3896.9 3544.54 2186.81 5222.62 1955.66 2552.91 2989.43 3203.3 4484.1 2203.88 4516.97 2568.2 5304.85 2800.18 2198.57 2818.46 1751 2102.16 +PSMC5 4450.03 1402.61 2257.29 2410.46 4085.8 3553.23 3819.73 2076.26 2031.65 5001.56 3479.01 3877.43 6221.15 2321.46 3409.46 3789.08 2204.75 3542.33 3319.24 3159.05 +PSMC6 1015.37 639.78 1933.94 1453.14 1054 1717.21 869.043 1092.02 1270.08 1617.47 1424.3 1010.92 2107.47 985.809 1764.88 1121.18 1423.92 890.16 2911.91 1044.83 +PSMD10 1296.35 1074.22 2020.44 1549.96 673.422 1016.04 847.078 1348.02 2266.91 1203.52 2477.74 1654.13 817.308 2485.95 1573.02 2553.19 2211.96 1720.82 2942.92 1202.59 +PSMD11 812.68 822.976 916.605 941.905 830.461 1872.44 878.989 853.01 1178.65 771.304 982.188 1361.04 1664.59 754.899 853.957 801.11 641.678 470.633 1147.76 2256.47 +PSMD12 754.563 611.998 715.153 832.688 841.079 1297.63 639.453 695.6 858.351 1636.18 959.923999999999 780.34 1250.57 999.324 682.52 904.718 677.376 688.024 1304.2 884.483000000001 +PSMD13 2512.01 1343.98 1875.87 2530.6 2994.35 1872.04 3682.14 1585.33 1855.18 3776.76 2131.68 1643.2 3441.74 1690.12 1434.37 1567.07 1765.73 1641.49 2563.78 1796.98 +PSMD14 1556.68 886.189000000001 1517.4 1431.45 2778.64 2581.63 1333.61 1482.31 1662.26 1671.38 1676.21 1422.33 2475.11 1379.28 1832.06 1345.98 1141.45 1210.53 2730.09 2803.45 +PSMD1 1287.7 1625.42 1887.13 999.999999999999 4047.8 5135.58 2329.47 1461.23 1988.37 2417.29 1680.03 1515.78 3540.16 1644.17 1891.17 1355.23 1512.27 1113.65 2573.17 2953.45 +PSMD2 2697.89 7859.35 3704.34 2476.37 3369.35 9049.34 3946.54 2483.9 3379.49 6260.44 2924.3 6980.58 6304.86 3134.67 3871.56 2925.99 2344.04 2112.13 4855.06 5230.17 +PSMD3 2324.21 1981.34 2317.29 2199.07 2712.13 1434.42 3393.7 2477.44 2626.32 2796.03 2478.37 4728.16 2832.01 2565.11 2545.75 2031.45 2270.86 1741.42 3310.78 4105.6 +PSMD4 4007.2 2724.6 1744.33 2292.02 3378.29 4581.23 4055.95 1964.41 2544.4 9523.89 2762.72 2217.84 5200.23 1796.7 2459.76 2860.31 1811.69 4070.94 2390.89 2905.17 +PSMD5 654.179 812.106000000001 749.519 1143.3 774.575 1006.82 493.991 1129.41 815.539 1097.92 573.155 899.272 726.244 1395.5 963.053000000001 1267.35 1451.58 562.929 526.192 1148.28 +PSMD6 2338.14 1921.75 1628.2 1193.65 2443.88 1671.48 957.729 1400.38 1757.4 827.448 2395.04 2200.85 1694.57 1632.98 1369.34 1804.81 1546.63 1215.87 2322.29 2314.66 +PSMD7 1996.16 1904.44 3015.85 3286.6 2379.61 2440.03 2534.6 2400.94 3322.41 2166.87 2523.54 3729.98 4734.16 3707.69 3095.53 2546.72 3519.86 2393.59 2839.56 2726.72 +PSMD8 2433.24 1910.48 6564.95 3901.63 5641.66 5911.75 3252.38 4211.68 6972.52 3338.75 5989.19 4617.11 5242.08 3940.15 7380.89 4332.1 4081.21 4237.99 2708.48 2930.6 +PSMD9 1227.19 1080.26 1625.83 1118.51 1157.95 1494.99 1990.88 1522.43 1686.58 1636.63 1540.08 1618.93 1575.79 1541.46 2360.88 1474.56 2058.46 1054.16 1659.85 1146.55 +PSME1 5348.22 2935.98 5032.14 4942.68 3397.85 3288.41 3346.04 6456.9 6252.64 9447.25 7801.53 3151.09 10820.7 2332.66 4413.27 4847.36 6668.9 6253.24 6314.31 6421.98 +PSME2 4335.25 2052.61 4151.09 6869.09 1241.22 2999.6 3757.98 13010 4097.78 10869.6 6688.3 1492.72 12444 4585.77 3665.73 5210.92 14441.3 9187.63999999999 4780.83 4900 +PSME3 1197.41 1561.4 1752.63 1139.43 1943.14 1025.67 1857.85 1431.32 1565.01 1948.54 1606.87 2478.76 1874.43 1734.92 1735.32 1512.49 1695.67 1488.18 1876.44 3179.31 +PSME4 1515.85 1290.83 789.216 578.621 2339.37 2298.03 1326.15 766.315 1048.63 1222.23 800.255 637.136 1783.37 952.216000000001 761.521 668.825 1006.25 795.576 1509.98 8647.84 +PSMF1 3546.11 2357.8 2118.2 2012.39 2825.02 2380.26 2174.06 2868.07 1461.94 3431.88 4008.91 2854.37 4369.91 3435.08 3096.06 2860.31 2036.59 3274.6 1803.15 888.793 +PSMG1 1001.44 557.24 757.221 197.521 483.97 655.836 491.09 1014.5 414.905 1541.72 611.959 345.874 985.294 399.652 1141.48 763.182 989.29 634.63 639.887 374.569 +PSMG2 1610.95 549.591 805.214 1477.15 946.143999999999 906.137 1387.48 1206.59 949.260000000001 827.002 834.606000000001 724.515 1162.9 878.463 1112.45 1133.21 1240.96 1228.07 988.958999999999 959.483000000001 +PSMG3 1463.02 369.615 918.383 2160.34 433.673 634.577 1912.56 339.3 1424.95 1605.88 576.972 546.116 1452.49 678.83 973.801 627.197 1383.31 1106.79 956.541999999999 730.603 +PSMG4 353.506 138.907 181.306 419.055 250.927 104.292 195.193 182.569 359.937 517.322 430.662 300.364 351.244 271.841 178.423 207.215 323.07 190.694 230.679 259.914 +PSORS1C1 0 5.6368 16.5901 3.0984 2.7943 9.627 94.9026 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1375.79 1699.35 1703.26 1411.14 1838.85 1188.36 +RBM26 621.038 847.94 470.449 387.297 741.603 223.426 372.565 473.592 514.799 434.444 359.415 475.121 301.471 414.712 532.043 186.864 312.807 536.995 904.863 626.724 +RBM27 536.984 740.437 580.062 707.978 531.473 605.295 370.079 871.368999999999 754.757 777.543 832.697 734.83 375 626.701 872.229 612.396 834.895 613.272 686.399 754.31 +RBM28 405.86 504.496 478.151 323.78 314.636 371.44 618.317 376.698 448.203 714.27 304.071 376.214 134.615 498.504 526.132 337.65 552.432 501.144 558.609 222.414 +RBM33 989.913 1257.41 937.343 1250.19 661.128 883.273 868.628 805.073 993.658 746.352 778.626 1109.83 479.638 1018.63 800.215 673.451 804.105 939.741 669.955 560.345 +RBM34 739.193 630.117 487.632 388.071 611.948 1155.64 715.292 331.481 387.421 1038.21 449.109 282.494 919.682999999999 191.524 415.87 288.622 482.374 628.528 393.704 543.198 +RBM3 1873.2 2907.39 5946.38 10369.5 1394.35 2019.25 5227.1 2943.55 8087.21 2527.35 8690.2 5373.18 1813.91 5257.26 4714.77 4503.24 4346.72 3553.01 4649.28 3521.12 +RBM38 1001.44 937.323 608.502 1234.7 594.065 906.939 201.823 787.054 688.161 998.997 1706.11 476.335 1772.62 1807.51 1079.13 998.15 883.534 1338.67 808.551 1307.76 +RBM39 4554.76 3577.37 3037.18 5582.49 4155.1 3119.13 3796.52 3961.79 3123.15 3604.77 6106.23 4669.3 3401.02 4618.98 3987.64 3952.82 4189.2 5478.26 2907.68 6112.93 +RBM41 66.7627 73.6814 181.306 103.796 30.1783 55.355 48.9018 77.8555 71.3531 82.8785 164.758 94.0534 19.2308 287.673 40.3063 73.0805 128.514 147.216 112.286 114.655 +RBM42 1663.78 1298.08 2667.46 4552.29 2051.56 2049.34 2863.66 5048.37 3126.32 2598.64 4057.89 2276.7 3246.61 2433.83 4250.97 3840.89 3641.68 3019.83 1178.29 1890.52 +RBM43 117.195 248.826 337.135 49.574 832.138 561.572 159.552 224.727 279.598 159.964 198.473 153.519 172.511 598.513 640.602 359.852 251.227 187.643 340.146 321.983 +RBM44 7.2046 2.0132 1.7775 10.8443 2.2354 0.8022 4.1442 2.7198 2.6427 1.7823 2.5445 1.8204 0 2.3168 0 0.9251 0.4462 5.3394 2.8189 1.2931 +RBM45 148.895 169.507 169.456 99.9225 199.512 121.54 129.3 185.629 154.863 138.131 155.216 143.811 138.575 188.435 155.851 140.611 166.89 138.062 202.49 198.707 +RBM4 2195.73 1673.77 1887.21 1602.19 2652.42 3643.21 2464.83 2177.11 1403.27 2836.69 2512.74 1146.92 5200.55 1543.42 1352.13 1721.68 1673.6 2065.05 2050.59 2498.42 +RBM46 0 0 1.185 97.5988 1.6766 0 0 0 10.5708 0 0 0 0 0 0 0 0 0 0 0 +RBM47 2351.1 2470.54 2049.47 3095.28 4777.11 3099.48 557.397 2640.97 3011.1 983.848 1913.49 4186.29 2079.75 2782.51 2775.76 2538.39 1937.97 3598.02 7251.59 3747.41 +RBM4B 479.347 196.886 239.964 457.01 182.746 303.65 228.346 185.629 199.789 498.608 249.364 137.136 281.674 262.96 140.266 183.164 222.222 402.746 170.073 169.397 +RBM5 1903.29 2194.98 1224.25 4145.17 1787.35 1021.59 1598.67 1432.26 1109.28 914.559 1653.8 1613.54 1123.3 1222.33 1282.09 1414.71 1135.78 1390.82 1056.21 1348.45 +RBM6 2111.61 1509.16 1082.78 2553.06 1320.58 947.453 1157.81 992.644 1079.99 610.569 1344.31 1474.15 895.385 783.96 679.296 1298.04 918.786 1051.18 802.913 1064.34 +RBM7 144.572 264.931 128.573 61.9675 237.514 226.635 401.16 131.912 232.558 470.09 146.31 174.15 244.91 206.97 128.443 147.086 152.61 117.468 178.06 469.397 +RBM8A 1487.81 2202.67 1933.78 1044.55 1015.41 2599.84 1688.87 1873.17 1934.29 4159.71 1416.51 893.277 1973.6 1088.48 1664.62 886.457 1141.62 1462.13 1323.37 2039.64 +RBM9 844.861 2454.43 1376.39 1017.82 831.02 834.336 2975.55 1428.6 1246.3 1314.02 802.163 901.092 981.9 1142.97 891.576 864.015 2740.74 1556.83 1310.31 1975.86 +RBMS1 685.879 563.28 776.181 821.069 3373.26 726.434 3162.45 1109.02 861.521999999999 2178.9 1433.21 562.5 529.977 660.682 958.753 842.738 635.431 1068.65 677.472 1275.43 +RBMS2 625.994 757.811 991.29 1455.38 868.855 1347.22 1855.07 1141.13 1043.64 836.288 1082.46 680.491 915.017 937.685 998.442 1235.37 625.832 926.712 1033.38 1068.25 +RBMS3 34.5821 21.3394 4.1475 14.7173 12.8537 17.6494 41.0278 72.7558 11.0994 48.123 30.5344 7.8883 10.7466 9.6534 7.5238 60.1295 15.618 19.8322 8.9265 12.931 +RBMX2 270.893 209.77 606.725 680.093 167.098 310.469 452.549 245.806 477.801 614.905 711.196 324.636 295.249 511.246 663.711 591.119 465.863 503.433 425.182 167.241 +RBMX 2730.07 2528.12 3190.64 3115.41 1510.59 3129.16 2229.59 3269.59 3445.03 3647.99 4441.48 2541.87 2618.78 2869.39 3828.56 3342.28 4095.05 4274.6 2016.91 3063.79 +RBMXL1 540.706 361.816 188.885 184.353 248.177 273.133 387.538 341.061 330.729 775.266 209.287 237.257 147.63 166.707 195.056 282.359 325.386 275.698 232.92 450.065 +RBMXL2 0 0 1.185 68.9388 0 0.8022 0 0.34 0 0 56.6158 0 0 0 0 0.9251 0.4462 0 1.8793 0 +RBMXL3 0 0 0 0 0 0 2.4865 0 0 0 0 0 0 0 0 0 0 0 0 0 +RBMY1A1 0 0 0 0 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 42.0748 0 0 +RBMY1A3P 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +RBMY1B 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +RBMY1E 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +RBMY1F 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +RBMY1J 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 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517.291 252.047 340.098 1043.38 380.581 184.918 1006.22 479.032 489.958 420.185 481.552 376.214 436.652 353.702 260.648 819.611 636.769 749.809 462.767 162.069 +RBPJL 0 0 0 0 0 0 0.4144 0 0.5285 0 0 0 0 0.3861 0 0 0 0 0 0 +RBPMS 2825.65 1035.16 334.765 1429.9 994.765 467.308 1038.54 3876.45 405.391 77.9771 3543.26 621.359 1380.66 758.374 307.403 694.727 725.569 4462.24 418.135 783.19 +RBPMS2 485.111 220.642 17.7751 235.476 26.8251 37.3045 131.372 274.024 26.9556 193.383 138.677 255.461 203.054 110.049 3.7619 59.2044 232.039 35.0877 384.308 280.172 +RBX1 1984.45 570.028 1032.65 2119.97 1052.2 1233.28 1241.72 759.448 1119.85 3221.28 805.929 939.8 1621.49 895.743 1190.78 912.1 2205.5 1240.11 955.011 1728.33 +RC3H1 632.085 372.836 505.407 367.932 489.558 417.168 399.088 356.979 455.603 462.961 433.206 465.413 250.566 580.751 240.226 410.731 363.677 616.323 559.079 494.828 +RC3H2 111.431 466.649 92.4308 97.5988 87.1816 183.313 102.362 191.409 161.734 104.712 68.0662 191.141 116.516 150.208 121.456 88.8067 133.423 61.0221 227.39 188.362 +RCAN1 265.13 509.327 869.797 245.546 1594.98 625.752 1861.58 555.188 623.679 1336.3 434.478 532.16 372.738 388.454 853.957 735.43 598.394 571.32 832.981 251.724 +RCAN2 178.674 285.062 127.981 58.8691 67.0628 159.647 348.943 186.649 612.579 19.6057 167.939 289.442 79.7511 167.97 63.9527 922.294 2321.29 161.709 156.918 62.931 +RCAN3 1.9212 2.4158 3.555 7.7459 40.2377 10.0281 4.5586 2.7198 0.5285 111.841 4.4529 21.8447 3.9593 6.5643 9.1361 31.4524 3.5698 9.1533 1.8793 7.7586 +RCBTB1 491.835 1166.82 630.425 561.58 737.132 350.18 394.944 475.632 503.171 298.986 351.781 837.379 120.475 652.573 745.936 359.852 485.051 414.188 1502 562.931 +RCBTB2 463.497 315.26 505.407 492.641 283.899 205.776 393.701 403.557 150.634 121.644 307.252 313.714 139.14 331.306 289.668 327.475 308.344 398.932 866.338 102.155 +RCC1 145.961 140.188 718.045 728.73 155.692 405.323 554.811 322.699 529.551 1661.36 552.067 196.893 274.474 366.862 834.072 614.403 488.237 625.957 247.691 350.547 +RCC2 1304.51 1399.54 1797.66 2475.6 772.899 1378.66 3783.26 2721.2 2121.56 6194.5 1528.63 817.961 2545.25 1321.36 3413.68 1565.22 1886.66 1629.29 1144.94 1118.53 +RCCD1 536.984 287.075 632.203 616.576 186.658 259.928 84.5421 191.409 480.444 536.928 232.824 373.18 322.398 314.316 240.763 218.316 727.354 623.951 658.21 374.138 +RCE1 493.276 294.323 184.269 291.247 259.31 384.677 651.886 220.987 344.08 604.211 190.204 117.112 528.846 137.851 245.062 139.685 233.824 213.577 255.579 520.69 +RCHY1 376.081 350.288 346.615 426.801 279.987 267.148 225.446 533.089 377.907 237.941 400.763 581.918 239.819 655.276 370.818 368.178 640.339 524.79 918.017 236.207 +RCL1 245.437 391.759 292.105 265.685 336.432 427.196 320.348 196.169 312.368 736.103 313.613 841.626 291.855 856.84 823.324 389.454 298.974 317.315 297.392 151.293 +RCN1 2173.39 1402.36 2883.72 2769.95 780.164 1813.88 6682.14 1531.27 2105.71 5772.08 1744.27 1890.17 3320.7 1617.92 860.943 3402.41 2016.51 1343.25 1370.92 2017.67 +RCN2 756.004 551.604 871.574999999999 295.895 792.459 733.253 1035.64 861.85 1089.32 2141.47 697.837 846.481 1118.21 613.573 694.881 680.851 771.531 878.718 1563.54 726.293 +RCN3 117.675 204.939 901.200000000001 1998.45 247.015 190.534 319.519 191.749 446.617 158.628 330.789 54.0049 878.959 307.752 798.065 273.82 475.234 403.509 181.818 132.328 +RCOR1 631.124 644.611 1715.89 1378.78 207.336 436.422 974.72 691.86 931.818 1473.54 545.802 334.952 634.05 374.94 906.086 473.635 892.459 347.063 1105 481.466 +RCOR2 9.1258 32.6131 4.74 72.8118 1.6766 3.6101 198.094 19.0389 14.7992 30.2997 10.8142 32.767 2.8281 3.8614 3.2245 13.876 178.492 12.2044 19.7322 3.8793 +RCOR3 802.594 1695.07 683.751 1079.01 468.322 727.236 403.233 684.38 686.575 612.677 607.506 632.282 696.833 536.731 558.914 532.84 439.09 728.452 537.468 766.809999999999 +RCSD1 104.227 114.347 31.9953 82.1069 192.806 83.8347 675.922 147.551 121.036 400.579 83.9695 256.068 57.1267 67.9602 74.1636 246.069 63.8108 383.677 212.356 16.3793 +RCVRN 0 0 0 2.3238 0.5589 0 21.1355 0 0 0 0 0 0 0 0.5374 2.7752 0 0.7628 0.4698 0 +RD3 0 0 0 0 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 0 0 0 +RDBP 2004.07 1642.8 964.005 855.151 1913.53 2072.33 1690.75 1256.47 2500.6 2609.25 1782.89 1216.75 3637.44 987.226999999999 1116.6 1215.28 1092.82 1389.54 1678.04 1910.15 +RDH10 172.911 115.958 174.789 325.329 321.901 94.6651 437.215 188.689 186.575 778.434 293.893 324.029 999.434 273.772 151.552 224.792 294.511 263.158 237.726 432.328 +RDH11 3529.3 2917.06 14130.1 3418.28 3281.05 7073.41 1898.05 10225.9 7623.15 1412.5 3018.45 3109.22 15254 4103.1 5725.11 3617.02 6900.94 4866.51 22213.3 6956.9 +RDH12 145.053 3.6237 512.517 8.5205 15.648 4.8135 27.3518 108.794 28.0127 1.3367 13.3588 41.2621 1.1312 89.1978 18.8096 2.7752 8.4784 2038.14 214.235 3.4483 +RDH13 79.2507 190.847 330.025 221.534 431.996 619.735 34.397 500.451 574.308 178.679 433.842 780.443 864.819 459.504 386.403 261.795 238.362 411.899 122.833 349.138 +RDH14 469.741 187.102 341.283 298.993 445.968 334.938 331.123 461.38 357.822 463.852 470.738 645.631 504.525 533.449 400.376 874.191 448.014 348.589 436.927 500.862 +RDH16 4.3228 2.4158 11.8501 12.3935 10.0594 15.6438 9.1173 4.7597 17.9704 2.2279 15.2672 9.7087 6.7873 12.7425 10.7484 3.7003 4.0161 9.1991 1.4141 3.0172 +RDH5 18.732 29.4041 148.02 217.661 11.736 13.911 86.7882 13.9392 61.8763 20.9424 27.7036 18.2282 36.1991 19.2297 9.6628 14.8011 42.3918 39.1991 17.7778 19.1638 +RDH8 0 0 0.5925 0 0 0 1.6577 0 0 0 0 1.8204 0 1.5446 3.7619 0 1.3387 0 0 0.431 +RDM1 0.4803 6.0395 4.74 5.4222 0 23.6663 4.1442 0.34 5.2854 14.7042 5.7252 6.068 2.8281 2.3168 8.5987 8.3256 16.0643 3.8139 4.2283 3.4483 +RDX 1365.99 7251.37 3400.39 1929.51 15017 5553.15 943.224 1479.25 4032.24 1560.88 3988.55 2334.34 2656.11 3285.65 1830.44 4208.14 1231.59 2855.07 5371.39 8287.5 +REC8 24.4957 93.4102 89.4682 306.739 32.4137 29.282 150.85 56.4367 60.7822 105.603 139.949 28.5194 106.335 35.1385 46.2179 13.876 249.442 151.792 7.9868 71.1207 +RECK 197.887 390.954 147.534 374.903 228.572 271.159 617.489 301.223 390.063 185.808 165.394 441.748 95.0226 327.059 268.171 470.86 145.917 146.453 209.067 233.19 +RECQL4 269.933 93.8129 93.6158 1277.3 24.0308 373.045 572.317 512.01 430.761 1695.89 391.221 179.612 358.597 226.277 302.029 102.683 735.832 203.661 90.2044 809.483 +RECQL5 814.121 464.233 525.552 953.524 796.93 319.294 639.453 691.86 561.311 798.931 541.349 759.709 635.747 464.91 739.487 684.551 676.93 632.342 429.88 493.966 +RECQL 270.072 880.053 798.033 435.035 449.902 531.833 1513.2 755.273 1066.86 843.386 545.592 460.977 449.695 713.826 971.974 370.796 1051.23 371.426 404.346 1382.53 +REEP1 334.294 55.1604 31.9953 92.9512 245.897 9.2258 36.8835 19.7189 103.066 15.5954 31.1705 10.9223 85.4072 8.8812 8.5987 115.634 91.0308 1.5256 83.627 161.207 +REEP2 5.2834 31.8078 124.426 177.382 44.7085 36.9033 143.39 42.4975 112.579 78.4226 22.2646 387.136 122.172 32.0494 12.898 114.709 61.1334 30.5111 89.2647 106.466 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4.7414 +RNASE10 0.4803 0.4026 0.5925 0 0 0.4011 2.0721 0 0 2.2279 0.6361 0 0 1.9307 0 0 0 0 0 0.8621 +RNASE11 0.4803 0.4026 21.9227 7.7459 17.8834 0.4011 0 0.68 45.4545 0 0 11.5291 28.8462 1.1584 11.8232 16.6512 81.66 0 330.749 18.9655 +RNASE12 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.4462 0 0 0 +RNASE13 0.4803 0 0.5925 2.3238 0 2.0056 0.4144 0 2.1142 0.4456 1.9084 1.8204 0 0.3861 0.5374 0.9251 0.4462 0.7628 0.9396 1.2931 +RNASE1 3494.72 828.613 4561.69 2793.96 16612.6 1234.26 19554.9 824.452 9786.99999999999 2711.82 2476.46 2065.53 6416.86 1268.08 1998.66 3589.27 1594.38 1195.27 6355.18 691.81 +RNASE2 44.1883 2.4158 426.603 60.4183 9.5006 4.4124 74.1815 2.0399 5.2854 216.999 3.8168 9.7087 121.606 31.2772 211.205 19.4265 45.0692 25.9344 7.0472 6.4655 +RNASE3 6.244 0 2.37 0 0.5589 0 2.4865 0 2.1142 14.7042 0.6361 1.8204 11.8778 0.7723 1.6123 1.8501 0.4462 3.8139 1.4094 0 +RNASE4 114.841 431.346 970.801 110.682 555.286 146.566 165.823 36.3337 612.785 192.706 70.2926 53.7136 190.486 52.9124 152.906 156.781 384.11 123.028 46.7324 221.974 +RNASE6 171.95 48.7183 14.2201 57.3199 297.871 27.6775 917.116 28.2184 91.9662 402.807 113.868 287.015 218.891 37.0692 146.178 231.267 41.9456 529.367 111.346 10.7759 +RNASE7 0 0.4026 2.37 0 0 0 0 0 17.9704 1.7823 0 2.4272 0 0.3861 3.2245 0 0.4462 0 15.5039 0 +RNASE8 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +RNASE9 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +RNASEH1 112.392 300.765 203.229 216.112 177.158 945.848 213.013 163.19 371.565 523.115 143.766 209.345 469.457 144.802 406.288 167.438 273.092 147.216 244.304 374.569 +RNASEH2A 348.703 486.377 562.287 1185.13 272.163 1087.85 740.986 633.043 1200.32 707.14 1208.02 449.636 1631.79 490.395 1236.06 727.105 1306.56 741.419 257.928 1746.98 +RNASEH2B 597.502 401.423 281.44 284.276 565.004 91.4561 590.137 296.803 412.262 510.193 482.824 398.665 335.973 215.079 316.002 176.688 456.046 424.104 894.996 437.069 +RNASEH2C 3106.81 700.307 1303.68 3630.67 2237.76 2566.85 1006.09 2223.99 2004.93 1433.09 2780.94 1366.38 1915.19 1176.02 933.145 1353.6 1437.74 1764.93 1174.42 807.828 +RNASEK 4932.91 3481.59 4105.02 8434.04 5071.63 5025.31 5025.81 4475.47 3930.02 2466.2 7323.14 6291.56 3568.18 3510.2 4159.82 7534.25 3745.59 8657.76 7109.69 2090.58 +RNASEL 191.643 325.325 340.69 192.874 575.063 475.331 370.493 273.004 336.152 166.202 222.646 261.529 406.674 365.286 451.968 293.247 260.598 370.709 407.799 376.724 +RNASEN 509.126 584.217 1189.75 1096.82 766.751 814.28 1244.92 1359.92 1165.96 973.154 1377.86 931.432 705.317 1236.03 1574.1 859.389 1267.74 1152.56 1316.89 722.414 +RNASET2 1548.03 897.463 865.057 2209.91 1339.58 700.361000000001 1596.77 909.787 1371.56 919.238 1505.73 1034.59 1177.6 580.365 422.948 2119.33 562.249 2341.72 519.145 1011.21 +RND1 12.0077 43.8867 8.2951 20.914 6.7063 26.8753 63.821 27.8784 28.5412 26.2894 17.1756 39.4417 8.4842 13.5148 12.898 86.0315 10.7095 29.7483 8.4567 15.5172 +RND2 12.0077 105.892 82.3582 184.353 197.835 66.1853 9.9461 36.3779 49.6829 31.1908 2.5445 147.452 89.3665 47.1088 46.7553 10.1758 53.5475 61.7849 59.1966 153.879 +RND3 184.438 97.8392 1612.21 1491.09 125.184 366.225 7139.66 259.405 1580.34 1715.94 599.873 851.335 583.145 2240.37 3185.27 868.64 259.259 647.597 439.746 225.431 +RNF103 925.552 771.303 774.902 699.458000000001 2372.27 861.612 1015.1 718.609 940.777 560.967 715.013 703.962 816.177 864.361 662.862 1583.72 630.143 725.4 978.149 1150.79 +RNF10 8444.76 7024.29 5469.41 9150.27 6866.11 6348.58 5507.25 7042.35 5852.54 3821.77 9583.97 4984.22 6034.5 5681.63 6996.64 4797.41 4627.4 7026.7 5719.05 6970.69 +RNF111 251.201 670.38 401.126 237.8 532.59 324.91 390.8 413.076 551.269 515.985 441.476 330.704 261.878 317.019 473.465 252.544 280.678 546.148 943.387 389.655 +RNF11 2561.48 3574.55 1743.15 923.315 1523.44 1436.82 1851.22 2655.25 1865.75 2301.88 1772.26 1444.17 2038.46 1717.54 2487.71 1949.12 1233.38 1379.86 2605.59 2476.29 +RNF112 5.7637 25.3657 31.4028 41.828 30.1783 9.2258 181.102 4.0798 19.556 0.4456 24.8092 30.3398 16.9683 1.5446 9.1361 51.8039 12.0482 10.6789 8.4567 4.3103 +RNF113A 333.333 180.378 886.386999999999 817.196 265.457 395.909 365.935 386.217 996.829 404.589 861.323 350.121 453.054 802.394 525.057 567.067 771.977 721.587 496.594 151.724 +RNF113B 5.7637 0.8053 0.5925 0 0 0.8022 0 0.68 1.0571 1.3367 0 0 0.5656 0 0 0 0 0 0 18.9655 +RNF114 1480.31 2134.75 1207.52 986.832 1829.14 1136.78 2097.39 2120.8 1504.23 2074.19 3272.9 1896.84 3604.64 3112.27 2173.85 2329.32 1937.08 2677.35 1785.29 1402.59 +RNF115 262.248 576.969 255.37 296.669 331.961 730.846 415.665 454.554 316.068 552.969 353.69 200.243 301.471 350.999 294.505 230.342 217.314 294.432 385.248 431.466 +RNF121 256.004 366.394 379.796 220.759 369.404 456.478 395.773 409.676 500 387.657 273.537 507.888 884.615 418.959 335.886 300.647 354.752 225.782 470.754 469.397 +RNF122 599.424 143.739 189.009 976.762 200.63 188.528 243.68 863.55 223.044 75.7491 475.191 124.393 184.955 260.643 216.579 270.12 139.67 639.97 164.435 456.466 +RNF123 811.239 1414.84 1161.31 1092.18 1280.34 1213.8 864.484 951.265 847.78 466.08 775.445 1418.69 871.041 815.523 986.699 877.891 586.345 664.378 1086.21 765.948 +RNF125 82.6129 36.2367 73.4706 39.5043 133.567 68.5921 171.156 38.0778 46.5116 62.8272 36.2595 106.796 16.4027 72.5939 49.4424 211.841 25.4351 81.6171 57.7872 12.931 +RNF126 1042.27 1035.57 1481.85 2173.51 863.992 1144.81 676.337 1840.65 1269.56 519.55 1537.53 657.16 1363.12 1482 990.461 703.978 2310.58 1330.28 583.979 1527.59 +RNF126P1 1.4409 1.6105 1.185 0 1.1177 0.4011 2.0721 2.0399 0 0.4456 1.9084 0.6068 1.1312 1.1584 2.1497 1.8501 1.3387 2.2883 0 0.431 +RNF128 2623.44 1142.26 994.816 20.1394 1169.13 2263.94 37.298 9.8594 9.5137 2.6735 1198.47 1537.01 2330.32 2251.57 33.8573 3441.26 61.1334 1781.08 2479.21 2350.43 +RNF130 2453.89 1345.59 1633.54 1486.44 2610.42 1541.12 3003.73 1786.94 764.799 2695.33 1513.99 2582.52 1554.3 2217.97 1557.97 1621.65 2062.47 2243.33 1230.44 851.293 +RNF13 1475.02 1838.01 1028 609.605 1102.62 756.117 1369.25 1681.88 970.402 1434.78 1115.78 2324.64 780.543 1316.73 783.018 1903.79 978.135 1066.36 2083.63 1827.16 +RNF133 0.4803 1.2079 1.7775 4.6476 3.3531 10.8303 3.3154 1.3599 6.3425 0.8912 1.2723 1.2136 0 3.0891 9.6735 0 4.4623 1.5256 2.8189 3.8793 +RNF135 530.74 236.344 124.426 445.391 696.335 308.063 719.851 419.196 336.152 459.396 466.285 814.927 251.697 486.533 202.607 890.842 416.332 548.436 420.954 253.448 +RNF138 498.559 226.278 247.075 213.788 175.481 183.714 376.295 239.346 502.114 437.563 143.766 232.403 282.24 200.792 214.967 311.748 451.584 228.07 255.579 526.293 +RNF138P1 124.88 14.0921 5.3325 65.8404 5.0297 5.6157 6.2163 13.2592 14.7992 6.6837 11.4504 13.9563 2.2624 10.4257 8.5987 4.6253 11.1557 8.3905 3.7585 16.3793 +RNF139 989.433 1055.7 808.769 750.581 1696.13 705.174 841.276 2564.47 825.581 1381.75 1583.97 1800.97 872.172 1799.4 757.759 1735.43 1038.38 932.113 1130.84 1507.76 +RNF141 487.512 788.753 1074.21 439.969 1486.56 660.65 625.363 1098.14 976.216 514.649 568.066 1020.63 638.009 824.79 616.418 694.727 849.174 572.082 1426.36 1240.09 +RNF144A 1598.46 3318.88 2213.6 4638.26 239.75 2488.17 1843.35 1305.52 2395.88 1565.78 837.15 442.354 1480.2 1375.42 1519.82 1005.55 852.298 594.966 1202.26 1541.81 +RNF144B 135.447 98.2418 69.3231 49.574 250.368 164.46 562.37 169.65 88.7949 1555.53 140.585 117.112 173.643 97.3067 65.565 169.288 45.0692 252.479 247.122 42.2414 +RNF145 1164.75 2402.9 4538.59 418.28 543.768 1485.36 2910.48 2225.17 4553.91 1891.5 2961.83 1777.91 980.204 2899.51 720.677 3526.36 3967.87 1603.36 3176.89 1915.09 +RNF146 556.676 497.248 511.332 457.01 891.376 360.209 870.7 729.258 1019.03 459.842 891.221 540.655 397.624 716.672 455.193 768.733 550.201 617.849 1318.77 572.845 +RNF148 4.8031 0.4026 7.1101 7.7459 1.1177 16.446 4.9731 3.0598 17.9704 2.6735 1.2723 3.6408 3.3937 11.198 17.1974 0.9251 4.9085 4.5767 6.1076 11.2069 +RNF149 886.167 592.269 501.259 577.072 1128.33 1269.96 2794.03 583.406 655.391 1445.47 684.478 626.214 1428.73 473.791 589.01 818.686 550.201 579.71 669.955 1096.98 +RNF14 1885.69 1268.29 3109.47 3886.13 5368.38 2414.76 569.83 4210.32 3684.46 821.655 4262.09 4495.75 1325.23 6346.17 4905.01 3478.26 3213.74 3299.77 6791.17 2065.52 +RNF150 41.7867 153 295.66 108.443 114.566 103.49 57.1902 12.5793 197.146 4.0102 90.3308 31.5534 120.475 138.623 75.2385 42.5532 18.7416 87.7193 142.354 138.793 +RNF151 0 0 0 0.7746 0 0 0.8288 0 0.5285 0.8912 0 0 0 0 0 0 1.7849 0 0 0 +RNF152 26.8972 47.5104 24.2927 17.8156 4.4709 14.4404 33.1538 26.8584 10.5708 11.1396 9.542 13.9563 27.1493 16.9901 10.2109 19.4265 24.9888 9.1533 15.0341 27.5862 +RNF157 210.855 97.4366 296.845 704.88 918.202 455.672 281.392 565.727 50.2114 331.959 172.392 472.087 330.882 244.425 198.307 535.615 771.972 727.689 402.161 519.828 +RNF160 486.071 720.306 1260.26 467.08 528.12 513.438 215.914 618.764 469.345 471.873 462.468 498.18 376.131 429.771 1000.67 572.618 867.915999999999 448.513 883.251 425.431 +RNF165 2.7522 6.0395 50.3807 20.2014 3.3531 3.6101 152.735 16.659 12.1564 21.1474 6.1196 4.8544 17.5339 2.591 66.5968 4.6253 12.1241 3.8139 0.4698 0.431 +RNF166 290.106 553.214 442.009 639.039 331.961 160.048 630.75 344.06 469.873 407.263 353.69 422.33 360.86 473.405 357.383 303.423 705.489 488.94 218.934 252.586 +RNF167 3492.8 2379.55 1960.01 2368.71 3499.56 2761.73 2583.09 2674.96 2571.88 1511.42 2301.53 3185.07 2904.41 2034.17 3312.64 2686.4 2263.28 2106.03 2529.48 1801.72 +RNF168 11.0471 177.56 61.028 10.8443 31.8548 64.5808 45.172 36.3779 72.9387 51.6876 25.4453 78.2767 37.3303 49.0395 52.1295 35.1526 35.2521 19.8322 82.6873 72.8448 +RNF169 116.47 405.086 156.433 51.7816 114.84 304.854 137.174 180.825 140.465 239.791 139.886 213.38 61.4932 139.465 83.418 135.874 93.9848 168.802 130.491 314.401 +RNF170 690.682 647.43 428.381 437.645 1216.07 665.463 380.025 941.065 449.789 112.287 730.916 1008.5 574.661 370.306 699.18 457.909 428.826 1018.31 611.229 796.552 +RNF175 20.6532 1.6105 11.8501 72.8118 4.4709 3.6101 27.7663 13.5992 2.1142 71.7389 11.4504 7.2816 15.8371 5.0198 1.0748 7.4006 6.6934 19.0694 7.517 1.2931 +RNF17 0 0.8053 0 6.9713 0 0.4011 0 0 0 0 1.2723 1.2136 0 0 0 27.7521 0 0 0 0 +RNF180 85.975 52.3419 95.3933 149.496 104.506 19.2539 14.9192 155.371 43.8689 5.7926 205.471 387.743 5.0905 140.554 60.7282 233.118 50.8701 280.702 178.53 7.3276 +RNF181 2080.69 811.703 1293.44 1405.11 2313.11 1939.43 2257.36 1239.23 1572.41 2820.99 2300.89 1347.09 3898.76 925.186 1405.88 2209.07 901.83 1604.88 1279.77 2017.67 +RNF182 83.5735 11.2737 14.2201 14.7173 1.1177 1.2034 0.4144 2.0399 7.9281 0.8912 59.7964 36.4078 5.6561 96.5344 0 97.1323 14.2793 3.8139 5.6378 163.362 +RNF183 0.4803 0.4026 7.1101 25.5616 1.1177 5.2146 0 0 6.871 1.7823 0.6361 3.6408 1.1312 7.7228 4.2993 1.8501 12.9407 1.5256 0.4698 0 +RNF185 422.19 1311.17 734.433 485.67 526.443 345.776 1251.55 561.647 749.45 824.774 408.397 825.85 364.253 739.693 736.261999999999 336.725 1101.29 716.247 1225.58 816.078 +RNF186 0 0.4026 0 0 3.912 0.4011 0 0 2.1142 0 1.9084 0 0 0 0 0 0 3.0511 0 0 +RNF187 5996.16 14337.7 5725.37 4445.39 7999.47 9747.29 6048.9 4720.63 6802.85 3506.74 7520.36 4118.33 8118.78 4161.02 9540.24 3204.44 4634.09 4844.39 5338.5 4494.83 +RNF19A 1088.86 692.927 405.866 744.384 506.324 434.817 502.694 773.115 552.326 786.9 828.88 729.369 184.389 669.563 602.445 447.734 694.779 1101.45 341.085 858.621 +RNF19B 376.081 337.002 487.632 127.033 296.194 476.935 762.122 200.928 326.11 1023.06 143.766 334.345 363.122 168.742 433.159 96.2072 339.58 195.271 174.771 176.293 +RNF20 993.756 973.963 956.303 1391.94 1024.94 864.42 961.459 1181.43 1145.35 1065.83 709.288 1309.47 1023.76 1177.72 1510.14 899.166999999999 1850.07 675.057 910.03 1400.86 +RNF207 92.219 45.0946 109.613 151.82 69.8571 101.083 68.3796 41.8176 40.6977 205.414 52.1628 101.942 18.6652 32.0494 25.796 16.6512 64.257 106.026 8.4567 105.603 +RNF208 309.318 85.3576 399.348 1271.88 154.244 67.3887 63.821 119.333 105.18 48.5686 79.5165 521.845 152.715 118.544 66.6398 130.435 240.071 128.147 101.01 68.1034 +RNF212 2.4015 1.2079 90.6532 366.383 29.6194 1.2034 1.6577 356.299 2.6427 1.3367 80.1527 4.2476 1.6968 1.1584 0.5374 86.9565 109.326 5.3394 61.5457 0 +RNF213 2530.45 2142.78 2209.98 2168.71 2745.1 1136.33 3103.93 790.009 1534.14 5166.98 1696.56 2754.82 1759.62 1375.03 1111.91 1939.86 1381.97 2617.09 1346.47 1082.76 +RNF214 589.817 328.949 236.409 295.895 340.903 373.446 262.329 255.325 236.786 385.429 205.471 212.379 279.977 201.178 242.913 177.613 199.464 199.085 192.154 252.155 +RNF215 191.643 214.199 564.065 630.519 272.163 220.217 429.341 178.15 441.861 388.994 153.308 243.932 178.167 475.722 266.022 209.066 681.392 383.677 313.836 237.069 +RNF216 1561.48 2003.09 1967.12 1134.78 1544.12 1549.94 2284.71 1222.23 1931.29 1141.14 1058.52 1407.77 995.475 1494.74 1555.29 809.436 1760.37 1702.52 1503.41 1321.55 +RNF216L 442.349 476.312 449.682 311.387 903.112 613.317 914.509 385.198 829.783 397.901 474.478 240.109 441.176 252.005 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347.792 330.843 250.301 383.34 467.813 227.801 265.568 286.896 338.592 239.253 264.89 296.117 293.247 319.054 400.458 274.372 515.948 +SDF2 1340.06 727.956 814.694 732.765 1330.64 1019.25 1552.84 918.967000000001 1040.17 817.199 929.389 1140.78 1372.17 760.304999999999 1263.47 1354.3 937.082 784.897 1336.15 1110.34 +SDF2L1 647.454 214.199 311.658 639.039 223.543 268.351 266.059 86.695 473.573 1338.98 258.27 134.709 425.339 388.068 238.076 179.464 635.877 798.627 378.67 379.741 +SDF4 4063.4 2400.08 4737.08 3550.74 3830.4 3692.74 6298.8 4110.7 4538.06 8209.42 3247.46 2719.05 3098.42 3565.21 5066.24 4284 2957.16 3415.71 3119.1 2454.74 +SDHA 4260.33 2700.84 5822.54 3541.44 11249.2 5507.02 2297.14 5971.75 4606.77 2342.88 5290.08 19041.9 8681.56 7771.02 8077.93 4445.88 5272.2 4105.26 10699.1 1665.95 +SDHAF1 552.354 150.986 500.074 479.473 383.935 328.921 404.89 618.084 750.529 415.729 581.425 437.5 617.647 519.741 809.351 339.5 553.324 350.114 150.341 164.655 +SDHAF2 1029.3 590.659 453.266 481.022 939.438 846.37 1163.7 614.344 644.82 945.082 547.71 651.092 2611.99 627.474 545.479 689.177 796.073 694.127 771.905 891.81 +SDHAP1 61.9597 213.394 122.056 105.345 97.2411 121.54 113.966 69.6959 136.892 136.794 116.412 205.704 63.914 73.7523 55.354 54.5791 124.498 64.836 62.0155 85.7759 +SDHAP2 73.0067 219.836 88.2832 193.648 90.5348 109.908 106.092 80.2353 150.634 110.505 134.86 223.301 85.9729 37.8415 84.912 76.7808 86.5685 76.2777 55.4381 50.431 +SDHAP3 101.345 57.1735 228.114 925.639 390.082 134.376 61.7489 285.583 177.061 58.817 363.232 492.718 220.023 176.851 226.253 134.135 249.442 160.183 283.298 53.4483 +SDHB 1996.16 1453.5 1398.9 961.27 2385.2 1598.07 1488.6 1576.83 1665.96 2358.92 2019.08 3057.04 2920.25 1414.04 2363.56 1456.98 1468.09 1050.34 2433.17 1145.69 +SDHC 2177.23 2690.38 1385.87 901.627 3936.03 2434.82 1621.63 1654 1886.36 1741.78 1683.21 2443.57 3410.07 1748.05 3146.04 1469.94 1694.33 2297.48 2900.63 2853.02 +SDHD 1716.62 1217.55 1483.63 1215.34 2818.87 2115.12 1808.54 760.876 1340.38 2269.8 1639.95 2952.06 1570.7 1274.25 1408.57 1591.12 1270.41 1317.32 2259.34 1575.43 +SDK1 7.2046 2.8184 1971.86 673.122 343.138 4.0112 112.723 204.668 1532.24 5.7926 31.8066 81.9175 15.8371 67.188 36.007 21.2766 730.031 4.5767 1390.65 0.8621 +SDK2 42.2671 251.644 572.952 701.782 1.6766 7.6213 4.9731 429.395 243.129 1.7823 151.399 22.4515 302.602 34.7524 161.225 127.66 298.081 4.5767 389.946 16.3793 +SDPR 275.696 841.497 51.5479 123.935 2021.94 266.747 726.896 1155.59 65.0106 219.227 501.272 337.379 137.443 149.435 154.239 483.811 98.6167 318.841 661.029 102.155 +SDR16C5 0 0 0.5925 0 0 0 3.3154 0 0 106.494 0.6361 0 0 0 1.0748 0 0 0 0 0 +SDR39U1 3993.94 820.222 1868.27 2405.41 803.334 953.791 511.778 2341.48 2256.97 488.413 1594.08 1092.62 2104.81 1090.66 1795.23 1499.85 2381.85 1592.6 2575.86 1173.47 +SDR42E1 0.9606 12.8842 13.0351 10.0697 57.0034 74.6089 0.4144 0 1.0571 4.9014 223.282 0 0.5656 0.7723 0 15.7262 44.6229 28.2227 0.4698 0.431 +SDR9C7 0 0 0 0 0 0 0.8288 0 0 0 0 0 0 0 0 0 0 0 0 0 +SDS 3.8425 220.642 24.2927 42.6026 12.2948 40.1123 322.835 20.3988 111.522 571.683 39.4402 57.6456 136.878 35.9108 154.239 24.0518 41.0531 129.672 108.997 66.3793 +SDSL 195.005 977.587 1304.7 384.973 850.021 1117.53 477.414 1113.1 1257.4 506.183 830.789 2125 1978.51 1069.22 4054.28 1073.08 901.83 1295.19 3048.63 2830.6 +SEBOX 0 0 0.5925 0 0 0 0 0 1.0571 0 0 0 0 0 1.0748 0 0 0 0 0.431 +SEC11A 2439 1600.46 2261.59 1530.6 1853.73 2031.69 3712.81 1432 2823.47 4750.81 2652.67 1515.17 3424.77 1531.81 4092.97 2125.81 2023.2 2096.11 3139.3 1754.74 +SEC11C 662.344 819.353 1169.01 367.932 805.871 909.346 172.814 358.339 1195.56 543.611 482.188 775.485 671.946 1103.2 1040.98 694.727 738.956 678.871 1265.21 557.328 +SEC13 1941.88 2698.83 2692.34 2108.44 1432.91 1600.48 3682.14 1515.29 3047.04 1714.6 2424.3 2841.02 2265.84 2393.28 4435.31 2568.92 2073.63 2324.18 1935.17 1360.34 +SEC14L1 3697.41 4557.78 1915.57 972.889 4523.94 2578.02 2503.11 3751.34 1130.55 2689.54 1680.03 3083.13 2535.07 2040.74 1490.8 2625.35 1995.09 1549.2 2120.27 3057.76 +SEC14L2 2.4015 11.2737 337.313 274.702 279.602 49.4545 871.678 29.6837 115.328 610.992 34.9873 304.108 36.1991 232.347 96.7352 113.784 326.564 31.2738 53.089 155.448 +SEC14L3 0 0 0 0 0 0 0 0 0 0 0 0 0 0.7723 0 0 0 0 0 0 +SEC14L4 0 0 0 38.7297 126.861 0.4011 0 0 3.1712 20.4968 0 0 0.5656 246.356 0 11.1008 228.023 0 0.4698 0 +SEC14L5 19.6926 6.4421 170.049 13.1681 7.2651 3.209 3.3154 33.998 45.4545 1.7823 35.6234 61.8932 6.7873 77.9998 13.9729 12.951 128.96 136.537 99.1308 28.4483 +SEC1 1.4409 6.4421 7.116 9.2951 10.0594 17.2483 2.0721 21.4188 15.8562 4.4558 10.8142 18.8107 11.8778 4.6337 13.9729 18.5014 3.1236 3.0511 0.9396 4.7414 +SEC16A 2577.33 2730.64 4514.29 4832.69 2541.68 5625.75 2712.81 2325.46 4115.75 2834.8 1603.05 2277.31 3072.4 6739.65 8980.25 2158.19 6745.2 2021.36 2334.98 2494.83 +SEC16B 240.183 242.106 331.5 153.664 1115.09 233.879 230.448 13.9596 490.592 57.9615 195.483 87.3786 166.29 173.828 596.072 62.8862 38.4962 324.325 791.943 34.3405 +SEC22A 240.634 411.891 279.662 199.845 248.691 256.719 366.349 265.525 294.926 389.44 286.896 469.053 429.299 237.861 314.389 324.699 221.776 173.15 309.138 248.707 +SEC22B 1499.04 1351.63 1427.94 1411.31 1797.28 1252.71 1288.02 1216.11 1844.08 783.781 1244.91 976.942 651.584 1706.34 2053.47 1436.63 946.452 1414.95 1775.43 1837.93 +SEC22C 737.271999999999 928.466 507.777 202.944 938.32 457.28 402.404 558.247 569.239 318.592 471.374 1040.66 432.692 474.177 260.11 687.327 408.3 498.856 602.772 802.155 +SEC23A 1541.79 2115.02 2608.8 888.459 962.91 725.231 1979.69 987.303 1800.21 1240.5 744.911 835.558 1015.84 920.552 2490.39 1429.23 1892.01 613.272 2268.73 2732.33 +SEC23B 1015.85 1279.16 1309.44 182.804 1878.88 1422.38 932.863999999999 1451.72 1584.04 548.958 797.074 1374.39 1694.57 2881.36 2579.07 916.743999999999 754.128 1530.13 1148.7 2174.57 +SEC23IP 637.368 1593.61 1064.73 406.661 651.068 1012.43 730.211 724.498 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85.6361 139.953 162.933 58.6076 317.494 545.934 13.7048 141.481 31.3852 79.556 125.837 243.646 30.1903 59.3836 +SEC61A1 6266.98 18361.6 15010.2 7360.83 4129.87 9389.8 12905.3 8403.55999999999 12847.1 10104.4 6372.68 8888.78 12172.4 10343.8 11236.8 10369 7679.56 6898.47 11751.8 6963.14 +SEC61A2 117.301 286.467 130.955 222.463 82.0569 401.336 67.3726 175.981 197.553 86.2382 160.413 132.257 58.6538 135.627 80.258 105.097 115.623 168.848 103.556 231.603 +SEC61B 3104.23 1461.95 2246.19 5600.31 1835.84 3614.52 2186.08 2500.21 3641.12 3087 2389.31 1884.71 3199.66 3442.03 4991 2475.49 5978.13 2298.25 1711.06 1674.57 +SEC61G 877.521999999999 924.037 3452.53 1199.85 1057.92 1365.42 2886.03 664.661 4288.06 1832.68 1277.35 1255.46 1574.1 1888.6 3148.19 1049.95 2474.34 1536.23 1992.48 965.948 +SEC62 4200.77 5226.95 2717.82 2316.81 2327.08 3996.79 2995.86 3568.77 2415.43 4009.36 3547.07 5353.16 3852.38 3503.04 3063.82 5105.46 2371.71 2624.71 4396.05 4785.78 +SEC63 3250.72 3459 2704.19 1958.95 4346.23 1797.43 4473.27 3289.31 4566.6 1280.16 3423.03 1560.07 2763.01 3397.24 3627.57 2932.47 3240.07 2077.04 4301.62 4677.16 +SECISBP2 1035.54 1240.5 958.673 1037.18 1557.53 1100.28 691.256 900.268000000001 1359.94 558.316 756.361 1683.86 935.52 1172.7 1516.06 449.584 1796.97 806.255 1412.26 747.414 +SECISBP2L 746.398 1347.6 1013.18 877.614 1398.26 1389.09 397.845 1041.36 1531.18 757.046 1056.62 658.374 325.792 691.186 532.581 813.136 448.014 1102.21 1926.24 992.241 +SECTM1 36.9837 31.8078 14.2201 24.0124 112.33 13.6382 1070.87 20.3988 31.7125 6094.24 78.2443 43.0825 76.9231 10.4257 27.9457 85.1064 25.8813 479.786 55.4381 1.7241 +SEH1L 712.296000000001 531.472 488.224 263.362 305.695 340.553 917.944 508.95 460.359 744.124 268.448 472.087 330.317 408.92 378.342 352.451 471.218 554.538 590.557 653.017 +SEL1L2 2.4015 0 0 0 0.5589 0 0 0 0 0 3.1807 0.6068 0 0 2.6871 0 0 0 0.4698 0 +SEL1L3 24.4957 1246.54 655.903 320.682 64.2685 71.3999 1245.75 27.5384 89.3235 716.943 235.369 1827.06 25.4525 905.879 164.45 7037 160.196 675.82 277.19 249.138 +SEL1L 1150.82 6041.07 3190.05 1902.4 1450.79 1041.32 3029.01 1629.87 2565.54 1566.67 1585.24 2022.45 1210.97 1815.62 1553.14 2294.17 1919.68 1167.05 3354.94 1271.98 +SELE 0.9606 63.213 5.925 0 2.7943 4.4124 8.2884 0 3.1712 6.6837 5.7252 15.7767 0 3.4752 18.8096 96.2072 2.6774 12.9672 5.6378 9.9138 +SELENBP1 30.7397 197.289 13.0351 783.114 466.645 19.655 261.5 42.1575 32.7696 3022.39 137.405 79.4903 56.5611 23.1683 15.0477 297.872 591.254 90.7704 487.667 5.6034 +SELK 1414.03 854.784 932.602999999999 1907.05 962.351 714.4 617.074 1117.52 1084.57 621.588 1276.08 1019.42 864.253 771.889 846.433 1231.27 666.22 1292.14 985.671 1089.66 +SELL 27.3775 30.5999 21.9227 7.7459 40.2377 2.8079 332.781 29.2383 16.9133 81.9873 15.2672 47.3301 4.5249 4.6337 12.3606 164.662 53.5475 220.442 36.6455 0.8621 +SELM 130.644 560.059 242.334 783.114 2066.65 63.7786 190.634 111.174 180.233 1195.05 226.463 511.529 229.638 362.583 209.055 313.599 300.312 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851.584 1849.15 191.749 2396.41 96.246 1573.79 26.0922 5291.29 124.336 803.977 24.9769 328.425 1352.4 7771.2 551.724 +SEMG1 1.4409 0 30.8103 2.3238 0 2.4067 0.4144 0 158.034 0 1.9084 134.709 16.9683 1.1584 217.117 549.491 5.3548 1.5256 71.4118 0.431 +SEMG2 0 0 0 0.7746 0 0 0 0 0 0 0 0.6068 0 0 0 0 0 0 0 0 +SENP1 266.09 638.572 352.54 432.223 230.249 291.215 584.749 358.339 466.702 458.505 296.438 298.544 247.738 322.425 413.274 411.656 513.164 399.695 266.855 281.034 +SENP2 483.189 1526.37 594.875 328.428 668.952 1089.85 609.615 623.864 702.96 700.457 521.629 910.801 832.014 544.454 618.03 728.955 503.347 377.574 810.43 1192.67 +SENP3 771.965 1099.02 703.831 327.242 713.096 559.88 1445.45 833.217 874.852 605.151 650.725 1495.19 577.03 684.703 606.105 517.345 744.65 576.598 486.206 729.815 +SENP5 478.386 1246.54 713.376 635.167 378.905 738.067 795.69 620.124 768.498999999999 1332.29 912.849999999999 1049.76 506.787 790.038 493.349 717.854 632.307 721.587 1144.94 583.19 +SENP6 1622.96 1278.35 940.898 1656.86 1268.05 689.531 1069.62 1151.85 1337.74 570.792 1502.54 997.573 838.235 1016.31 730.888 1182.24 772.423 847.444999999999 1899.93 2068.97 +SENP7 268.012 467.856 199.674 367.932 188.894 165.664 234.977 283.543 228.858 219.673 223.919 442.961 80.8824 167.97 174.661 284.921 148.148 298.246 250.411 263.793 +SENP8 44.1883 20.9368 61.6205 43.3772 29.6194 40.1123 14.9192 60.1765 100.951 40.9937 107.506 49.7573 53.1674 76.0691 76.8507 68.4551 62.9183 135.011 157.388 22.8448 +SEP15 3038.9 1455.51 3355.95 1811 3541.47 1906.94 4723.58 3532.05 2997.36 8575.25 2681.3 2146.84 1635.18 3358.24 5023.78 3248.84 2827.31 2479.02 4038.52 2180.17 +SEPHS1 1759.85 1776.81 1262.63 2245.55 793.018 3099.48 670.12 1601.31 848.309 1628.61 1190.2 942.354 839.366 1141.42 1157.06 957.447 1237.84 1342.49 1312.66 1328.88 +SEPHS2 1174.83 1145.48 3205.45 2728.12 1074.12 2572 2068.79 2905.81 3040.17 878.244 2793.89 3565.53 1306 2748.14 4712.62 3161.89 2258.81 2146.45 2074.7 1366.38 +SEPN1 1663.3 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34.0903 37.3045 54.7037 11.2193 2.6427 750.808 3.8168 16.3835 15.2715 3.8614 3.7619 19.4265 25.4351 64.0732 5.6378 5.1724 +SYTL2 804.515 3850.76 1521.55 939.582 138.038 1600.48 485.702 825.472 235.729 54.3611 243.639 59.466 1986.43 1627.57 207.981 115.634 2088.35 140.351 157.858 1612.93 +SYTL3 48.511 10.4684 52.7329 41.828 45.8262 8.0225 200.995 18.3589 87.7378 110.059 43.8931 81.3107 56.5611 30.891 26.8709 40.7031 41.4993 96.8726 94.4327 27.5862 +SYTL4 189.241 45.4972 109.021 208.366 23.472 55.7561 669.291 16.659 62.8964 165.311 69.3384 44.9029 85.4072 46.3365 68.252 43.4783 79.8751 15.2555 83.627 67.6724 +SYTL5 8.6455 25.3657 357.873 3.0984 0 2.0056 0.8288 4.7597 58.1395 1.3367 108.779 477.548 1.6968 102.713 10.2109 483.811 23.2039 150.267 385.718 4.3103 +SYVN1 2678.67 2923.5 5087.84 3740.51 3790.72 4181.31 1481.14 3749.64 3790.7 2669.49 2946.56 1409.59 3673.64 4270.68 2954.72 2506.01 2849.62 3401.22 2604.18 2507.76 +T 0 0 1.185 3.873 0 0.4011 0 0.34 0 2.6735 1.9084 0 0 0.3861 0 0 0.4462 0 0 0 +TAAR1 0 0.4026 1.185 0 0 0 0 1.3599 0 0 0.6361 0.6068 0 0 1.0748 0 0 0 0.4698 0 +TAAR2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +TAAR5 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +TAAR6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +TAAR8 0 0 0 0 0 0 0.4144 0 0 0 0 0 0 0 0 0 0 0 0 0 +TAAR9 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +TAB1 520.605 596.678 476.374 1009.34 533.49 275.287 693.013 567.57 718.478 885.539 327.245 650.673 581.725 737.357 618.718 407.373 1295.6 564.02 490.665 515.784 +TAB2 1826.61 2630.79 904.162 592.564 2236.54 711.191 2276.83 1382.02 1402.75 1046.23 2047.71 1498.79 1176.47 1075.78 943.706 1835.34 963.855 829.901 2302.56 1835.34 +TAB3 1574.93 1171.65 784.476 826.491 337.549 292.419 573.145 396.757 694.503 372.953 979.008 1197.82 172.511 711.652 365.444 443.108 631.414 537.757 1133.19 963.362 +TAC1 1.4409 7.65 8.8876 278.854 0 0 73.7671 0 2.1142 0 8.2697 5.4612 3.3937 20.4653 2.1497 0 3.1236 10.6789 23.4907 0 +TAC3 0 0 0 0 0 1.2034 4.5586 0 0.5285 0 0 0.6068 0 0.3861 0 0 0 2.2883 0 0.431 +TAC4 0 1.2079 1.185 0 3.912 1.2034 0.4144 0.68 0.5285 0 0 0 5.6561 0.3861 0.5374 0.9251 1.3387 0 0.4698 0 +TACC1 1447.17 2403.7 555.769 1295.12 1381.49 1363.82 1787.4 4119.54 1362.58 654.562 1860.69 2127.43 1149.89 1368.86 387.478 1955.6 1228.47 1226.54 1182.99 3365.09 +TACC2 533.141 1906.45 548.067 1006.97 149.774 1294.02 262.743 1099.16 949.789 1116.19 1477.1 1094.05 941.177 1109.76 992.073000000001 418.131 394.913 1646.83 748.884 731.034 +TACC3 286.743 373.238 334.173 2414.41 200.071 1964.7 1562.78 634.743 1959.3 1671.38 797.074 241.505 1482.47 261.801 774.956 259.945 2539.94 556.064 769.086 1924.57 +TACO1 409.222 347.873 449.119 426.801 532.59 357.802 797.762 491.271 736.787 569.901 432.57 2198.42 1066.18 459.504 487.975 773.358000000001 448.461 514.874 696.735 442.672 +TACR1 13.4486 12.0789 0.5925 0 6.1474 0.8022 5.3875 12.2393 0 0 40.0763 20.0243 0 11.9703 1.0748 125.809 0.4462 32.0366 9.3963 0.8621 +TACR2 7.2046 128.842 53.9179 24.787 17.8834 65.7842 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119.984 39.1053 30.9837 21.7954 85.0381 82.8844 33.998 30.6554 112.287 42.6209 23.665 37.8959 32.4356 60.1908 14.8011 25.4351 135.011 36.6455 105.172 +TAF1B 136.888 115.958 163.531 30.9837 113.448 228.64 159.967 134.292 99.8943 384.984 115.14 99.5146 141.403 86.4948 117.157 102.683 145.917 88.4821 93.9629 428.017 +TAF1C 1406.82 978.794 1670.27 5072.81 1327.84 968.311 949.440999999999 1163.07 1339.85 1159.41 1421.76 632.888 1088.24 1537.99 1229.07 864.015 2137.88 1652.94 501.762 964.654999999999 +TAF1D 297.344 570.096 296.839 238.474 315.29 898.688 539.842 117.538 276.628 777.596 357.525 237.603 439.983 304.578 283.09 203.303 289.951 333.814 198.581 697.009 +TAF1L 8.6455 32.6131 27.8477 30.9837 8.9417 10.8303 7.0079 7.4796 13.7421 5.347 11.4504 18.2039 5.0905 15.4455 22.0341 12.951 8.4784 4.5767 16.4435 7.7586 +TAF2 261.767 510.938 484.669 607.281 407.965 377.858 280.564 544.988 388.478 476.328 541.985 594.66 131.787 590.791 427.784 395.93 545.739 492.754 341.085 739.655 +TAF3 141.21 414.709 154.051 155.693 102.83 424.388 151.264 232.547 154.863 171.104 143.766 94.0534 97.8507 178.782 120.382 141.536 147.256 154.844 104.299 194.397 +TAF4 803.074 657.495 298.03 451.588 475.028 336.542 246.581 420.555 354.651 409.045 466.921 314.927 256.787 598.899 424.023 425.532 457.831 684.973 359.408 427.586 +TAF4B 100.384 101.865 139.831 43.3772 43.5908 74.2078 31.0816 171.01 102.008 91.3445 40.0763 100.121 89.9321 200.405 158.001 55.5042 92.8157 89.2449 53.089 56.0345 +TAF5 144.092 107.1 49.7704 127.033 49.1794 176.895 139.66 60.5165 169.662 129.219 104.326 75.2427 67.8733 47.1088 67.1772 73.0805 46.4079 129.672 100.54 202.586 +TAF5L 259.366 540.733 305.733 240.124 392.317 554.352 488.189 308.362 399.577 570.346 326.972 222.694 359.163 237.089 285.906 222.942 300.312 445.462 458.069 722.845 +TAF6 2486.55 2695.21 1480.08 1984.51 1147.33 1212.6 2860.76 1946.05 1621.38 2258.22 934.478 1292.48 999.434 1504.78 1682.65 1312.67 1746.1 2526.32 1460.65 970.69 +TAF6L 795.869 347.873 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607.281 681.246 327.718 607.128 310.062 802.326 1664.7 802.163 383.495 654.977 313.544 598.146 268.27 311.468 623.188 602.302 319.397 +ZFYVE20 523.535 1432.96 592.505 601.859 732.661 396.711 676.751 583.746 709.831 253.537 645.674 1067.35 450.792 518.583 564.289 659.574 505.132 345.538 602.302 678.448 +ZFYVE21 1549.47 620.051 749.519 1110.77 406.289 279.182 665.147 801.673 389.006 746.352 690.204 399.879 526.018 391.157 421.336 948.196000000001 550.201 539.283 1051.44 318.103 +ZFYVE26 604.227 1215.94 1049.33 720.372 644.362 739.27 956.486 1234.81 613.636 673.722 413.486 387.136 699.661 386.138 597.071 530.065 566.711 585.812 1573.88 387.5 +ZFYVE27 1121.52 2797.48 1417.86 2027.89 948.38 2037.71 755.491000000001 1974.95 1822.41 963.796 1639.95 2692.96 1364.82 1813.69 1213.49 938.945 1551.99 1790.24 2725.86 1693.97 +ZFYVE28 268.012 143.739 543.919 1145.62 717.572 133.574 136.345 215.887 199.26 197.393 560.433 578.277 65.6109 958.78 132.205 251.619 792.95 1028.22 567.536 34.0517 +ZFYVE9 519.212 614.817 464.524 226.181 431.996 323.706 263.158 490.932 267.442 528.016 319.975 396.238 273.756 410.078 217.117 301.573 270.861 295.195 292.225 336.207 +ZG16 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.9251 0 0 0 0 +ZG16B 0 153.402 450.896 48.0248 1342.93 761.733 9.5317 0 1659.62 17.3777 85.2417 50.3641 1072.4 4.6337 214.967 4.6253 71.3967 292.906 418.135 231.897 +ZGLP1 24.6398 6.7481 102.26 368.606 40.981 52.1781 54.2893 34.7086 77.4577 24.7611 76.2786 20.7403 46.3066 59.9324 86.2717 15.7539 147.367 50.2136 8.2452 58.944 +ZGPAT 1462.93 1072.88 674.638 858.815 1198.27 865.756 1007.56 864.665 682.093 1101.13 1300.43 955.073 1625.83 1278.98 916.179 980.193999999999 1316.92 2258.09 865.281000000001 708.315 +ZHX1 1025.46 1651.97 391.053 492.641 570.593 529.029 401.989 1440.5 553.383 1158.07 798.982 758.495 489.253 718.988 319.226 922.294 744.757 931.35 508.809 1109.05 +ZHX2 463.497 747.685 507.184 508.908 541.532 494.585 460.423 1473.47 574.524 155.063 723.919 595.874 647.624 560.286 1034.53 544.866 699.688 665.141 645.055 324.569 +ZHX3 2028.34 3584.22 1661.98 1445.39 1408.32 935.017999999999 1142.56 3182.89 1464.59 501.281 2321.88 2178.4 1692.31 2692.54 2611.85 1490.29 2895.58 2081.62 1777.78 1384.91 +ZIC1 11.5274 74.084 49.7704 0 0 0.8022 3.7298 0 4.2283 0 0 0 82.5792 0.3861 42.456 0 309.683 6.865 0 0 +ZIC2 283.862 81.734 37.9203 15.4919 0 52.146 0.8288 10.1994 34.8837 12.4763 1.9084 3.034 58.8235 23.9405 4.8368 0 232.932 1.5256 5.6378 87.069 +ZIC3 0 1.2079 1.185 3.0984 0 0 0 0 3.1712 0 0 0 0 0.7723 0.5374 0 0.4462 0 0.9396 0 +ZIC4 0 24.9631 39.6978 3.0984 0 0 3.3154 0 35.9408 0 0 1.2136 4.5249 0 19.8845 0 96.3855 0.7628 0.9396 0 +ZIC5 93.1796 16.1052 2.9625 0 0.5589 34.4966 0.8288 5.0997 0.5285 4.4558 0 0 15.8371 1.9307 0 0 73.6278 0 0 20.2586 +ZIK1 22.5744 178.768 65.1755 311.387 43.032 154.833 104.849 164.89 208.774 61.9361 208.651 89.8058 133.484 147.505 188.096 112.859 96.8318 54.1571 63.4249 184.914 +ZIM2 0.975 180.898 14.469 9.5662 6.8125 31.4882 0 21.9627 14.0645 0.8912 8.3842 3.1735 5.7296 16.6039 21.0184 0 13.9625 8.566 34.381 15.7629 +ZIM3 0 0 0 0 0 0 0 0 0 0 0 1.2136 0 0 0 0 0 0 0 0 +ZKSCAN1 119.116 1386.66 700.341 458.559 422.496 280.385 172.399 424.635 462.474 166.648 271.628 545.51 104.638 605.464 403.063 243.293 362.338 212.052 771.905 228.017 +ZKSCAN2 317.003 187.626 341.875 210.689 155.362 107.501 158.724 338.96 246.3 95.3548 171.756 277.306 220.023 308.138 209.593 227.567 292.726 188.406 121.682 146.121 +ZKSCAN3 18.2517 98.6444 39.1053 70.488 92.2114 142.8 45.172 55.7568 110.465 35.6467 61.0687 58.8592 104.072 39.386 66.6398 42.5532 18.2954 44.241 92.5534 148.707 +ZKSCAN4 71.5658 86.1629 62.8055 82.1069 138.038 125.552 118.939 79.8954 162.262 106.049 119.593 87.3786 133.484 85.3364 56.4289 118.409 68.2731 70.1754 103.359 136.207 +ZKSCAN5 423.151 440.88 609.095 610.38 371.64 421.58 500.622 496.031 808.668 346.218 332.061 348.301 252.262 532.098 776.569 296.022 601.963 478.261 666.667 324.569 +ZMAT1 121.518 341.431 1298.18 1771.49 237.514 184.918 25.6942 79.5554 910.676999999999 29.8541 444.02 704.49 13.009 611.642 253.661 459.76 879.963999999999 875.667 967.818 23.7069 +ZMAT2 825.648 1311.37 1671.46 1227.73 2732.25 1613.32 1756.32 1478.91 2248.41 2145.93 2158.4 2556.43 2727.94 1627.18 2323.79 2175.76 1819.72 1774.22 2549.68 1288.36 +ZMAT3 197.406 178.365 81.1732 103.021 15.0891 71.801 56.7758 66.6361 41.7548 47.6774 159.669 75.8495 66.1765 77.6137 41.9186 59.2044 79.8751 52.6316 69.0627 66.8103 +ZMAT4 0 0 13.0351 25.5616 1.1177 0.4011 5.8019 6.7996 19.0275 0 11.4504 0 0.5656 1.9307 4.8368 2.7752 19.6341 0 2.8189 0 +ZMAT5 913.535 303.978 324.592 790.55 291.55 160.698 515.284 296.877 318.409 568.8 346.762 343.034 421.635 368.445 308.37 261.693 738.661 1068.22 590.984 390.767 +ZMIZ1 722.381999999999 3774.26 2535.92 4714.18 596.3 2589.25 1354.75 4452.38 2158.03 2248.41 4262.72 5484.83 1290.16 2931.56 3168.61 5127.66 828.202 2210.53 1951.14 1080.17 +ZMIZ2 874.64 2963.36 3644.5 3789.31 2018.59 1426.39 2347.29 676.561 3739.96 2304.56 2097.33 1768.2 567.308 2254.27 1481.66 1021.28 1860.33 2756.67 1894.76 1296.12 +ZMPSTE24 1552.35 1112.47 2166.79 868.319 1612.86 1579.62 1196.85 1657.74 2044.93 1506.52 1445.29 1417.48 1945.14 1429.48 2583.9 1989.82 1161.54 1369.18 1932.35 1995.26 +ZMYM1 135.927 182.794 149.904 249.419 163.745 202.166 167.012 125.453 153.805 296.313 121.501 128.034 112.557 153.683 144.028 113.784 109.326 101.449 148.931 181.897 +ZMYM2 1525.94 2256.34 1417.27 1855.15 724.837 401.123 636.552 1259.97 874.736 640.749 954.835000000001 1029.13 591.063 1140.26 926.508 627.197 717.091 662.09 2012.22 1057.33 +ZMYM3 2979.83 1274.33 3493.41 4233.15 1041.15 1077.82 716.121 1221.21 2234.67 728.083 2767.18 1273.66 779.977 1294.33 1445.65 2429.23 1615.35 1598.78 2902.04 811.207 +ZMYM4 717.099 1031.14 804.029 1147.17 725.396 625.351 849.979 938.005 692.389 1229.81 749.364 483.01 582.014 690.414 750.235 799.26 514.949 706.331 747.475 891.379 +ZMYM5 409.702 322.104 216.857 444.617 255.398 160.449 206.797 504.191 226.744 174.669 274.809 261.529 145.362 249.059 310.627 169.288 255.243 257.818 540.287 265.086 +ZMYM6 777.627 479.138 578.338 816.437 687.394 561.572 307.091 560.631 698.731 298.095 674.3 498.793 427.602 640.216 759.371 478.261 611.343 544.622 591.027 561.638 +ZMYND10 1.4409 4.4289 7.7026 43.3772 3.912 0.8022 12.0182 6.1196 8.9852 33.8643 5.7252 24.2718 9.6154 8.495 10.2109 4.6253 100.848 11.4416 1.4094 6.8966 +ZMYND11 880.884 3071.26 1363.35 1317.58 1056.8 1531.49 808.537 1512.23 854.123 1089.01 1209.92 2214.81 459.842 1375.42 977.563 1481.04 963.409 1458.43 1415.08 1456.03 +ZMYND12 16.3305 24.5605 55.6955 68.9388 58.68 19.2539 4.1442 18.3589 49.1543 10.2484 20.3562 102.549 22.6244 45.1781 19.347 70.3053 51.3164 100.686 141.884 15.5172 +ZMYND15 68.2037 11.6763 46.8079 206.042 22.3543 43.7224 179.445 30.2582 34.8837 71.7389 42.6209 71.6019 35.6335 15.4455 32.7825 56.4292 47.3003 92.296 12.2152 5.1724 +ZMYND17 89.3372 138.505 98.3558 108.443 87.1816 132.772 113.966 52.017 69.2389 120.753 134.86 109.83 101.244 69.1186 112.32 119.334 79.4288 97.6354 46.9814 71.1207 +ZMYND19 744.957 274.191 339.505 1383.42 279.428 479.342 829.258 566.067 576.639 1118.41 387.405 431.432 973.416 608.167 771.194 404.255 1405.18 502.67 234.907 429.31 +ZMYND8 3022.09 1439.81 2628.35 4420.6 1621.24 1173.69 824.699 1716.9 1922.3 647.432 2347.33 2615.9 524.887 5488.95 3187.96 2807.59 2543.95 2604.12 1695.09 967.672 +ZNF100 175.312 96.6313 143.979 554.609 230.249 200.562 106.092 298.163 489.429 83.7696 444.656 166.262 100.679 241.722 146.715 164.662 136.992 157.895 197.792 228.448 +ZNF101 71.0855 65.2261 101.318 116.189 61.4742 94.6651 69.6229 55.7568 133.721 44.1127 107.506 100.121 100.679 96.1483 90.2862 89.7317 60.6872 99.9237 38.055 96.5517 +ZNF107 184.438 285.062 218.634 458.559 153.686 231.047 98.218 244.106 288.584 118.525 213.74 109.83 146.493 363.356 234.851 119.334 199.464 237.986 506.93 393.966 +ZNF10 332.853 260.904 219.819 807.901 171.569 198.155 121.84 555.528 137.949 187.59 628.257 342.84 153.846 251.592 491.2 288.622 238.286 494.279 354.71 201.724 +ZNF114 4.8031 32.6131 76.4331 159.566 2.2354 70.1966 5.3875 60.8565 100.423 65.9463 99.2366 3.6408 72.9638 105.802 49.9798 3.7003 161.535 3.0511 28.1889 22.4138 +ZNF117 2071.03 478.212 1565.36 3354.76 4629.56 1423.13 523.8 1073.3 1255.8 107.305 1582.69 1891.86 222.285 4190.74 549.209 3224.78 687.626 622.426 1327.68 1685.77 +ZNF121 37.9443 32.2104 66.3605 25.5616 28.5017 47.7337 13.2615 55.7568 47.0402 20.4968 31.1705 41.8689 34.5023 52.1286 40.8437 12.951 27.22 48.8177 10.8057 46.9828 +ZNF124 19.2123 34.2236 10.6651 2.3238 9.5006 10.0281 41.4422 9.5194 7.9281 21.8336 8.2697 24.2718 8.4842 20.4653 12.898 5.5504 9.3708 10.6789 9.8661 23.2759 +ZNF12 519.212 661.924 1209.3 804.028 628.155 464.902 725.653 534.449 959.302 514.649 666.667 754.854 346.719 1044.5 885.664 536.54 943.329 807.018 1134.6 549.569 +ZNF131 314.121 415.112 578.877 1309.84 302.341 411.151 551.596 892.108 681.29 539.156 664.758 473.908 444.005 692.345 919.522 441.258 702.811 628.528 597.134 551.724 +ZNF132 55.2354 145.35 244.112 232.378 206.218 102.286 70.0373 295.783 195.56 19.6057 307.252 177.791 151.018 191.138 281.07 209.066 176.261 145.69 123.561 105.172 +ZNF133 298.271 166.689 347.8 1045.7 474.469 245.487 302.114 394.377 379.493 219.673 836.514 329.49 394.231 636.741 489.587 490.287 248.55 823.799 184.637 122.845 +ZNF134 38.1124 262.233 215.417 157.777 178.275 222.282 112.308 293.199 317.918 124.763 246.819 231.814 154.412 287.275 325.17 177.789 131.232 128.978 132.995 240.948 +ZNF135 6.7243 407.865 66.3605 381.875 196.159 11.2314 99.4613 228.127 137.421 81.0961 253.181 181.432 3.9593 264.504 201.532 300.647 177.599 150.267 37.5852 87.5 +ZNF136 371.278 177.963 289.735 489.543 267.134 274.769 139.246 558.587 387.421 64.6096 483.461 246.359 222.285 473.019 441.22 331.175 285.587 306.636 174.771 408.621 +ZNF137 23.5351 18.1184 24.2927 127.808 19.56 58.564 29.8384 45.2174 97.2516 95.3548 78.8804 62.5 27.7149 72.5939 64.4901 41.6281 53.5475 99.9237 29.5983 31.8966 +ZNF138 165.226 146.558 460.969 421.379 163.745 345.367 145.876 421.916 383.721 125.654 489.822 140.777 263.575 368.375 580.948 251.619 365.908 277.651 497.534 169.828 +ZNF140 436.599 505.704 705.673 1683.19 331.961 335.74 555.74 855.39 507.4 397.906 1049.62 558.859 275.452 625.157 1085.05 790.934 655.957 815.408 867.747 349.569 +ZNF141 79.731 45.8999 35.5503 219.21 26.2663 49.7393 41.0278 121.373 59.1966 31.1908 71.883 87.3786 44.1176 56.7622 30.6328 64.7549 42.3918 54.9199 85.5062 41.8103 +ZNF142 487.032 438.867 426.603 461.658 369.404 942.238000000001 326.564 377.038 399.577 439.345 346.056 233.617 464.932 363.356 274.62 407.956 254.949 373.76 247.592 406.034 +ZNF143 1123.92 370.42 138.054 215.337 193.364 230.245 264.816 255.325 181.29 416.62 190.204 185.68 151.018 206.197 124.681 172.063 214.636 239.512 197.322 305.603 +ZNF146 712.296000000001 1258.62 1615.17 2014.72 923.231 1104.69 1144.22 2325.12 1883.19 1740.45 1659.67 1344.05 769.796 1849.21 2628.51 1315.45 1511.83 1067.89 907.681999999999 990.085999999999 +ZNF14 201.729 138.907 104.873 324.555 182.187 164.46 61.3344 303.262 269.556 77.9771 328.88 229.369 173.643 263.346 227.328 169.288 215.083 163.234 140.005 159.914 +ZNF148 1227.19 2699.23 788.623999999999 535.244 592.388 687.124 552.839 1272.89 532.77 838.142 615.776 1128.03 889.14 677.672 736.8 841.813 762.606 488.177 953.254 1523.71 +ZNF154 79.2507 128.439 4.1475 28.66 55.3268 17.6494 9.1173 15.2991 6.3425 25.8438 42.6209 17.5971 59.9548 69.1186 4.2993 65.6799 9.3708 72.4638 16.4435 48.2759 +ZNF155 722.891 136.456 312.842 466.367 191.129 202.84 162.453 405.967 249.445 167.539 186.215 235.57 251.697 388.454 384.356 281.221 228.867 323.417 195.913 123.009 +ZNF157 0.9606 4.4289 0 0.7746 1.1177 0.8022 0.8288 1.0199 0 0 1.9084 0 0.5656 1.5446 0 0.9251 2.6774 3.0511 0 0.8621 +ZNF160 645.053 1028.72 1983.11 2333.08 2995.47 1924.19 309.159 1156.95 2656.45 477.665 1856.23 732.403 916.855 2168.55 2351.2 1449.58 842.035 1523.26 1074.47 1672.84 +ZNF165 42.8242 24.1578 30.4784 37.1108 47.6481 83.0205 12.0182 33.3351 69.7886 45.142 267.15 48.7197 46.6968 82.6103 31.6055 51.8039 35.5154 53.3944 106.404 41.0086 +ZNF167 62.9203 105.087 75.2481 88.3036 107.859 32.8921 87.0286 92.4746 57.611 40.1025 83.3333 69.7816 86.5385 54.0593 10.7484 104.533 60.241 131.198 86.9157 60.3448 +ZNF16 139.769 159.039 206.784 374.903 171.569 164.46 226.274 346.1 173.89 389.885 477.735 251.214 173.643 373.781 326.75 250.694 396.252 344.012 154.099 211.207 +ZNF169 51.8732 46.3025 36.7353 61.9675 23.472 52.9483 36.8835 47.9372 43.8689 28.9629 19.7201 84.3447 13.009 50.584 38.1567 29.6022 77.6439 42.7155 19.7322 50.431 +ZNF174 209.894 307.207 343.06 435.322 168.216 184.517 235.806 298.163 459.831 166.648 368.957 375 228.507 384.593 367.056 332.1 414.101 275.362 324.172 234.483 +ZNF175 71.5658 126.829 176.566 257.165 99.4765 116.326 96.5603 288.983 172.304 123.872 213.74 197.815 96.7195 212.762 205.294 185.939 126.283 212.052 94.4327 106.897 +ZNF17 60.5187 74.4866 111.983 378.002 99.4765 133.975 81.6411 259.405 172.833 100.256 185.751 151.699 129.525 177.237 144.565 160.962 143.24 170.862 93.9629 120.69 +ZNF177 97.5024 48.6176 217.295 958.172000000001 58.1211 82.6314 46.0008 122.097 173.346 20.4968 270.846 169.903 52.6018 228.98 231.562 117.484 115.493 100.686 134.25 89.7026 +ZNF180 657.061 134.881 264.257 348.567 188.894 237.064 90.7584 374.998 252.643 146.597 298.346 180.218 130.656 306.979 288.593 176.688 188.755 157.132 194.033 206.035 +ZNF181 517.291 222.655 415.346 418.28 318.548 385.88 128.885 414.776 387.421 118.525 469.466 439.927 167.421 617.048 677.684 384.829 350.29 383.677 274.841 159.914 +ZNF182 230.975 111.017 183.084 541.441 89.4171 121.941 184.003 80.5481 333.409 118.048 325.064 241.505 49.7738 236.675 125.218 236.818 203.842 215.866 143.914 102.155 +ZNF184 308.357 156.623 93.0233 75.1356 100.594 249.097 154.579 148.911 404.863 127.437 174.936 71.6019 243.213 149.821 113.933 124.884 162.874 122.044 136.716 158.621 +ZNF185 102.305 1829.96 23.1077 264.911 748.868 34.4966 118.939 13.2592 39.6406 305.224 24.173 862.864 33.9367 32.8217 23.109 2012.03 38.822 64.0732 168.194 33.1897 +ZNF18 408.261 128.036 235.817 202.169 201.188 113.518 198.923 172.03 198.732 94.018 187.023 266.384 109.728 194.227 218.192 306.198 120.482 312.738 238.196 64.6552 +ZNF187 182.997 289.894 221.004 362.51 333.637 371.039 171.985 297.823 303.383 238.833 499.364 202.063 332.014 254.465 155.851 451.434 165.105 286.041 341.085 517.241 +ZNF189 2157.54 698.966 1978.37 23568.6 1142.86 1953.87 351.015 3676.21 4001.06 358.694 1842.24 1133.5 1003.39 2362.78 3671.64 1301.57 1563.59 1081.62 3456.42 994.828 +ZNF192 63.8809 387.733 207.377 55.7707 92.2114 188.528 33.5682 310.062 213.002 49.0141 138.677 191.748 13.009 158.316 69.3269 140.611 85.2298 83.9054 171.952 264.224 +ZNF193 189.241 103.879 108.428 321.456 302.9 323.305 140.903 170.67 269.027 185.363 296.438 112.864 356.335 100.396 111.783 215.541 154.842 226.545 192.154 308.621 +ZNF195 222.863 147.363 191.379 328.428 136.361 178.5 161.625 196.849 209.302 318.146 188.931 131.068 198.529 201.178 124.144 132.285 195.002 145.69 229.739 195.259 +ZNF197 243.516 691.719 318.768 565.453 353.197 342.96 291.753 419.196 357.822 233.04 631.043 417.476 336.538 359.494 372.968 492.137 207.05 283.753 407.799 328.017 +ZNF19 119.597 39.0592 58.735 78.8459 32.9725 23.5299 52.4244 66.6089 80.1956 37.8746 60.3181 74.7816 53.1674 81.2125 114.653 55.3839 107.876 82.2197 21.0571 51.7241 +ZNF200 399.616 107.905 295.66 565.453 164.304 267.148 219.229 253.965 394.292 241.06 276.718 180.218 223.982 286.128 379.417 213.691 313.253 260.107 243.364 261.207 +ZNF202 356.868 221.447 204.414 343.145 171.569 281.588 233.32 147.551 198.203 238.387 178.753 139.563 196.833 207.742 123.069 120.259 195.002 297.483 115.574 250.431 +ZNF204P 195.965 128.036 47.9929 7.7459 337.549 2.8079 4.5586 3.3998 127.378 49.4597 179.389 71.6019 91.629 122.019 3.2245 36.0777 93.7082 28.9855 67.6533 19.8276 +ZNF205 382.238 292.511 284.361 1207.23 183.786 105.038 506.37 186.669 457.463 246.84 483.422 461.08 614.253 518.15 31.7076 430.102 312.445 687.986 210.43 249.095 +ZNF20 182.498 101.451 89.4682 205.105 149.975 140.794 64.6415 140.976 164.234 61.4905 191.234 146.845 124.434 187.516 93.5107 129.713 109.772 149.512 62.4853 185 +ZNF207 2512.97 1776.41 2240.85 1615.8 2153.83 2515.44 2157.89 2567.53 2179.18 2305 2514.63 2291.26 1931.56 2138.43 2643.02 2291.4 2375.28 1919.15 2459.01 3593.1 +ZNF208 3.3622 51.9393 0 6.1967 5.5886 2.0056 14.9192 3.0598 8.9852 0.4456 389.313 97.0874 1.6968 8.1089 4.2993 30.5273 4.0161 266.972 5.168 0.8621 +ZNF211 194.356 203.61 359.313 1573.44 249.809 199.699 113.137 389.821 398.256 162.638 763.995 209.327 167.986 537.901 379.385 465.134 303.396 336.316 253.192 284.914 +ZNF212 269.452 396.188 523.182 580.17 347.609 417.168 675.922 577.286 593.552 426.869 246.819 380.461 320.701 516.652 568.588 294.172 738.063 398.169 450.552 197.845 +ZNF213 848.703 780.7 949.193 1277.3 369.963 380.265 654.787 553.828 799.154 382.31 577.608 754.248 355.204 861.473 733.038 1135.06 624.721 1139.59 492.365 359.914 +ZNF214 14.8895 20.9368 30.2177 25.5616 15.648 4.8135 5.3875 31.2782 18.4989 20.9424 17.1756 27.3058 1.1312 32.4356 23.109 37.9278 27.6662 19.8322 16.9133 0.431 +ZNF215 39.8655 31.0025 220.412 102.246 62.5919 40.5134 6.6308 53.0369 118.922 2.2279 64.8855 20.0243 4.5249 13.1287 4.8368 18.5014 37.4833 5.3394 138.125 0.8621 +ZNF217 245.917 451.349 204.414 393.493 657.774 73.0044 682.553 199.908 157.505 998.997 400.127 629.248 48.0769 384.593 115.545 790.934 153.949 365.37 185.577 253.879 +ZNF219 1860.23 686.485 6022.81 4356.31 1079.15 2861.61 504.351 4918.15 2510.04 970.926 4701.65 1629.25 2303.17 3185.64 2713.96 2154.49 4120.48 2681.92 3985.91 1434.05 +ZNF221 32.1806 26.171 39.6978 30.9837 10.0594 18.4517 12.8471 44.5374 26.4271 6.6837 31.8066 18.2039 13.5747 61.3959 33.8573 14.8011 5.801 51.106 6.1076 15.0862 +ZNF222 105 52.9459 80.7169 146.948 86.5837 116.205 79.7886 112.873 114.693 38.7657 158.537 99.1808 124.378 137.689 184.872 112.859 40.1606 83.1426 58.257 61.6552 +ZNF223 72.9011 85.6475 97.9647 167.095 90.3168 125.255 65.6361 191.409 163.319 57.4802 168.002 94.7573 117.24 140.099 112.858 135.985 73.1816 100.686 117.454 65.7974 +ZNF224 426.345 121.373 343.149 775.229 193.7 160.381 107.377 202.02 292.949 121.359 478.899 244.83 163.331 345.682 181.642 278.048 155.377 275.965 92.1024 175.823 +ZNF225 127.281 66.434 128.573 188.226 102.271 89.8516 46.0008 115.253 113.108 42.3304 131.043 93.4466 50.3394 131.287 95.6604 93.432 52.2088 100.686 71.4118 69.3966 +ZNF226 1656.1 376.057 584.21 834.237 779.046000000001 578.821 314.546 827.512 705.602 213.434 788.168 604.369 710.973 1004.34 743.786 402.405 456.493 463.005 722.575 331.897 +ZNF22 205.226 189.413 411.103 887.08 396.492 297.698 473.896 974.804999999999 572.463 713.869 341.05 299.248 472.851 356.424 44.0683 439.769 297.947 708.101 277.284 21.7845 +ZNF227 644.572 172.318 389.276 389.62 326.931 374.645 195.462 470.111 500.439 228.584 499.364 292.124 290.158 557.969 542.249 324.699 295.35 399.535 307.738 160.776 +ZNF229 736.792 246.812 344.245 538.342 253.162 447.653 101.948 579.666 415.433 192.046 568.702 291.869 211.538 471.474 556.227 322.849 213.298 227.307 260.747 232.328 +ZNF230 166.667 98.6444 143.979 277.304 111.213 116.326 88.6863 247.506 210.359 87.7799 344.148 200.85 123.303 228.207 200.457 176.688 111.557 243.326 69.5325 96.5517 +ZNF232 126.321 100.658 89.4682 215.337 90.5348 111.913 149.192 74.4557 143.235 105.158 105.598 192.961 104.638 97.6928 95.6604 134.135 85.2298 138.062 70.0023 51.7241 +ZNF233 203.17 53.5498 18.3676 69.7134 106.183 48.937 8.7029 57.4567 26.4271 19.6057 55.9796 54.6117 45.8145 63.3266 22.5715 16.6512 11.1557 50.3432 37.1153 23.2759 +ZNF234 413.545 157.429 213.302 206.042 198.953 281.99 105.678 276.744 179.175 98.4739 356.234 288.228 161.199 362.197 221.953 198.89 105.756 212.815 152.22 186.207 +ZNF235 172.911 48.7263 50.3629 135.554 87.7405 112.72 47.3891 82.3568 70.9144 47.6774 78.2443 93.1917 54.8643 126.267 46.7607 61.0546 36.6444 84.0656 84.5572 32.7586 +ZNF236 1004.32 305.596 133.314 347.792 55.3268 107.1 131.372 155.031 143.763 150.607 77.6081 164.442 45.2489 120.861 51.0547 126.734 111.557 178.49 82.6873 167.241 +ZNF23 285.303 177.556 504.737 750.744 201.747 136.919 122.876 309.409 491.686 214.326 413.601 510.777 117.647 564.796 517.351 512.609 440.094 524.188 230.763 101.724 +ZNF238 489.433 512.146 248.26 675.445 131.331 202.567 165.354 207.388 244.715 194.72 317.43 293.689 214.932 393.474 303.641 371.878 226.238 394.356 458.069 390.948 +ZNF239 22.5744 198.094 33.1803 85.2053 68.1805 66.9876 13.6759 125.113 29.5983 161.747 73.1552 47.3301 53.733 93.0592 87.0617 51.8039 47.3003 89.2449 26.7794 84.0517 +ZNF24 2520.17 1297.68 1342.62 1554.61 929.378999999999 1134.38 1148.78 1770.28 1396.41 851.955 1173.03 1115.9 1081.45 1779.71 1159.21 1188.71 1115.13 1485.13 2392.76 2445.69 +ZNF248 383.766 369.615 180.714 457.785 150.891 206.177 171.156 313.462 244.715 177.342 294.529 188.107 120.475 148.663 134.354 179.464 153.057 324.18 121.212 154.31 +ZNF250 210.596 166.19 205.344 556.654 157.145 225.66 110.655 464.923 203.272 269.123 438.766 257.555 293.637 325.719 141.851 154.986 434.627 288.383 82.5511 209.728 +ZNF251 559.078 323.715 366.76 1009.3 269.369 312.876 268.131 456.593 191.332 535.145 686.387 375.607 109.728 282.267 303.641 446.808 249.888 463.005 76.1099 246.121 +ZNF25 409.222 1136.22 284.995 395.817 265.457 227.437 180.274 388.257 267.442 85.9975 353.69 761.529 93.8914 356.405 300.416 299.723 200.803 476.735 204.369 175.862 +ZNF252 518.252 531.875 294.475 405.887 470.557 693.542 258.599 568.447 336.152 426.423 433.206 1277.91 327.489 547.929 290.743 293.247 456.046 489.702 788.818 222.845 +ZNF253 103.746 105.087 214.487 279.628 145.303 225.431 58.4335 265.185 282.77 51.6876 347.328 197.209 167.421 278.791 267.097 241.443 179.384 171.625 198.732 175.862 +ZNF254 216.143 124.735 399.585 237.8 241.309 297.016 121.72 538.638 706.126 78.4761 510.738 311.25 142.302 425.724 344.479 384.727 188.755 332.273 296.335 253.336 +ZNF256 36.9837 98.2418 75.8406 225.407 79.3577 173.285 85.7853 210.108 224.101 87.7799 249.364 137.743 118.213 159.475 172.511 121.184 105.756 112.891 71.8816 125.431 +ZNF257 17.2911 37.042 0 31.7583 11.736 0.4011 2.4865 74.4557 57.0825 8.0205 99.2366 18.8107 2.2624 2.3168 1.0748 30.5273 1.3387 19.8322 38.5248 27.1552 +ZNF259 403.458 568.917 499.482 158.792 477.822 482.551 738.5 516.43 551.797 1455.27 548.982 438.714 528.28 330.534 740.024 259.019 452.03 464.531 582.57 486.207 +ZNF260 186.359 321.299 486.447 562.355 418.025 496.189 330.294 600.405 575.053 328.395 712.468 545.51 317.873 578.434 656.187 639.223 320.839 487.414 303.97 528.448 +ZNF263 892.464 650.622 1155.1 2025.02 601.894 465.303 622.18 969.335 1551.15 588.17 1259.95 1076.46 668.959 1664.28 1994.89 899.573999999999 1223.9 1125.91 987.503 442.603 +ZNF264 349.183 463.428 927.27 934.16 510.236 800.241 341.069 1392.22 826.638999999999 478.111 1261.45 623.786 453.054 1218.26 885.664 1086.03 642.57 909.23 419.544 860.345 +ZNF266 953.89 269.762 715.153 1256.39 585.123 671.881 500.207 1221.55 1053.91 208.978 1840.97 539.442 511.878 930.592 793.229 958.372 840.25 1630.82 395.584 860.776000000001 +ZNF267 68.2037 129.647 166.494 138.652 102.271 79.4224 257.77 101.314 353.065 186.699 168.575 211.772 67.3077 147.118 126.293 226.642 110.665 254.767 148.461 149.138 +ZNF26 137.848 249.631 263.665 479.473 162.068 137.986 450.062 277.084 239.429 248.19 230.28 186.286 136.312 129.356 283.219 259.945 311.914 219.68 295.043 190.086 +ZNF268 256.484 562.475 517.849 448.49 350.962 148.817 295.897 435.855 263.742 188.927 325.305 250 142.534 280.12 624.479 413.506 257.028 175.439 645.525 330.603 +ZNF271 979.347 516.172 420.086 631.294 370.522 467.308 723.166 444.354 643.763 362.705 257.634 625.607 699.661 548.316 548.703 499.538 524.766 315.027 669.955 964.654999999999 +ZNF273 50.9126 91.7997 108.428 246.321 41.9143 114.721 116.453 181.549 235.729 68.6198 119.593 64.3204 75.7919 276.861 115.545 120.259 174.922 94.5843 91.6138 78.0172 +ZNF274 281.46 505.704 308.695 1215.34 743.838 756.518 423.539 1174.63 918.605 469.645 1385.5 985.437 316.742 1070.37 1052.8 949.121 531.459 722.349 429.41 693.534 +ZNF275 14582.1 4589.99 8946.23 47299 3993.03 6942.24 263.987 13358.8 19238.4 372.953 29610.7 10297.9 4332.58 18167.4 11234.7 8064.75 5984.38 15614 25238 1954.74 +ZNF2 109.99 89.7866 134.499 82.8815 135.802 109.908 111.065 116.953 79.2812 94.4636 101.781 67.3544 131.787 122.792 133.817 111.933 78.9826 144.165 137.186 117.672 +ZNF276 1249.82 356.718 847.329 2535.1 387.131 323.847 454.753 345.457 568.139 1004.66 506.858 831.214 379.649 682.471 675.475 342.081 649.978 772.365 163.444 325.987 +ZNF277 236.311 492.82 763.739 244.772 340.903 368.231 362.619 326.381 478.33 368.052 302.163 365.898 243.213 519.741 803.439 382.979 443.552 200.61 465.116 200.431 +ZNF280A 12.488 91.3971 12.4426 57.3199 0 2.8079 2.4865 0 7.9281 0 24.173 0.6068 0 10.0396 3.2245 24.9769 4.0161 60.2593 33.8266 434.483 +ZNF280B 296.35 217.018 247.075 130.132 73.7691 81.0269 4.9731 90.4347 306.554 109.168 80.7888 62.5 200.226 203.881 131.667 148.011 360.553 334.096 298.802 493.966 +ZNF280C 25.9366 62.0051 183.084 177.382 29.6194 112.716 64.2354 95.1945 87.7378 188.036 125.954 65.534 60.5204 124.722 80.6127 90.6568 216.421 68.6499 124.501 115.948 +ZNF280D 318.948 819.876 812.751 1049.35 429.873 495.142 263.684 716.403 621.184 678.543 740.07 382.785 330.373 981.987 826.774 463.099 385.337 1024.34 857.797 484.595 +ZNF281 18.2517 177.963 109.613 46.4756 48.0617 83.4336 95.317 108.454 87.7378 80.6506 55.9796 80.7039 20.9276 98.8512 60.7282 36.0777 28.1124 74.7521 83.1572 106.897 +ZNF282 716.138 810.495 841.357 862.122 602.447 760.529 1187.73 1301.44 796.512 1048.9 480.28 639.563 690.611 849.503 1258.09 529.14 1025.44 628.528 477.801 443.966 +ZNF283 108.069 45.8999 24.2927 71.2626 29.0605 89.8516 33.1538 56.0967 63.4249 36.9834 75.6997 45.5097 27.7149 63.7127 73.6262 38.8529 44.1767 41.1899 28.6587 45.6897 +ZNF284 43.5255 48.6337 12.6974 102.688 15.3406 28.0947 17.0286 35.3579 35.4123 21.388 47.5064 33.0036 17.4321 33.8218 11.8232 34.2276 11.602 27.46 13.1548 45.3879 +ZNF285 314.601 60.3946 76.4331 96.0496 71.5337 97.874 36.0547 110.154 89.852 62.3816 115.776 114.078 62.7828 147.891 134.892 111.933 96.8318 148.741 95.8421 43.1034 +ZNF286A 268.972 126.426 247.075 223.083 153.127 166.065 191.048 185.629 188.161 102.484 211.196 256.675 126.131 215.465 168.212 235.893 164.212 162.471 183.697 101.293 +ZNF286B 32.1806 8.8579 12.4426 13.1681 19.0011 4.0112 7.0452 16.999 22.1987 12.4763 17.8117 29.1262 10.181 13.901 9.6735 34.2276 11.1557 13.73 13.1548 10.3448 +ZNF287 125.841 134.076 249.445 266.46 153.686 108.704 128.056 208.068 169.662 52.5788 174.936 404.126 139.706 268.366 204.219 298.797 320.393 154.081 214.705 63.7931 +ZNF28 71.0855 297.544 298.03 173.509 183.864 398.716 128.885 234.926 334.567 172.886 203.562 287.621 143.1 324.742 330.512 157.262 159.304 154.081 371.153 266.81 +ZNF292 543.708 664.34 728.188 698.683 509.677 257.922 408.206 483.792 882.135 361.368 650.763 398.665 272.059 412.781 253.661 500.462 514.949 448.513 764.388 497.845 +ZNF295 581.652 455.778 810.547 281.952 330.284 319.294 262.329 707.499 747.886 422.413 389.949 389.563 396.493 429.771 816.875 449.584 715.752 644.546 531.83 326.724 +ZNF296 12.0077 6.8447 36.7353 126.259 22.9131 12.4348 6.6308 27.8784 61.3108 72.1845 40.7125 15.1699 29.4118 41.3167 56.9663 54.5791 94.1544 45.0038 8.4567 7.7586 +ZNF300 113.833 225.473 7.1101 116.189 15.0891 74.2078 274.762 88.3949 75.0529 42.3304 178.753 106.189 50.3394 130.128 19.347 325.624 66.4882 135.011 10.8057 200.862 +ZNF302 592.219 415.112 1159.53 2035.63 953.968000000001 951.464 583.092 1576.49 933.404 595.299 1024.17 942.961000000001 576.923 1482 1549.91 1010.18 1131.19 1172.39 583.979 405.172 +ZNF304 157.541 321.702 390.461 841.208 223.543 539.511 138.002 607.545 392.706 151.498 732.824 317.354 298.642 595.038 442.295 419.981 333.333 696.415 243.364 401.724 +ZNF30 95.5812 79.7208 105.466 208.366 155.362 158.845 58.4335 154.011 107.822 69.0654 137.405 137.743 64.4796 212.762 165.525 129.51 152.61 90.7704 81.2779 64.2241 +ZNF311 40.8261 89.7866 26.0702 90.6274 65.3862 73.0044 1.6577 28.2184 115.222 20.0512 75.0636 37.0146 96.7195 49.0395 47.2928 83.2562 70.5042 39.6644 62.4853 2.5862 +ZNF317 477.426 595.893 856.762 1163.44 518.06 821.901 620.39 1167.15 1062.37 382.756 900.127 926.578 538.462 1017.86 1189.31 702.128 858.098999999999 770.404 474.982 706.034 +ZNF318 341.499 868.474 584.802 494.19 394.553 664.26 704.103 334.541 864.693 290.966 555.343 395.631 290.158 347.138 314.927 385.754 304.328 380.625 569.415 640.948 +ZNF319 692.123 386.928 834.247 832.688 224.66 342.158 310.402 638.823 589.323 375.627 480.916 459.952 286.199 880.008 680.908 753.006 628.291 567.506 314.776 246.983 +ZNF320 225.744 514.562 319.36 459.334 193.923 479.743 262.743 388.937 852.009 290.966 350.509 611.65 148.19 640.216 304.178 416.281 513.61 349.352 298.802 342.241 +ZNF321 11.0471 31.079 13.0351 23.2378 35.9792 48.4156 39.3701 33.998 50.814 47.6774 49.6183 50.0728 32.2398 52.1286 22.0341 21.4246 39.2682 35.8505 15.0763 30.2457 +ZNF322A 714.697 730.774 559.324 411.309 516.384 562.375 334.024 824.792 808.139 555.197 817.43 341.019 334.276 625.929 465.941 598.52 407.407 519.451 951.844 726.724 +ZNF322B 27.8578 38.2499 26.6627 21.6886 26.2663 32.0899 11.1894 48.2772 25.37 41.8848 33.715 18.8107 33.9367 15.4455 25.2586 45.3284 12.0482 15.2555 67.6533 36.6379 +ZNF323 50.4323 56.3683 87.0982 74.361 114.007 85.8404 24.0365 100.974 214.588 101.147 157.125 75.8495 66.1765 76.0691 79.0004 178.538 471.664 80.8543 275.781 64.6552 +ZNF324 68.684 201.718 356.688 321.456 150.891 252.708 142.976 497.051 282.241 156.845 343.512 223.301 256.787 404.672 405.75 159.112 342.704 246.377 93.0233 140.948 +ZNF324B 48.9914 108.308 181.306 151.82 97.2411 91.4561 96.5603 233.226 231.501 78.4226 146.947 154.126 96.1538 182.643 197.232 75.8557 201.696 108.314 43.2229 84.9138 +ZNF326 308.357 178.365 491.779 791.634 203.983 434.416 219.229 492.971 396.406 544.948 416.031 227.548 182.127 347.91 428.322 309.898 443.998 405.797 420.014 206.035 +ZNF32 879.923 1058.52 648.793 1626.65 565.563 862.415 652.3 970.984 599.894 807.842 1646.31 1606.8 959.842 781.543 711.004 1159.11 556.894 1263.16 661.968 398.707 +ZNF329 89.3372 325.728 279.662 340.046 336.432 267.148 238.707 319.241 487.315 168.876 466.921 425.971 228.507 540.593 552.465 401.48 346.274 239.512 279.07 279.741 +ZNF330 665.226 917.996999999999 734.706 695.585 767.869 736.462 714.049 810.853000000001 887.421 380.082 666.667 1881.67 847.285 1825.27 1054.41 1100.83 1099.51 888.635 1256.75 849.138 +ZNF331 1655.62 527.848 394.608 1081.33 347.05 319.695 431.828 2098.7 569.767 1196.84 802.163 526.092 173.077 537.504 476.152 373.728 410.977 721.587 396.993 325.862 +ZNF333 196.446 572.54 357.28 503.486 105.065 159.246 156.237 307.002 193.975 49.9053 284.351 296.116 67.3077 284.197 230.015 233.118 232.039 280.702 113.695 215.086 +ZNF334 228.146 128.439 64.583 315.26 279.428 60.1685 61.3344 466.113 12.685 3.1191 459.288 202.67 238.122 89.5839 2.6871 560.592 237.84 493.516 53.5588 271.983 +ZNF335 815.082 727.956 434.306 786.987 352.639 498.997 650.642 660.242 255.814 615.796 720.102 418.082 596.154 679.988 557.84 519.889 550.647 690.313 345.314 481.897 +ZNF337 560.658 193.971 412.099 841.703999999999 580.445 252.21 190.841 510.246 430.079 251.006 757.144 667.027 449.621 732.692 488.599 459.13 634.07 584.928 184.524 692.224 +ZNF33A 992.795 1432.96 526.144 632.068 575.063 1042.52 205.139 1127.03 568.71 418.403 1041.35 1036.41 308.824 937.542 511.084 572.618 467.202 795.576 552.972 726.724 +ZNF33B 957.733000000001 1387.06 268.997 270.333 357.668 378.66 63.821 811.193 226.744 348 538.168 399.272 184.955 610.097 234.314 339.5 302.543 305.873 354.71 221.121 +ZNF341 102.305 112.334 93.6158 178.931 197.835 128.359 152.922 141.432 86.6808 129.219 270.992 105.582 217.195 167.198 100.497 181.314 138.777 271.548 121.212 114.224 +ZNF343 327.089 149.779 218.042 274.206 400.7 116.326 176.958 292.723 211.417 127.437 288.168 263.349 152.715 357.95 325.138 153.561 173.583 272.311 219.403 66.3793 +ZNF345 47.5504 41.4709 87.0982 133.23 76.5634 49.7393 55.947 93.1546 110.465 58.817 99.8728 91.0194 34.5023 85.7226 58.0411 92.5069 72.2892 55.6827 17.8529 41.3793 +ZNF346 710.375 341.833 444.971 599.535 367.728 519.856 313.303 569.807 444.503 394.341 620.229 405.947 953.62 428.613 529.356 443.108 600.178 265.446 444.444 315.517 +ZNF347 39.8655 232.318 129.166 170.411 194.482 190.132 45.172 99.2742 242.072 89.1166 168.575 99.5146 69.5701 164.881 202.069 152.636 97.7242 128.909 108.057 126.724 +ZNF34 699.328 52.7446 71.1006 388.846 148.656 45.728 99.8757 261.105 149.049 180.016 234.733 189.32 123.303 181.485 135.967 164.662 224.9 171.625 76.5798 114.224 +ZNF350 129.203 174.339 215.672 367.932 181.07 192.138 165.354 254.305 393.763 180.016 388.677 226.942 212.104 381.118 359.532 221.092 285.141 234.935 197.792 261.207 +ZNF354A 426.993 250.034 178.344 632.843 59.2388 133.173 131.372 211.128 266.385 290.966 410.305 132.282 108.032 323.583 210.668 239.593 230.254 154.844 141.414 115.086 +ZNF354B 142.651 94.2155 85.9132 411.309 53.0914 80.2246 38.9557 58.8166 57.611 91.3445 133.588 89.8058 34.5023 93.4453 76.8507 47.1785 81.2137 108.314 70.4722 52.5862 +ZNF354C 0.4803 61.1998 2.9625 12.3935 3.3531 8.0225 5.3875 33.658 11.0994 5.7926 27.9898 44.9029 3.3937 33.9801 8.5987 24.9769 16.0643 17.5439 1.4094 23.2759 +ZNF35 138.809 177.157 133.906 139.427 51.4148 110.71 152.922 102.334 108.351 66.3919 178.117 114.684 184.389 94.6037 120.919 171.138 103.525 125.095 130.139 145.259 +ZNF358 1170.03 1488.52 1821.95 4096.82 1697.25 1318.09 2462.08 3783.3 2126.85 1046.23 2382.95 2042.48 1523.19 2295.59 3030.5 3827.94 1979.03 2160.95 433.169 1152.59 +ZNF362 779.059 666.756 434.306 879.938 217.954 359.406 1143.8 720.418 454.017 908.544 371.501 325.849 732.466 257.94 704.555 629.047 337.349 489.702 336.857 310.345 +ZNF365 1.9212 198.094 81.7657 79.7831 0 1.2034 371.736 381.118 48.6258 6.2382 126.59 29.733 1.6968 170.673 72.014 65.6799 265.06 4.5767 42.7531 0.8621 +ZNF366 2.8818 32.6131 7.1101 12.3935 18.4423 21.2595 9.1173 41.8176 5.814 1.7823 5.7252 12.7427 1.6968 5.0198 5.3742 15.7262 2.2311 9.1533 14.5642 3.4483 +ZNF367 79.731 243.189 90.0607 390.395 34.6491 634.978 254.041 242.406 708.245 473.655 182.57 245.146 428.167 88.4255 375.655 151.711 1137.88 70.1754 193.094 1480.6 +ZNF3 525.884 580.223 605.09 769.171 564.239 557.914 508.91 740.708 699.144 430.473 384.542 567.925 336.476 832.965 729.034 424.607 874.101 569.657 570.115 305.172 +ZNF37A 327.57 681.653 325.285 660.728 252.603 749.298 213.842 257.365 306.025 317.701 448.473 454.49 138.575 423.979 268.709 222.942 210.174 218.917 225.041 323.707 +ZNF37B 575.408 464.635 121.463 747.483 188.894 347.373 144.633 315.842 149.049 176.005 270.992 330.704 69.0045 303.89 74.1636 187.789 131.638 250.953 84.0968 305.603 +ZNF382 39.3852 69.6551 13.6276 79.7831 44.1497 64.5808 33.1538 76.8355 47.0402 12.9219 75.6997 108.617 28.8462 119.703 22.0341 79.556 39.2682 80.8543 31.0078 96.5517 +ZNF383 49.952 65.6288 100.726 128.583 90.5348 115.523 60.0912 103.694 88.2664 73.0756 133.588 80.0971 57.1267 105.416 87.5991 56.4292 54.44 95.3471 46.0418 56.0345 +ZNF384 1767.05 2331.63 1507.92 2930.29 915.407 980.746 1795.28 1664.88 1372.09 1137.57 1655.85 1004.85 946.266999999999 1355.73 1679.97 1310.82 1407.85 1312.74 719.286 939.224 +ZNF385A 209.894 3205.34 1637.68 1677.77 205.1 381.468 898.881 306.322 726.744 781.998 4673.66 1063.11 436.652 1810.99 486.363 509.713 9634.98 5980.17 9661.72999999999 1302.16 +ZNF385B 7.6849 3.221 81.1732 6.9713 1124.98 0.8022 72.1094 8.8395 127.378 0 105.598 227.548 2.2624 276.861 49.9798 584.644 112.896 50.3432 59.6664 209.914 +ZNF385D 1.9212 2.8184 3.555 0.7746 15.0891 0 14.0903 0 1.5856 0.8912 0 11.5291 2.2624 4.2475 5.3742 7.4006 0.4462 12.9672 0 0 +ZNF389 53.3141 16.9105 1.7775 22.4632 28.5017 9.2258 3.3154 21.4188 10.5708 3.1191 26.0814 23.665 15.2715 9.6534 9.1361 8.3256 14.2793 16.7811 11.2755 16.3793 +ZNF391 9.1258 41.4709 27.2552 26.3362 15.648 29.282 5.3875 28.2184 32.7696 11.5852 11.4504 15.7767 11.3122 27.8019 16.1225 24.0518 14.7256 7.6278 26.3096 30.6034 +ZNF394 407.781 383.304 444.971 720.372 586.241 424.789 546.208 675.881 591.438 579.258 528.626 458.738 301.471 743.315 708.317 314.524 654.619 668.955 490.486 200 +ZNF395 1585.97 995.705 1951.66 1456.24 1443.49 834.396 2033.15 1537.05 2367.34 810.961 2277.59 1753.03 592.76 773.048 605.132 1048.1 1457.83 1112.01 1144 1064.66 +ZNF396 21.1335 16.5078 13.6276 23.2378 25.1486 17.6494 14.5048 19.3789 17.4419 8.9117 10.1781 29.1262 14.1403 30.891 15.5851 24.0518 17.8492 16.7811 17.8529 40.0862 +ZNF397 170.509 219.2 244.704 87.529 145.862 141.195 101.948 232.207 272.199 40.1025 78.2443 232.403 138.009 205.626 253.575 133.848 169.121 192.22 224.101 202.586 +ZNF397OS 195.485 346.093 171.234 429.899 121.272 142.399 217.571 278.104 237.315 103.821 129.135 221.481 167.986 253.878 144.651 196.401 186.524 256.293 263.566 443.534 +ZNF398 341.499 374.446 596.06 384.198 327.49 433.614 346.871 316.182 678.118 316.81 377.226 348.301 174.208 477.652 569.663 222.017 589.469 524.79 433.639 246.121 +ZNF404 1120.08 93.0076 127.981 1127.03 58.1211 156.839 68.3796 250.225 330.867 62.8272 456.107 69.1748 126.131 360.653 322.451 444.958 288.264 341.724 106.178 46.9828 +ZNF407 297.791 359.146 152.274 130.906 187.776 171.681 318.69 242.066 184.461 161.301 130.407 185.073 178.167 159.475 173.586 128.585 150.826 133.486 189.805 171.121 +ZNF408 250.72 200.913 181.899 404.338 293.959 303.65 519.685 273.684 248.943 406.817 244.275 205.097 493.778 244.425 230.015 241.443 276.662 265.446 156.448 185.345 +ZNF410 966.311 1014.74 1172.47 1465.44 807.855 1172.54 938.446 1072.35 1148.36 1000.37 764.434 499.957 1293.27 694.588 1511 578.807 1401.42 616.728 1084.2 824.547 +ZNF414 459.654 308.415 351.948 535.244 319.107 310.469 326.564 759.176 481.501 158.182 590.331 348.908 375 462.979 376.192 464.385 514.503 337.147 217.054 521.983 +ZNF415 335.255 494.833 251.815 571.65 1083.62 736.462 160.381 268.924 692.389 147.488 610.687 473.301 283.371 678.444 144.565 610.546 48.639 564.455 599.483 341.379 +ZNF416 77.8098 109.918 185.454 206.816 117.36 161.653 90.344 201.948 234.672 90.0078 321.883 152.306 170.815 287.286 213.355 184.089 167.336 168.574 116.984 109.052 +ZNF417 34.5821 126.426 119.686 198.296 61.4742 120.337 52.2172 134.292 135.835 47.6774 174.3 142.597 85.4072 191.524 146.715 159.112 132.084 96.8726 43.6927 128.017 +ZNF41 92.6993 166.286 261.295 356.313 45.2674 96.2696 159.967 172.71 232.03 209.424 195.929 219.66 30.543 206.197 122.531 213.691 136.992 151.792 209.067 51.7241 +ZNF418 61.9597 92.2024 2.37 113.091 46.944 133.574 29.424 65.9562 64.482 40.5481 145.038 88.5922 93.8914 99.2374 104.796 64.7549 87.461 102.212 24.9002 83.1897 +ZNF419 101.825 162.26 393.423 903.95 215.719 245.086 145.876 301.223 439.218 139.468 678.117 276.699 248.869 396.95 421.336 235.893 294.065 330.282 206.249 204.741 +ZNF420 59.0778 103.073 167.086 57.3199 118.478 111.512 46.0008 114.233 229.915 75.3036 150.127 155.34 41.8552 195.772 187.559 100.833 85.676 93.0587 120.272 81.0345 +ZNF423 112.392 120.386 488.817 465.531 335.314 46.1292 43.5143 1688 507.4 13.8131 1317.43 154.733 66.1765 364.514 303.104 481.961 294.065 530.892 279.54 59.0517 +ZNF425 37.9443 175.547 80.5807 43.3772 92.2114 137.184 34.8114 121.373 49.1543 56.1435 62.341 36.4078 32.2398 59.0791 193.47 50.8788 41.9456 162.471 62.9551 39.6552 +ZNF426 23.5351 97.0339 51.5479 58.0945 41.3554 63.3775 32.7393 153.671 84.0381 16.4866 81.4249 72.2087 31.1086 105.802 104.259 67.5301 37.037 35.8505 49.8003 102.586 +ZNF428 2435.42 638.242 877.417 2866.46 589.94 818.66 694.496 1165.72 1228.87 828.045 1730.55 1153.09 967.613 970.252 1209.48 1309.91 1052.78 934.447 289.232 558.034 +ZNF429 38.9049 107.502 167.086 166.538 86.0639 83.0325 33.5682 112.194 227.801 18.7145 68.7023 181.432 41.8552 159.089 233.777 157.262 116.912 99.9237 193.094 64.2241 +ZNF430 45.6292 96.2287 128.573 73.5864 60.3565 103.49 35.6403 196.849 395.877 18.7145 89.6947 72.8155 28.8462 103.871 117.157 63.8298 51.3164 41.1899 95.8421 127.586 +ZNF431 190.202 111.126 68.7306 120.837 374.434 127.958 41.4422 128.512 504.757 57.0346 143.766 115.898 81.448 97.6928 66.6398 105.458 75.4128 65.5988 162.556 124.569 +ZNF432 40.3458 108.308 271.96 473.276 43.032 210.189 33.1538 155.031 354.123 42.3304 449.109 178.398 41.2896 294.623 246.137 129.51 67.3806 198.322 93.9629 146.983 +ZNF433 46.1095 58.784 10.0726 112.316 72.6514 48.937 48.9018 71.3958 7.9281 23.1703 101.145 101.942 84.8416 80.3166 9.6735 106.383 5.3548 68.6499 22.5511 93.5345 +ZNF434 350.144 201.718 516.072 816.421 162.068 196.55 199.751 410.016 497.357 180.016 442.748 392.597 182.127 520.9 452.506 425.532 395.359 430.206 456.19 271.983 +ZNF436 667.488 308.326 360 1488.57 478.689 621.167 559.548 532.494 496.808 263.491 445.293 472.706 140.837 303.118 237.109 454.209 206.252 2302.2 292.685 199.569 +ZNF43 298.271 260.099 283.81 678.544 310.724 425.592 144.633 796.234 724.63 69.0654 815.522 437.5 295.249 649.097 427.247 639.223 270.415 163.234 456.19 478.879 +ZNF438 49.952 225.07 75.8406 107.668 239.75 180.505 300.87 125.793 84.5666 305.224 164.122 263.956 112.557 210.445 133.28 181.314 117.358 155.606 77.9892 100 +ZNF439 217.099 130.05 10.6651 687.064 283.899 253.51 32.3249 9.8594 12.1564 46.7862 260.178 91.6262 132.353 231.297 4.2993 98.9824 18.7416 173.913 75.1703 74.1379 +ZNF440 89.3372 121.192 125.019 474.051 98.3588 173.686 65.8931 177.13 172.304 105.158 312.341 242.112 58.2579 267.207 82.2249 273.82 32.5747 200.61 79.8685 209.914 +ZNF441 206.052 214.602 363.205 560.031 208.453 174.89 78.3257 469.853 399.577 43.2216 445.929 385.922 125 596.197 253.661 278.446 174.03 199.847 139.065 203.448 +ZNF442 24.0154 58.3814 34.3653 99.1479 35.208 14.4404 16.1625 47.5972 75.5814 10.694 74.4275 81.3107 40.1584 59.8513 16.1225 37.9278 34.8059 31.2738 23.9605 9.0517 +ZNF443 141.21 112.334 47.9929 240.899 60.9154 74.6089 30.6672 105.394 60.7822 20.9424 163.486 66.1408 50.905 113.525 58.0411 123.034 61.5797 102.212 34.7663 106.034 +ZNF444 469.26 395.383 741.223 1749.03 1275.87 619.334 531.289 1394.6 1003.7 735.212 1327.61 569.782 1530.54 712.038 740.024 794.635 1074.97 1174.68 468.875 731.897 +ZNF44 183.468 252.482 215.672 491.867 214.042 226.635 99.8757 246.101 306.459 91.7901 273.193 220.898 237.579 280.849 253.661 123.025 225.448 152.555 89.2647 245.694 +ZNF445 382.325 755.737 388.091 482.572 178.834 247.894 406.962 426.675 270.613 265.568 494.275 556.432 227.941 279.564 250.437 651.249 261.49 577.422 190.275 342.241 +ZNF446 248.132 205.414 663.048 880.418 349.28 403.767 237.024 670.876 704.302 313.076 627.964 388.647 551.482 877.316 814.107 388.298 751.999 797.635 141.593 273.185 +ZNF449 590.788 278.491 414.339 373.393 179.952 220.489 100.854 160.562 334.693 52.1332 287.462 326.286 108.999 515.312 222.846 288.742 391.397 300.595 483.157 340.759 +ZNF451 947.152 530.357 488.224 463.981 1123.3 568.793 341.484 655.516 797.04 645.65 1030.88 435.68 471.154 638.884 416.499 666.05 495.315 582.197 1333.8 798.707 +ZNF454 15.8501 5.6368 2.37 96.0496 2.2354 0.8022 5.8019 40.4576 6.871 0 73.1552 12.1359 5.6561 8.495 4.2993 40.7031 36.5908 12.2044 4.2283 0.431 +ZNF45 592.699 210.978 303.363 406.661 152.568 356.599 153.336 394.377 399.577 153.726 347.328 237.864 226.81 356.405 311.165 260.87 211.066 203.661 201.081 291.379 +ZNF460 17.2911 49.9262 56.8805 33.3075 21.7954 48.1348 39.7845 77.5155 62.8964 29.4085 24.8092 21.2379 26.5837 32.0494 81.1501 31.4524 24.0964 22.8833 22.5511 50.8621 +ZNF461 48.0307 93.0076 144.571 325.329 65.9451 129.964 89.5151 130.892 180.761 72.6301 185.751 167.476 69.0045 220.099 162.3 150.786 117.805 218.917 77.9892 105.172 +ZNF462 349.183 625.285 491.779 472.502 139.155 638.989 92.8305 783.314 489.958 258.438 377.863 201.456 332.014 683.85 893.188 284.921 626.952 179.252 337.797 652.155 +ZNF467 110.951 214.199 282.032 1701.01 64.2685 589.25 206.797 648.342 221.987 102.484 711.196 919.296 46.3801 714.355 377.805 810.361 334.672 293.669 534.649 37.5 +ZNF468 95.1009 242.786 543.327 166.538 197.835 462.495 182.76 271.644 460.888 153.726 213.74 289.442 168.552 493.098 375.118 205.365 248.996 293.669 431.29 307.328 +ZNF469 469.26 1087.1 145.756 989.156 211.248 660.249 523 3364.1 241.015 44.5583 246.819 981.189 865.385 496.187 1985.22 117.484 514.056 48.0549 27.7191 125.862 +ZNF470 107.589 166.286 808.177 452.363 70.4159 138.387 76.2536 363.099 411.734 127.437 424.3 275.485 70.1357 356.791 289.668 353.377 228.469 152.555 185.107 208.621 +ZNF471 80.6916 254.06 318.768 1203.72 138.596 84.637 33.1538 227.787 342.495 45.4495 417.303 557.646 53.733 375.326 276.77 561.517 170.46 224.256 135.776 179.741 +ZNF473 119.116 212.992 296.252 433.772 272.163 522.262 175.715 403.217 560.782 180.016 515.267 236.65 392.534 428.999 692.194 169.288 403.391 277.651 217.994 249.569 +ZNF474 0.9606 1.6105 4.1475 13.1681 0 1.6045 11.6038 2.0399 6.3425 4.0102 3.1807 0.6068 0.5656 4.6337 11.2858 2.7752 4.0161 0.7628 5.168 3.8793 +ZNF479 0 0 0 0 0 0 0.8288 0 0.5285 0 0 0 0 0 0 0 0 0 0 0 +ZNF480 197.887 198.899 371.5 516.654 253.721 403.53 144.633 458.633 371.565 280.717 907.761 548.544 261.878 511.632 448.206 541.166 328.871 564.455 284.707 287.069 +ZNF48 57.6369 147.765 337.728 328.428 80.4754 127.958 151.264 223.367 254.228 103.821 188.931 336.772 90.4977 261.801 212.817 213.691 303.882 247.14 74.2307 112.5 +ZNF483 24.0154 29.392 17.1826 100.697 43.5908 4.4124 4.5586 63.5763 59.1966 6.6837 81.4249 104.369 1.6968 100.782 28.4831 42.5532 175.368 67.8871 101.48 15.5172 +ZNF484 36.9837 41.4709 52.7329 78.2339 44.7085 57.3606 44.3431 74.1157 73.9958 57.0346 34.3511 54.0049 36.7647 71.8216 69.8643 44.4033 124.052 35.8505 39.4644 56.4655 +ZNF485 67.7233 69.2524 31.9953 49.574 22.3543 41.7168 29.424 30.5982 24.8414 57.9258 52.1628 52.1845 23.7557 69.1186 45.6805 28.6772 22.3115 61.0221 30.5379 23.7069 +ZNF486 6.7243 21.3394 1.185 7.7459 16.7657 24.8696 18.649 6.1196 31.1839 3.5647 15.2672 12.7427 6.2217 28.188 6.449 14.8011 8.4784 3.0511 16.4435 40.9483 +ZNF487 24.976 36.6394 18.3676 33.3075 25.1486 33.6943 18.649 66.6361 28.5412 39.6569 19.7201 23.0583 12.4434 52.5147 30.6328 27.7521 29.4511 51.8688 15.9737 30.6034 +ZNF488 2.4015 128.439 8.8876 5.4222 6.7063 10.4292 2.901 14.6191 1.5856 194.274 1.2723 1.2136 2.8281 19.693 11.2858 7.4006 7.1397 1.5256 0.9396 12.069 +ZNF490 124.4 199.705 205.007 190.55 297.871 142.399 158.724 325.701 253.7 119.416 356.234 217.233 194.005 315.474 299.879 235.893 272.646 253.242 151.28 169.828 +ZNF491 33.6215 37.042 56.8805 204.493 38.0023 68.1909 6.2163 23.4586 23.2558 9.3572 68.0662 76.4563 28.2805 143.643 25.2586 77.7058 4.0161 93.8215 25.8398 70.6897 +ZNF492 0.4803 4.0263 0 23.2378 6.1474 0.4011 2.4865 34.338 66.5962 0.8912 26.7176 9.7087 0.5656 2.3168 30.0954 16.6512 0 0.7628 0 0 +ZNF493 233.429 88.5787 119.686 561.58 157.598 168.071 63.4065 145.851 323.467 31.1908 308.524 316.748 82.0136 210.059 153.164 206.291 150.379 232.647 175.711 132.759 +ZNF496 120.557 504.093 198.489 110.767 70.4159 280.385 169.499 172.71 120.507 112.287 104.962 87.3786 264.14 109.277 218.729 61.0546 139.224 68.6499 72.8212 193.535 +ZNF497 15.1681 52.6157 88.4906 272.858 76.8596 46.9635 19.2996 192.279 146.105 42.4329 134.428 69.7148 72.1154 107.875 226.172 115.708 119.406 95.9573 16.8475 25.2328 +ZNF498 247.358 434.036 652.348 785.438 278.87 261.933 425.197 499.771 540.698 189.373 251.908 328.884 154.977 494.642 429.397 254.394 547.077 303.585 387.597 196.983 +ZNF500 214.217 242.786 279.662 213.013 166.539 162.455 188.976 315.162 343.023 114.96 201.018 309.466 151.584 323.969 293.43 103.608 279.786 155.606 143.763 170.259 +ZNF501 27.8578 117.165 5.3325 82.8815 22.3543 68.9932 95.7315 49.6371 113.108 9.8028 68.7023 74.6359 49.2081 66.4157 88.6739 103.608 65.1495 45.7666 11.7454 59.4828 +ZNF502 113.353 209.368 190.787 236.251 92.7702 107.902 162.868 133.612 212.474 4.9014 221.374 263.349 141.968 196.158 232.702 224.792 216.421 163.234 154.099 172.414 +ZNF503 1817.96 1425.4 2136.93 891.433 242.924 1427.34 879.644 749.361 986.184 1074.18 2404.15 2010.92 1042.42 1107.75 584.173 3529.84 1102.93 758.566 224.101 1982.85 +ZNF506 281.46 215.81 21.3302 575.523 209.012 327.317 205.139 583.406 474.101 74.4124 557.252 288.835 244.91 426.682 658.337 448.659 360.553 361.556 226.92 325 +ZNF507 183.958 667.561 494.741 768.397 563.886 537.906 409.449 723.478 508.457 405.926 424.936 425.364 305.43 539.82 400.914 421.832 504.685 392.83 313.836 361.638 +ZNF510 266.571 258.489 232.854 1312.94 195.041 269.956 160.796 316.862 407.505 148.825 277.354 308.252 186.086 579.207 489.587 271.97 496.207 225.782 240.075 283.19 +ZNF511 1096.38 481.969 494.818 816.886 484.562 778.692 677.012 656.203 532.188 1117.6 867.207 674.545 657.851 458.226 364.686 654.699 548.179 872.601 462.405 889.948 +ZNF512 760.5 520.601 108.428 355.538 728.749 442.9 561.127 520.51 237.954 574.802 452.926 347.087 419.762 295.009 392.315 555.042 379.741 462.365 286.587 553.668 +ZNF512B 1487.6 1783.19 609.599 957.281 671.198 446.245 1173.8 1323.08 713.515 620.372 1114.6 1196.05 1108.67 825.794 1010.24 611.989 880.103 702.799 612.506 659.129 +ZNF513 1210.37 418.333 386.313 1237.8 354.874 282.391 589.308 556.888 323.996 482.121 437.023 246.966 752.828 286.128 386.941 537.465 395.805 512.586 396.054 838.362 +ZNF514 661.864 241.981 93.0233 1216.89 79.3577 107.1 100.29 61.1964 57.611 164.866 110.687 186.893 39.5928 75.2968 69.3269 86.0315 118.251 102.212 42.7531 148.276 +ZNF516 209.414 68.0445 199.674 134.779 251.486 245.888 171.571 318.221 125.793 168.876 113.232 157.767 266.968 165.267 149.402 141.536 250.781 96.8726 194.033 234.483 +ZNF517 496.158 177.56 207.377 513.555 2937.91 167.669 150.435 479.032 309.197 226.356 335.878 447.815 283.937 539.82 182.185 178.538 380.187 343.249 203.43 243.965 +ZNF518A 836.215 615.219 676.048 2766.85 414.113 689.13 144.633 659.562 364.693 185.808 644.402 453.277 208.145 423.593 310.627 792.784 405.623 1160.18 357.529 1163.79 +ZNF518B 255.524 408.267 571.767 978.311 345.373 591.657 45.172 1047.14 409.62 194.274 659.669 112.257 376.131 796.988 425.635 954.672 713.074 636.918 679.352 349.138 +ZNF519 40.3458 47.913 10.6651 34.8567 6.1474 42.9202 44.3431 40.7976 38.055 11.1396 13.3588 21.8447 18.6652 17.3762 20.9593 32.3774 18.7416 28.9855 12.2152 43.9655 +ZNF521 1032.66 1892.77 1058.21 457.785 468.322 297.633 691.256 526.969 416.49 7.1293 163.486 106.189 1581.45 919.78 1129.11 506.013 902.722 360.031 366.455 1628.45 +ZNF524 342.94 235.136 475.781 846.63 335.873 379.462 412.764 218.607 587.209 542.72 660.942 576.456 452.489 439.811 547.629 528.215 445.337 534.706 149.871 152.155 +ZNF525 108.549 258.489 319.36 342.37 144.744 325.712 48.0729 190.389 368.393 148.379 228.371 194.782 123.869 272.999 380.492 189.639 349.844 232.647 156.448 137.931 +ZNF526 124.88 235.136 328.248 432.223 271.046 369.033 261.086 404.577 357.822 355.575 358.142 267.597 335.407 387.682 424.56 325.624 270.415 425.629 138.595 189.224 +ZNF527 81.6523 95.4234 141.016 242.448 99.4765 134.777 67.5508 147.551 223.573 76.6403 244.275 160.801 97.8507 221.643 212.28 146.161 116.02 142.639 101.01 100 +ZNF528 134.966 223.46 285.587 214.562 102.271 173.686 245.338 201.948 425.476 105.603 461.832 189.32 173.643 262.96 365.444 311.748 145.024 302.822 204.369 214.224 +ZNF529 238.713 291.102 216.264 799.38 329.725 407.14 219.229 539.076 434.989 245.071 653.944 635.801 256.787 637.444 547.629 474.561 354.752 426.392 211.417 557.328 +ZNF530 20.1729 69.6551 79.9881 172.665 28.5017 96.0289 45.0435 79.297 175.301 44.7633 142.557 108.119 86.5385 119.919 147.177 76.8455 78.4739 57.7727 68.3533 105.603 +ZNF532 847.743 1049.66 393.423 738.188 145.862 180.104 740.572 599.045 162.262 520.887 255.725 348.908 82.5792 390.771 77.3881 278.446 282.017 193.745 268.264 36.6379 +ZNF534 7.6849 3.221 10.0726 6.9713 5.0297 5.2146 6.2163 2.7198 14.2706 11.5852 12.7226 8.4951 7.3529 2.3168 9.6735 11.1008 6.2472 13.73 5.168 5.6034 +ZNF536 281.46 5.6368 52.1404 274.206 1.1177 151.223 0 145.512 265.328 0 201.018 29.1262 86.5385 42.089 89.2113 11.1008 254.351 166.285 57.3174 257.328 +ZNF540 134.006 166.226 71.071 501.549 136.92 149.619 23.2076 287.304 312.495 26.2894 485.299 283.459 148.19 263.755 222.201 155.143 279.491 287.963 84.5666 132.03 +ZNF541 9.6061 17.3131 83.5432 216.112 265.457 69.7954 5.3875 22.4387 15.8562 5.7926 40.0763 32.1602 14.1403 60.6236 91.8984 87.8816 51.3164 19.0694 22.0813 11.2069 +ZNF542 181.556 289.894 112.576 237.026 282.223 224.228 87.443 632.363 100.951 127.882 625.954 453.277 218.326 692.345 130.055 549.491 370.817 439.359 368.804 456.897 +ZNF543 48.9914 122.4 133.906 127.808 88.8582 177.296 63.4065 147.891 188.161 47.6774 140.585 122.573 140.272 130.514 141.341 126.734 125.391 114.416 67.6533 136.638 +ZNF544 226.225 293.985 735.891 919.543 493.331 659.342 217.986 424.163 512.458 596.377 568.76 520.595 425.713 842.332 587.21 333.488 475.016 227.452 404.228 454.595 +ZNF546 206.532 44.2893 98.3558 185.902 125.184 60.9707 25.6942 95.1945 35.9408 57.0346 91.6031 117.112 52.6018 131.287 64.4901 116.559 92.3695 96.1098 57.3174 49.569 +ZNF547 52.1278 21.8387 145.904 655.244 28.6191 150.357 30.1119 108.923 131.39 26.6637 237.99 76.7718 105.413 183.338 142.362 106.975 111.124 297.986 51.6984 58.806 +ZNF548 109.51 227.889 247.667 899.303 201.747 230.245 154.579 411.036 325.053 249.081 276.718 229.976 148.19 241.336 254.199 242.368 258.813 199.847 167.724 356.034 +ZNF549 91.7387 183.6 204.414 322.231 116.242 162.455 92.0017 209.499 238.901 89.1166 295.165 179.612 87.1041 211.217 232.702 190.564 192.325 198.322 129.669 165.086 +ZNF550 71.0855 190.847 124.426 305.964 121.831 251.103 78.3257 188.958 293.869 139.913 247.456 277.306 208.145 309.682 630.391 151.711 231.147 237.986 65.774 209.052 +ZNF551 46.926 86.1629 46.2154 54.9961 41.9143 77.0156 35.2839 82.6152 77.167 53.7373 59.1603 50.4126 46.9457 105.416 74.1636 51.8039 52.9942 56.1404 27.1976 83.1681 +ZNF552 26.4169 69.2524 54.5104 36.4059 77.1222 97.4729 57.1902 31.9581 32.241 80.6506 46.4377 69.1748 76.3575 46.7227 9.6735 22.2017 31.6823 38.1388 29.5983 68.9655 +ZNF554 31.22 121.594 158.791 345.469 224.101 154.833 80.3978 124.093 330.338 37.8746 284.351 333.131 139.706 206.197 237.539 195.19 180.723 176.201 80.3383 213.362 +ZNF555 44.6686 66.8366 87.6907 137.878 338.108 77.4168 40.6133 75.4756 142.178 25.8438 150.127 101.942 107.466 107.346 135.429 93.432 76.7515 46.5294 36.1757 98.7069 +ZNF556 0 0 0.5925 0.7746 1.1177 0.8022 1.6577 0 0.5285 0 1.9084 0 0.5656 0.7723 0.5374 0 0 0.7628 0.4698 0 +ZNF557 183.958 117.971 295.66 222.308 159.833 238.668 102.362 242.406 294.397 90.4534 279.898 182.039 207.579 328.989 253.124 178.538 311.468 281.464 105.238 147.414 +ZNF558 562.92 323.312 535.624 610.38 308.489 371.841 132.615 502.831 273.784 129.665 423.664 419.296 158.937 547.543 321.913 335.8 224.453 464.531 198.732 378.448 +ZNF559 526.897 360.858 183.831 493.416 372.199 238.668 291.753 599.341 476.76 171.549 384.37 359.223 268.099 528.622 382.168 271.97 279.866 226.545 140.592 528.832 +ZNF560 84.0538 91.3971 0 320.682 0.5589 187.325 7.0452 296.803 123.15 0 333.333 11.5291 13.5747 0.7723 263.335 206.291 4.9085 95.3471 6.1076 261.207 +ZNF561 469.26 482.351 920.16 1056.55 637.655 624.95 274.347 897.208 902.22 233.931 950.382 570.995 403.281 1004.73 1490.8 876.041 543.061 657.513 396.993 437.931 +ZNF562 220.941 262.918 358.465 370.256 249.25 364.621 195.193 373.978 442.918 163.529 307.888 323.422 276.018 349.841 501.411 194.265 307.898 347.826 229.739 312.5 +ZNF563 77.3295 85.3576 77.6181 87.529 85.5051 66.9876 60.5056 82.6152 114.165 19.6057 133.588 167.476 179.299 145.188 23.6464 91.5819 53.5475 80.8543 50.74 76.7241 +ZNF564 181.556 255.268 219.819 471.727 380.022 214.2 135.101 317.541 270.085 102.93 360.687 402.306 285.634 276.861 365.444 217.391 248.55 173.913 147.052 216.379 +ZNF565 32.6609 43.8907 85.9132 81.3323 46.944 65.7842 56.3614 105.394 92.4947 40.1025 108.142 66.7476 49.2081 110.435 154.776 63.8298 73.6278 102.975 31.4776 59.0517 +ZNF566 116.715 125.621 317.583 381.875 171.569 221.821 143.39 521.53 288.055 143.923 518.448 301.578 153.846 463.751 361.682 418.131 257.028 282.99 160.207 210.776 +ZNF567 62.44 87.7734 136.869 247.095 87.7405 105.094 77.0825 113.553 146.406 151.944 148.855 129.248 66.1765 148.663 139.729 121.184 108.434 159.42 62.0155 104.741 +ZNF568 58.3718 122.315 64.583 96.5531 102.019 83.4336 90.2569 165.451 148.118 47.2318 143.219 123.586 66.4536 182.257 125.772 105.458 77.3003 78.749 53.5588 70.4052 +ZNF569 71.0855 121.594 121.463 274.206 197.835 194.144 67.9652 158.091 397.484 167.094 463.104 221.481 143.665 228.98 158.538 281.221 219.545 274.599 189.335 142.672 +ZNF570 18.2517 58.3814 13.6276 34.8567 36.8845 50.5415 28.5951 46.9173 94.5877 14.7042 33.715 41.2621 28.8462 59.8513 9.6735 38.8529 27.22 32.7994 27.2492 50.8621 +ZNF57 125.841 50.7314 101.911 128.583 998.677 292.419 44.3431 110.154 150.106 29.8541 126.59 152.306 417.421 193.455 127.905 75.8557 114.235 62.5477 60.1362 289.224 +ZNF571 115.274 68.0445 174.196 216.112 155.362 90.2527 44.7576 144.492 97.2516 53.0244 198.473 133.495 65.0452 151.366 159.076 159.112 102.633 228.833 81.7477 62.069 +ZNF572 96.5418 43.4841 0.5925 36.4059 19.56 31.6887 30.6672 58.4766 31.7125 62.8272 45.8015 75.8495 22.6244 40.1583 5.9116 24.9769 95.9393 57.971 1.8793 0.8621 +ZNF573 9.6061 25.3657 11.8501 18.5902 6.7063 22.864 2.4865 18.019 19.556 2.6735 8.2697 20.6311 4.5249 32.0494 7.5238 12.0259 10.2633 6.1022 10.8057 8.1897 +ZNF574 353.026 396.591 908.31 1143.3 530.355 823.907 413.593 1497.95 793.869 588.17 944.657 526.092 947.398 675.741 611.044 536.54 939.759 993.898 370.684 519.397 +ZNF575 93.6599 39.4578 40.8828 44.9264 20.6777 37.3045 50.9739 26.5185 48.0973 26.2894 36.2595 84.9515 39.5928 48.2672 87.5991 122.109 38.3757 45.7666 41.3437 16.8103 +ZNF576 587.176 278.218 495.334 497.661 347.609 447.653 269.789 491.839 750 285.619 536.145 608.331 497.172 564.919 1290.79 473.635 435.966 489.702 330.279 197.414 +ZNF577 334.294 182.392 155.236 1224.63 325.813 337.345 123.498 422.595 347.78 40.5481 400.763 228.155 187.217 339.029 516.996 412.581 203.927 277.651 45.572 283.19 +ZNF578 14.4092 117.568 17.1826 79.0085 26.2663 36.9033 103.606 122.733 313.954 50.3509 203.562 66.7476 102.941 23.5544 58.0411 302.498 95.9393 99.1609 96.7818 72.8448 +ZNF579 127.281 250.839 213.302 1075.14 195.041 190.132 405.305 614.344 347.78 401.47 614.504 332.524 404.412 274.544 289.668 566.143 340.919 429.443 81.7477 214.655 +ZNF580 416.907 301.57 458.006 1707.2 313.519 138.387 436.386 385.878 614.709 352.456 748.728 629.248 644.231 415.079 509.327 531.915 441.321 488.94 175.241 278.573 +ZNF581 139.289 392.967 379.796 875.29 380.581 460.89 368.421 644.263 523.769 469.199 521.629 371.359 739.819 551.81 1221.7 540.24 552.432 458.429 134.367 480.047 +ZNF582 32.1806 60.3946 87.0982 85.2053 66.5039 96.2696 47.6585 98.2543 100.951 14.7042 106.234 84.3447 35.6335 126.653 190.246 57.3543 64.7033 51.8688 59.1966 80.1724 +ZNF583 26.8972 86.9682 102.503 94.5004 74.3279 71.3999 69.2085 87.3749 138.478 25.3982 124.682 104.369 41.8552 133.99 133.817 86.0315 65.5957 48.0549 132.018 113.793 +ZNF584 108.549 197.691 652.94 372.579 217.395 543.522 186.904 617.744 566.596 203.631 648.219 458.131 717.76 416.642 604.058 213.691 524.766 331.045 188.865 588.362 +ZNF585A 121.037 199.302 105.466 190.55 140.273 194.946 131.786 116.273 198.203 99.365 190.204 143.811 146.493 117.386 141.341 82.3312 65.5957 97.6354 105.238 132.759 +ZNF585B 79.2507 89.3839 82.3582 136.328 74.8868 54.5527 45.5864 67.996 92.4947 35.2011 68.0662 49.1505 29.4118 56.7622 77.9256 61.9796 33.4672 64.836 27.7191 43.5345 +ZNF586 65.3218 218.226 37.9203 88.3036 144.185 91.8572 102.777 125.793 103.895 127.437 52.799 59.466 128.959 77.1773 138.116 56.4292 113.342 78.566 35.2361 171.983 +ZNF587 113.9 388.591 473.299 477.986 206.335 443.373 203.32 537.38 501.152 317.812 413.893 409.011 228.145 684.676 582.33 312.562 383.369 258.612 154.188 395.815 +ZNF589 268.972 359.146 219.227 487.219 382.258 182.11 131.372 231.526 248.414 144.369 363.232 439.32 267.534 309.296 699.718 225.717 304.328 295.195 223.162 206.035 +ZNF592 901.537 1413.23 648.2 536.019 527.561 538.708 1084.54 842.471 1004.76 954.439 1224.55 686.893 1003.96 564.533 873.841 513.413 434.627 1151.79 1105.94 501.293 +ZNF593 696.446 268.555 513.109 574.748 454.909 541.917 641.111 500.451 727.273 908.99 1075.7 509.102 917.986 462.207 900.175 453.284 485.498 666.667 455.72 265.086 +ZNF594 95.5812 90.1892 129.759 201.394 45.8262 103.49 61.3344 164.89 146.935 84.2152 109.415 155.34 53.1674 83.0196 89.7488 134.135 114.235 84.6682 54.9683 34.0517 +ZNF595 108.549 58.784 247.075 423.703 91.6525 166.466 64.2354 232.547 165.433 56.1435 203.562 158.374 98.4163 150.208 153.164 142.461 213.298 272.311 298.802 92.6724 +ZNF596 103.266 64.4209 165.309 348.567 129.096 99.0774 21.9644 157.411 128.435 33.4187 171.756 112.864 53.1674 151.752 167.674 90.6568 153.057 171.625 135.776 22.8448 +ZNF597 42.2671 5.6368 57.473 41.828 48.6205 33.6943 49.7306 58.4766 51.797 3.1191 41.3486 47.3301 33.9367 77.2275 59.1159 30.5273 36.1446 41.9527 3.2887 32.3276 +ZNF598 609.51 1349.21 1671.46 1603.41 466.087 558.764 1118.94 894.827999999999 1690.8 666.147 650.763 831.311000000001 631.222 1417.51 2009.94 518.964 1524.77 1044.24 572.234 633.19 +ZNF599 147.935 109.918 55.1029 158.792 65.9451 96.6707 88.6863 113.553 113.108 36.0922 120.865 129.248 78.6199 115.841 169.287 104.533 123.606 84.6682 29.5983 60.7759 +ZNF600 52.8338 167.494 247.667 119.287 93.8879 314.882 65.0642 108.114 284.355 177.788 191.476 154.126 214.367 317.019 163.912 130.435 126.283 183.066 101.01 184.052 +ZNF605 668.108 1005.37 299.807 1063.52 484.529 310.068 564.443 470.193 318.71 293.639 654.58 732.403 329.185 333.237 530.431 741.906 346.72 514.874 579.281 292.672 +ZNF606 216.763 256.419 332.988 724.245 278.87 326.47 125.615 450.953 316.596 174.695 524.809 371.359 188.348 423.454 514.674 486.882 379.688 414.188 155.039 226.849 +ZNF607 52.3535 107.1 216.264 319.132 82.1519 181.709 101.119 171.69 235.729 110.505 316.158 273.665 138.575 247.514 123.606 260.87 190.986 184.592 119.333 80.6034 +ZNF608 542.267 1017.04 1752.04 324.555 723.719 530.686 183.589 390.977 419.662 9.8028 112.595 324.029 118.778 696.592 291.28 958.372 791.165 235.698 225.041 649.138 +ZNF609 949.087 1507.05 399.348 390.395 625.919 592.86 854.952 1087.94 784.883999999999 888.493000000001 866.412 605.582 566.742 576.89 449.281 651.249 543.061 925.248 1010.57 980.603 +ZNF610 13.9289 74.8893 46.2154 135.554 91.0936 60.1685 72.1094 138.032 225.159 13.8131 317.43 113.471 67.3077 98.4651 148.327 220.167 61.5797 83.1426 138.125 70.6897 +ZNF611 28.8184 155.415 149.904 121.611 45.8262 93.8628 69.6229 92.8146 170.19 116.743 88.4224 83.1311 39.0271 119.317 75.2385 85.1064 115.573 68.6499 67.6533 112.931 +ZNF613 60.5187 103.073 176.566 235.476 78.7988 158.845 75.8392 129.192 208.245 89.1166 270.356 137.136 140.837 139.01 164.987 123.959 116.912 106.026 125.441 105.172 +ZNF614 100.865 154.61 229.892 333.85 99.4765 181.308 96.5603 391.997 341.966 161.747 506.361 192.961 114.253 208.514 97.2726 271.97 154.395 275.362 159.737 145.259 +ZNF615 129.203 195.276 154.644 518.977 137.479 217.008 79.569 388.937 280.655 117.188 458.651 189.32 135.181 252.92 188.634 408.881 130.299 270.023 128.729 220.69 +ZNF616 174.352 271.776 654.718 1180.48 229.131 464.902 101.948 789.434 830.867 97.1371 620.865 214.806 245.475 342.118 895.338 296.022 201.249 221.205 701.903 260.776 +ZNF618 621.998 1135.42 644.053 2768.4 144.185 1007.22 625.777 1440.16 1233.62 641.64 839.695 518.204 417.986 1397.82 632.541 550.416 2277.55 646.072 559.079 471.121 +ZNF619 4.8031 105.892 29.0327 8.5205 31.8548 32.0899 23.622 16.659 24.8414 14.7042 13.3588 32.1602 19.2308 23.9405 22.5715 20.3515 17.8492 14.4928 21.1416 25.431 +ZNF620 20.1729 56.7709 17.7751 42.6026 59.2388 70.5977 6.2163 21.0788 46.5116 20.0512 68.0662 30.9466 55.9955 43.6336 32.7825 16.6512 30.7898 43.4783 30.5379 52.1552 +ZNF621 726.705 951.818 572.36 783.889 415.789 476.133 361.376 321.621 330.867 139.468 668.575 704.49 194.57 472.246 335.886 530.065 344.043 577.422 373.972 571.983 +ZNF622 207.012 453.362 731.151 439.194 1040.59 873.245 1236.63 1365.36 1150.63 591.289 1595.42 1074.03 1026.02 916.691000000001 1046.35 758.557 958.947 515.637 1042.05 492.241 +ZNF623 503.842 418.736 190.194 377.227 215.719 216.607 146.705 479.372 239.429 337.306 250 315.534 148.756 415.484 242.375 217.391 413.208 323.417 208.128 309.483 +ZNF624 58.1172 53.9525 42.0678 32.5329 73.2102 41.3157 68.3796 46.5773 55.4968 47.2318 57.888 60.6796 25.4525 49.4256 57.5037 92.5069 58.9023 53.3944 44.1626 40.0862 +ZNF625 19.7118 19.741 13.0351 40.4415 13.2114 16.446 12.8554 27.994 19.6987 6.6837 32.0483 27.3058 22.6244 48.8001 0.5374 15.5227 9.817 7.6201 16.4435 31.3793 +ZNF626 265.13 170.715 370.315 481.797 288.37 213.799 56.7758 440.614 469.345 61.4905 609.415 405.947 169.118 422.048 550.316 438.483 263.722 311.213 363.166 142.672 +ZNF627 113.353 324.923 369.723 498.063 225.778 295.628 169.084 623.524 481.501 95.3548 506.998 459.952 246.041 401.969 521.833 333.95 344.935 212.052 170.543 304.31 +ZNF628 103.746 262.918 232.262 299.768 150.891 208.584 208.04 454.894 238.901 144.815 302.799 229.369 228.507 311.227 183.797 205.365 347.166 172.387 113.695 230.172 +ZNF629 640.73 1165.21 975.855 2518.98 832.697 673.085 725.238 1950.81 1865.22 692.436 1410.94 1853.76 1032.81 1632.98 1821.31 973.172999999999 1840.7 1234.94 1234.67 632.328 +ZNF630 62.0125 84.2585 81.7657 222.308 16.7657 37.3045 62.9921 71.423 166.591 60.1849 126.59 43.0825 23.19 118.571 28.4831 82.3312 164.297 170.862 130.928 27.1552 +ZNF638 2455.33 1356.86 1878.24 2676.22 1759.84 1499.4 1533.78 1787.62 1450.85 2825 1730.92 1103.16 1332.01 1290.86 1690.72 1704.9 1451.14 1763.54 1488.37 2333.62 +ZNF639 1118.64 1018.65 411.791 498.838 328.608 590.453 413.179 468.493 394.82 799.822 487.277 863.471 417.421 424.365 342.335 607.771 433.735 340.961 430.82 665.086 +ZNF641 765.13 821.769 193.157 257.165 134.685 416.767 66.7219 256.685 134.778 29.4085 138.041 260.922 50.905 201.564 240.763 86.0315 123.606 174.676 223.162 209.483 +ZNF642 165.226 89.3839 8.2951 81.3323 17.8834 134.777 109.822 35.3579 24.3129 94.4636 123.41 20.0243 313.348 43.2474 9.6735 95.2821 39.7144 56.4455 12.685 51.2931 +ZNF643 18.2517 32.2104 10.0726 20.1394 10.6183 33.6943 52.2172 19.0389 20.0846 18.2689 22.2646 8.4951 22.6244 28.5742 25.796 18.5014 5.3548 7.6278 8.4567 12.5 +ZNF644 562.44 558.448 405.866 377.227 375.552 304.051 464.981 657.182 559.725 1145.59 412.214 354.369 244.344 337.484 590.622 442.183 295.85 384.439 483.439 421.552 +ZNF645 0 0 0 1.5492 0 0 0 0 0.5285 0 0 0 0 0 0 0 0.4462 0 0 0 +ZNF646 236.311 449.336 754.258999999999 796.282 296.753 271.159 569.416 544.988 934.989 282.945 431.298 546.723 388.009 559.9 1105.47 604.995 625.614 523.265 244.304 252.155 +ZNF648 0 1.6105 0 0 0 0 10.775 1.0199 0 0 0 0 0.5656 0.3861 0 0 4.0161 0.7628 1.4094 0 +ZNF649 49.952 231.11 104.281 165.763 174.922 188.528 169.499 149.931 344.08 33.4187 388.041 148.058 138.575 173.762 170.899 207.215 104.864 243.326 89.7346 199.138 +ZNF652 1189.24 833.847 939.713000000001 839.659 556.621 733.253 723.166 1030.48 622.622 536.928 631.679 959.345 676.471 867.651 530.969 1049.95 659.973 669.718 566.126 994.828 +ZNF653 200.288 108.308 367.353 457.785 119.595 168.071 174.472 460.333 380.021 86.8887 369.593 191.748 184.389 330.534 306.865 190.564 394.021 240.275 113.225 278.448 +ZNF654 266.571 264.125 351.948 243.997 230.808 99.8797 178.201 131.232 301.269 199.621 251.908 404.733 133.484 161.792 146.715 187.789 194.556 209.763 295.043 200 +ZNF655 1057.16 1549.32 1088.43 958.947 907.024 564.38 1076.67 1278.67 1267.44 870.669 520.992 1361.65 342.76 1188.92 1152.76 481.961 1448.01 922.96 943.387 774.569 +ZNF658 78.2901 57.1735 24.8852 150.271 40.7965 42.1179 21.1355 59.8365 73.9958 28.5173 45.8015 108.617 57.6923 98.8512 108.021 61.9796 145.024 40.4272 49.8003 47.4138 +ZNF660 10.0865 51.1341 5.3325 5.4222 4.4709 6.0168 4.9731 12.9192 2.6427 3.1191 3.1807 8.4951 7.3529 0 0 2.7752 5.3548 3.8139 5.168 11.2069 +ZNF662 10.0865 248.02 111.983 285.825 121.272 107.902 8.7029 150.951 7.9281 22.2792 141.857 89.199 2.2624 82.6335 3.2245 16.6512 78.0901 116.705 26.7794 0.8621 +ZNF664 1703.17 3585.42 2560.21 2331.53 990.853 1273.97 1745.55 2360.82 1718.29 1420.96 1890.59 3031.55 1002.83 3330.82 1689.1 1995.37 2220.88 1999.24 2708.95 1319.83 +ZNF665 7.2046 40.6657 44.4379 27.8854 8.3829 4.0112 9.5317 20.0588 41.7548 21.8336 34.9873 27.9126 6.7873 51.3563 27.4083 24.0518 43.2842 35.0877 28.6587 29.3103 +ZNF667 97.5024 177.56 541.549 494.19 135.802 159.246 4.5586 462.033 258.985 102.038 254.453 324.029 90.4977 345.593 316.002 248.844 219.991 106.789 93.4931 119.397 +ZNF668 409.222 188.431 534.439 718.823 252.044 285.199 694.157 678.941 557.611 361.813 664.758 350.728 468.326 682.691 699.18 759.482 567.604 754.386 192.624 270.259 +ZNF669 47.0701 112.334 55.6955 67.3896 31.8548 138.789 92.4161 74.7957 68.1818 24.0615 48.9822 41.8689 163.462 101.168 103.184 64.7549 65.5957 48.8177 39.4644 93.5345 +ZNF670 20.6532 70.0577 13.0351 29.4345 25.1486 56.1452 88.2636 63.2295 36.4482 21.388 43.2443 40.6553 44.0837 56.3761 44.0683 42.5532 27.22 55.6827 37.5852 51.7155 +ZNF671 304.035 208.16 25.4777 523.625 281.105 420.377 142.147 340.66 166.49 180.907 395.674 72.2087 391.403 353.316 47.8302 273.82 74.5203 279.939 106.648 333.621 +ZNF672 748.799 745.672 715.746 824.942 511.913 1084.24 738.5 848.591 783.298 886.265 681.298 671.116 1308.26 772.275 923.284 365.402 850.067 1355.45 583.04 983.190000000001 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0 0 +ZNF680 279.539 350.288 260.702 255.616 185.54 385.88 210.941 523.909 726.744 177.788 271.628 254.854 371.606 615.117 274.62 183.164 237.84 210.526 947.146 382.759 +ZNF681 40.8261 81.734 10.6651 80.5577 39.6788 77.4168 38.5412 97.5743 366.808 21.388 242.366 43.0825 162.896 172.603 7.5238 52.729 4.9085 157.132 67.6533 206.465 +ZNF682 61.9597 57.1735 27.2552 324.555 35.7668 83.4336 53.046 161.831 224.101 28.0717 189.567 109.83 63.3484 111.208 127.368 83.2562 80.3213 38.1388 69.5325 116.81 +ZNF683 3.8425 0.8053 0 12.3935 0.5589 0 40.1989 8.1595 3.1712 60.5993 17.8117 32.1602 0 1.5446 1.0748 39.778 4.9085 11.4416 11.2755 0 +ZNF684 130.163 85.7603 69.9156 232.378 142.508 221.019 59.2623 81.9352 186.575 38.3202 188.295 80.7039 95.5882 230.91 207.443 67.5301 98.6167 174.676 116.044 122.845 +ZNF687 852.181 2496.37 721.392 485.67 684.627 1361.09 604.646 869.408 715.819 1290.09 645.674 631.675 1365.4 633.092 695.585 441.258 617.202 968.726 580.268 960.569 +ZNF688 356.868 159.039 497.704 896.979 345.932 210.59 421.882 421.575 552.854 147.934 551.527 672.937 301.471 630.949 436.378 950.045999999999 600.625 519.451 195.443 196.552 +ZNF689 44.6686 169.105 158.791 34.0821 136.92 131.97 128.056 148.571 153.805 16.4866 101.781 172.937 43.552 159.475 186.484 61.9796 125.391 61.7849 139.065 97.8448 +ZNF691 224.784 130.452 157.014 271.882 219.631 176.895 210.112 168.97 237.315 377.854 187.023 154.733 391.968 141.713 238.076 230.342 166.89 254.005 139.065 131.897 +ZNF692 928.434 364.38 299.215 927.963 388.405 411.552 351.844 359.019 191.861 663.919 552.163 288.228 373.869 308.91 327.825 189.639 410.977 728.452 117.923 421.983 +ZNF695 15.3698 31.4052 0 27.1108 0.5589 48.1468 6.639 26.8652 16.4059 28.0717 13.3715 0.6068 22.6584 6.5643 0 10.1758 17.8492 4.5767 1.4094 48.7155 +ZNF696 493.756 221.447 385.721 551.51 245.897 209.787 119.353 686.42 241.543 366.715 312.341 246.966 161.765 518.197 194.008 310.823 372.155 340.198 101.01 262.5 +ZNF69 146.974 26.171 1.185 266.46 195.6 133.975 34.397 5.7797 28.5412 31.1908 268.448 53.3981 85.4072 118.158 3.2245 26.827 2.6774 83.9054 36.1757 67.2414 +ZNF697 85.4947 411.891 106.058 109.992 62.0331 68.5921 742.644 63.2363 252.114 46.7862 129.771 127.427 222.285 140.94 115.545 119.334 70.9505 121.281 237.726 306.897 +ZNF699 7.6849 27.7815 23.7002 10.8443 3.3531 12.0337 2.901 19.0389 7.9281 0.8912 5.0891 15.1699 2.8281 30.1187 11.2858 12.0259 4.4623 5.3394 7.9868 12.931 +ZNF700 238.232 221.447 289.735 872.967 356.551 447.252 172.814 254.645 363.636 191.155 429.389 291.869 242.081 384.207 378.342 308.048 152.61 332.571 139.065 681.897 +ZNF701 33.6215 116.36 98.3558 97.5988 64.8274 119.535 58.0191 78.1955 216.702 54.8067 132.315 113.471 49.7738 195.386 157.463 119.334 66.0419 78.566 70.4722 152.155 +ZNF702P 10.0865 93.4102 17.1826 33.3075 77.6811 38.5078 9.5317 8.4995 65.5391 47.6774 138.041 42.4757 3.9593 20.8514 10.2109 146.161 4.4623 34.3249 48.8607 3.0172 +ZNF703 216.138 541.135 183.084 302.866 484.529 683.514 406.548 575.927 345.137 26.2894 1181.3 75.2427 662.33 393.088 60.7282 55.5042 390.451 401.22 321.823 670.259 +ZNF704 98.9433 163.065 120.278 122.386 56.4445 153.63 14.9192 167.61 184.461 12.4763 195.293 141.383 51.4706 239.792 177.885 49.0287 152.164 151.792 166.784 200 +ZNF705A 2.4015 0.8053 2.37 1.5492 0 0 0 0.34 2.1142 0 1.9084 0.6068 1.1312 0 0 0 0.4462 0 0.4698 0 +ZNF705D 0 0 0 0 0 0 0 0 0 0 0 0 2.8281 0 0.5374 0 0 0 0 0 +ZNF706 1356.39 713.058 892.312 1684.74 1501.65 1007.22 1162.45 1432.34 1138.48 1305.56 1991.09 1779.13 1348.98 1365.38 729.276 1997.22 1365.02 1530.13 949.025 1249.57 +ZNF707 286.743 158.636 282.032 539.117 405.73 198.957 193.949 515.41 303.383 419.739 372.137 325.243 385.181 330.534 166.062 161.887 391.789 336.384 162.556 409.483 +ZNF70 102.786 121.997 122.056 102.246 72.6514 68.5921 110.651 63.2363 158.034 121.644 44.5293 54.6117 65.6109 102.326 83.2997 28.6772 219.099 91.5332 59.6664 95.2586 +ZNF708 93.6599 72.0708 211.524 238.575 140.832 214.2 66.7219 257.025 310.254 65.9463 295.801 105.582 124.434 113.138 133.28 99.9075 93.7082 122.807 132.958 200.431 +ZNF709 110.951 101.865 88.2832 229.28 118.478 64.9819 36.0547 155.371 94.6089 26.2894 181.934 141.383 47.5113 130.128 77.3881 122.109 88.7996 128.909 56.3777 98.7069 +ZNF710 39.8655 213.797 148.719 96.0496 54.2091 138.789 108.579 169.65 127.378 97.1371 126.59 115.898 44.6833 74.5246 156.389 62.9047 152.164 228.07 241.015 103.879 +ZNF711 2784.34 2872.77 928.455 546.088 1.1177 397.112 109.822 2310.85 253.171 155.954 1196.56 33.3738 386.878 1185.06 161.225 34.2276 1950.91 2551.49 261.217 1921.12 +ZNF713 25.4083 29.1102 42.6959 24.787 12.2948 40.6137 99.8384 23.1187 48.4619 21.388 13.9949 21.0983 13.009 47.1435 41.9831 31.4524 37.9295 19.8322 23.1994 12.1336 +ZNF714 252.642 137.297 147.534 130.132 127.419 215.403 89.1007 157.411 322.939 50.3509 178.753 216.019 153.846 122.406 135.967 132.285 95.4931 57.2082 173.831 165.086 +ZNF71 55.2354 201.315 244.112 181.255 171.569 182.511 246.167 304.962 329.281 231.258 281.807 168.083 138.009 174.534 186.484 206.291 221.776 263.921 110.406 167.672 +ZNF716 0 0.8053 0 0 0 0 0 0 0 0 1.2723 0 0 0 0 0 0.8925 0.7628 0 0 +ZNF717 22.0941 107.905 15.4051 22.4632 14.5303 11.2314 1.6577 22.0987 35.9408 11.5852 9.542 70.3883 5.6561 13.1287 20.9593 20.3515 12.0482 16.7811 29.5983 22.8448 +ZNF718 22.0941 81.3313 53.9179 76.6847 22.9131 145.207 40.1989 133.612 81.3953 24.9527 64.2494 61.2864 28.8462 59.4652 60.7282 49.9537 66.0419 52.6316 64.3646 67.2414 +ZNF720 86.4553 253.255 336.543 292.796 92.7702 106.699 160.796 280.144 373.679 90.0078 180.025 333.131 54.8643 325.514 181.11 244.218 201.696 164.76 240.075 285.776 +ZNF721 396.556 241.784 458.587 1113.97 236.396 409.876 205.189 959.336 624.831 222.168 593.117 598.374 272.534 622.11 493.14 633.534 932.432 890.13 692.967 259.901 +ZNF727 1.4409 17.3131 1.185 0 0 1.2034 0 0 2.1142 0 0.6361 12.7427 0 0 0 1.8501 0 0 0 0 +ZNF732 2.4015 15.7026 5.3325 24.787 0.5589 18.4517 1.6577 9.5194 6.3425 0.8912 12.7226 12.1359 1.1312 5.7921 2.1497 17.5763 3.5698 9.9161 7.0472 6.0345 +ZNF735 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 +ZNF737 318.444 248.826 346.615 536.019 456.027 320.096 93.2449 318.562 939.218 24.0615 891.221 447.815 315.045 529.395 582.561 438.483 155.288 294.432 299.742 193.965 +ZNF738 184.918 157.026 56.8805 677.769 84.3874 259.126 136.759 123.413 530.127 91.3445 439.567 137.743 172.511 103.871 60.7282 162.812 86.1223 93.8215 140.475 348.276 +ZNF740 510.567 720.708 913.642 1021.69 718.131 915.764 893.078999999999 947.525 1006.87 628.718 932.57 839.806 691.742 754.513 1147.39 503.238 979.473 691.838 706.601 449.569 +ZNF746 336.215 616.024 694.416 742.06 448.203 344.565 573.145 662.282 561.839 535.145 370.865 517.597 173.643 674.969 597.609 456.059 581.883 541.571 574.583 213.793 +ZNF74 348.223 217.018 248.852 450.813 199.512 214.2 198.094 150.951 171.247 196.057 148.219 149.272 143.665 271.455 263.335 105.458 274.877 270.023 146.582 233.19 +ZNF747 187.546 208.377 445.99 368.706 211.482 121.312 236.44 434.104 172.463 163.556 323.842 457.178 194.287 466.628 486.127 456.383 498.76 372.212 136.641 169.806 +ZNF749 13.4486 28.1841 104.281 153.369 31.8548 83.0325 23.2076 62.2164 72.4101 21.388 68.0662 58.8592 55.9955 93.0592 58.0411 41.6281 68.2731 57.2082 31.0078 60.3448 +ZNF750 2.4015 3.6237 1.7775 0.7746 5.5886 3.6101 0 0.68 0.5285 81.9873 2.5445 2.4272 0.5656 1.1584 0.5374 0 2.2311 0 0.9396 0.431 +ZNF75A 296.83 163.871 757.814 2298.99 271.604 436.422 278.906 665.681 767.442 373.844 831.425 412.621 378.394 944.493000000001 1186.08 774.283 626.06 798.627 582.57 500 +ZNF75D 531.21 830.353 1213.27 2096.79 255.398 883.803 168.935 1305.77 1165.84 151.944 830.223 928.568 284.666 2252.91 873.486 596.549 1758.54 504.897 1097.3 697.172 +ZNF761 109.03 158.234 572.36 1553.06 189.452 357 138.002 266.204 570.824 199.621 590.331 406.553 93.8914 562.989 393.39 536.54 489.96 472.159 218.464 214.224 +ZNF763 62.9203 39.4578 34.3653 162.665 114.007 49.3381 22.7932 21.0788 62.8964 6.2382 101.781 138.956 61.086 143.257 48.905 74.9306 11.602 35.8505 54.0287 46.9828 +ZNF764 268.972 172.728 242.927 483.346 163.745 143.201 267.716 286.943 377.378 125.209 393.13 297.937 203.054 403.9 229.477 475.486 225.346 265.446 125.441 192.672 +ZNF765 104.227 141.323 280.847 453.137 193.923 321.3 85.3709 311.762 480.444 145.706 393.766 277.913 85.9729 484.603 328.9 344.126 224.453 186.118 135.307 177.586 +ZNF766 133.525 281.439 378.611 632.068 371.081 339.751 299.213 551.108 735.729 279.381 534.987 421.116 414.593 456.801 634.153 355.227 481.481 371.472 273.432 430.172 +ZNF76 579.731 522.212 665.383 1028.66 743.279 875.652 596.353 740.817 952.431 685.753 1114.5 707.524 1142.53 724.394 664.786 618.871 681.838 803.204 1327.7 965.085999999999 +ZNF767 314.121 199.302 181.306 528.273 124.625 190.935 199.751 140.752 258.457 183.135 224.555 229.976 58.2579 169.514 218.729 98.9824 273.092 273.837 92.0836 62.069 +ZNF768 2310.05 1551.92 1656.81 4014.72 941.439 1389.72 1396.8 2134.11 2111.89 1000.75 2469.41 2190.88 1632.07 2316.27 2431.51 3378.95 1730.16 2376.07 785.605 1121.57 +ZNF770 566.422 991.345 707.16 596.383 671.058 361.039 413.075 730.057 962.442 509.453 819.307 599.053 341.725 756.103999999999 708.069 582.831 493.182 853.188 1505.92 425.147 +ZNF771 72.0461 56.7709 104.281 374.129 93.3291 68.1909 205.968 346.78 201.374 29.8541 324.428 275.491 118.213 149.821 245.6 654.024 357.43 274.599 62.4853 68.9655 +ZNF772 136.888 250.034 141.609 241.673 127.978 241.877 78.7402 439.934 237.844 161.301 227.735 205.097 167.986 209.673 216.042 288.622 176.261 126.621 120.272 229.741 +ZNF773 64.8415 153 180.121 212.239 130.214 143.602 114.795 224.047 190.275 59.2626 265.267 169.296 119.909 234.386 211.743 118.409 156.18 189.931 120.272 139.655 +ZNF774 2.4015 28.1841 28.4402 6.9713 93.8879 32.8921 7.4596 9.1795 8.4567 12.4763 8.2697 32.767 35.0679 19.3069 12.898 8.3256 8.4784 7.6278 10.3359 13.7931 +ZNF775 81.6523 142.934 52.1404 68.9388 97.7999 97.0718 236.22 139.052 97.2516 58.817 47.0738 155.34 147.624 104.257 96.7352 75.8557 170.013 103.738 83.1572 75.8621 +ZNF7 641.306 299.259 239.87 762.44 365.727 233.879 331.069 590.359 283.388 587.034 412.265 518.343 292.313 551.242 315.453 238.187 590.857 399.405 197.548 327.987 +ZNF77 68.684 59.5893 130.944 199.845 93.8879 154.432 55.1181 149.251 163.848 29.8541 107.506 88.5922 127.262 127.425 143.49 84.1813 131.191 121.281 38.5248 181.897 +ZNF776 219.097 333.849 426.846 587.94 309.64 439.655 167.642 663.502 479.065 202.402 534.402 355.03 183.071 533.152 450.915 387.909 229.723 356.148 174.658 483.155 +ZNF777 408.261 845.121 622.723 669.249 374.993 429.202 720.265 700.699 679.176 511.084 435.115 654.733 274.887 781.156999999999 745.936 583.719 652.387 1006.87 402.631 263.793 +ZNF778 34.5821 38.6525 92.4308 75.1356 43.5908 32.8921 29.8384 94.1745 62.8964 45.4495 55.9796 94.6602 46.9457 95.376 56.9663 62.9047 59.7947 74.7521 37.5852 33.6207 +ZNF780A 534.582 148.168 274.33 250.968 296.194 227.838 180.274 344.4 278.541 280.717 398.219 250.607 142.534 351.385 240.226 229.417 239.625 230.358 250.881 209.052 +ZNF780B 1036.5 252.047 410.606 875.29 219.072 378.259 159.552 546.688 321.882 120.753 730.28 601.335 147.624 466.84 259.035 364.477 263.722 207.475 225.981 157.759 +ZNF781 41.3064 42.6788 5.925 68.9388 44.7085 18.4517 15.3336 71.7358 35.4123 39.6569 46.4377 41.2621 54.8643 23.5544 19.8845 64.7549 36.5908 18.3066 3.2887 58.1897 +ZNF782 48.0307 43.0815 35.5503 224.632 37.4434 59.7673 23.2076 29.2383 91.9662 34.3099 30.5344 50.9709 26.0181 98.4651 74.7011 39.778 136.546 22.1205 28.6587 48.2759 +ZNF784 111.431 94.2155 272.552 478.699 260.427 287.605 149.192 502.491 245.772 120.308 568.066 231.189 545.249 257.94 281.607 236.818 267.291 261.632 182.288 295.69 +ZNF785 215.024 165.763 390.632 245.624 171.01 207.926 192.744 275.19 319.736 84.888 194.905 335.558 143.558 304.883 357.377 264.801 256.595 183.829 112.474 88.5259 +ZNF786 92.6993 111.931 253 267.235 108.418 192.94 118.939 161.831 188.689 241.06 131.043 129.854 103.507 225.118 249.362 123.959 188.309 192.982 175.241 89.2241 +ZNF787 538.425 899.074 1127.54 2664.6 576.181 1469.31 992.955 1707.72 1185.52 1185.7 1793.26 891.384 1725.11 1454.97 1753.06 1072.16 1521.64 1456.14 494.245 1332.33 +ZNF788 109.99 63.213 20.1452 122.386 37.4434 150.02 79.1546 89.7548 35.9408 114.96 173.028 57.6456 82.5792 60.2375 13.9729 68.4551 10.2633 97.6354 63.8948 12.5 +ZNF789 83.0932 63.213 59.843 205.267 68.1805 105.495 60.0912 48.6172 106.765 106.049 51.5267 75.8495 68.4389 50.584 55.8914 57.3543 105.756 66.3616 51.6796 81.4655 +ZNF790 50.4323 63.6156 210.339 108.443 112.33 75.4112 53.4604 134.292 132.135 89.1166 152.672 115.291 127.262 155.227 145.103 159.112 84.7836 184.592 83.627 63.7931 +ZNF791 57.1566 373.641 210.339 123.935 96.1234 167.268 51.3883 276.064 225.687 28.5173 148.855 185.073 36.1991 268.752 233.239 140.611 154.842 114.416 85.976 176.724 +ZNF792 43.2277 78.5129 33.1803 60.4183 106.742 86.6426 64.6498 39.0977 54.4397 41.4392 69.3384 81.9175 51.4706 56.7622 6.9864 93.432 21.8652 47.2921 27.7191 34.4828 +ZNF793 98.463 128.036 213.894 417.506 46.3851 62.5752 22.3788 237.646 180.761 55.2523 298.982 143.811 60.5204 245.97 158.538 186.864 171.798 142.639 61.5457 81.4655 +ZNF79 94.1402 73.2787 111.391 159.566 53.0914 123.546 103.606 153.331 186.575 110.95 104.962 143.811 161.199 252.92 163.912 84.1813 278.893 100.686 55.4381 93.9655 +ZNF799 204.611 181.989 104.281 327.653 92.2114 136.783 97.8036 149.251 133.192 54.8067 265.267 145.631 101.81 205.039 76.3133 197.04 80.7675 222.731 62.4853 229.31 +ZNF800 226.705 473.493 503.037 144.849 281.664 220.618 210.941 323.661 438.161 253.537 220.102 310.073 67.3077 360.266 356.845 238.668 315.038 368.421 380.08 162.931 +ZNF804A 2.4015 3.221 2.9625 0.7746 0 1.2034 20.3067 2.3799 1.5856 2.2279 0 15.1699 1.1312 0.3861 3.7619 1.8501 0 6.865 0 0 +ZNF804B 0 6.0395 0 0 0 0 0 0 0 0 0 3.6408 0 0 1.0748 0.9251 0 0 0 0 +ZNF805 204.131 179.573 623.908 796.282 320.225 448.055 273.518 1024.02 510.042 321.711 738.55 333.131 350.679 802.78 796.453 571.693 502.008 741.419 224.571 307.328 +ZNF80 0 2.0132 3.555 17.8156 1.1177 0.8022 6.2163 3.3998 4.7569 1.7823 1.2723 6.6748 0 0.7723 1.0748 5.5504 4.9085 11.3196 0 0 +ZNF808 59.0778 146.558 98.9483 117.738 105.065 103.49 94.0738 82.6152 193.975 170.213 145.674 199.029 107.466 130.128 151.014 93.432 127.622 113.654 87.3855 111.207 +ZNF813 5.7637 63.213 10.0726 15.4919 26.8251 38.9089 31.4961 36.0379 56.0254 31.6364 18.4478 47.9369 5.0905 40.9306 42.9934 22.2017 24.9888 17.5439 46.5116 62.931 +ZNF81 45.6292 107.502 103.688 87.529 27.9428 40.9146 65.8931 54.0569 90.9091 33.8643 68.0662 43.6893 9.0498 69.5048 33.3199 87.8816 73.1816 109.84 73.7609 28.0172 +ZNF814 273.295 148.973 458.942 1314.67 268.251 563.293 163.721 560.821 540.28 170.939 856.648 431.905 293.874 630.644 786.602 613.321 511.825 609.062 142.875 191.931 +ZNF815 11.5274 44.2893 47.9929 28.66 54.2091 44.1235 50.9739 30.2582 60.7822 15.1498 27.3537 41.8689 10.7466 69.8909 76.8507 18.5014 35.6983 14.4928 36.1757 30.1724 +ZNF816A 39.3852 134.805 98.3558 85.2053 116.589 160.971 77.9113 71.7358 223.499 98.0283 199.745 137.427 79.7511 205.811 147.252 103.46 90.5846 106.026 109.894 84.4095 +ZNF821 165.706 109.419 154.051 601.859 43.5908 52.6274 276.834 245.119 174.487 92.2357 209.587 72.2087 353.507 311.613 99.4223 152.636 199.911 416.278 97.4677 146.983 +ZNF823 53.3141 39.4578 50.9554 185.128 82.1519 107.902 29.0095 87.0349 131.078 25.3982 117.048 79.4903 77.4887 94.2176 68.252 82.3312 17.8492 56.4455 31.0078 141.81 +ZNF826 59.5581 10.0658 2.37 33.3075 8.9417 178.099 9.1173 2.0399 83.5095 24.5071 60.4326 27.9126 42.4208 30.891 6.449 50.8788 1.7849 27.46 90.2044 74.569 +ZNF827 243.516 349.483 120.871 243.997 5.0297 63.3775 41.4422 229.827 100.423 12.0307 62.341 163.228 11.8778 172.217 96.7352 110.083 49.9777 104.5 131.548 96.9828 +ZNF828 206.052 475.104 446.749 502.711 296.194 197.353 283.879 514.73 420.719 289.183 260.178 239.685 147.059 444.831 302.566 144.311 345.382 228.833 971.576 540.086 +ZNF829 0.4803 24.9631 7.1101 5.4222 11.736 9.627 3.7298 12.9192 17.4419 1.7823 16.5394 10.3155 4.5249 18.9207 23.6464 7.4006 6.6934 18.3066 7.9868 8.6207 +ZNF830 237.272 194.47 199.082 396.592 237.514 168.472 392.043 307.342 310.254 225.019 202.926 336.772 302.036 236.316 271.396 288.622 281.125 237.986 255.579 277.586 +ZNF831 1.4409 7.65 0.5925 0.7746 3.912 0 29.0095 2.0399 0 14.7042 3.8168 12.1359 0.5656 0.7723 2.6871 12.951 6.2472 79.3288 1.4094 0 +ZNF833 15.3698 9.6631 2.9625 122.386 16.7657 44.5247 19.4778 19.0389 35.4123 4.4558 36.2595 17.5971 17.5339 11.5841 13.9729 17.5763 19.6341 6.1022 16.9133 75.431 +ZNF83 845.821 744.866 1504.37 5563.13 2643.39 1870.44 354.745 835.331 1956.66 489.25 1809.16 1208.13 559.955 2434.6 1717.59 1574.47 1203.03 1599.54 386.188 854.31 +ZNF835 0.9606 28.5868 47.9929 18.5902 31.296 1.6045 2.4865 4.4197 11.6279 16.041 49.6183 44.2961 0 56.3761 36.5444 41.6281 7.1397 21.3577 22.0813 0.431 +ZNF836 143.132 394.175 719.301 996.127000000001 203.424 917.77 61.3344 1450.7 1179.7 38.7657 2164.76 123.18 442.308 361.811 1707.38 72.1554 251.673 190.694 258.868 902.155 +ZNF837 8.1652 57.9788 97.1708 85.9799 53.0914 130.766 62.1633 215.887 121.564 34.3099 138.041 115.291 137.443 153.683 117.695 139.685 208.389 150.267 35.7059 61.6379 +ZNF839 183.958 288.283 495.334 905.5 280.546 348.977 446.747 294.083 491.543 339.089 274.173 350.728 301.471 307.752 415.961 337.65 634.538 317.315 934.931 187.069 +ZNF841 108.549 162.663 412.976 690.937 123.507 164.862 119.768 160.811 522.727 151.053 388.677 221.481 97.8507 409.306 362.219 247.919 188.309 220.442 156.918 140.086 +ZNF843 0 14.0921 51.5479 6.1967 9.5006 1.2034 2.901 11.2193 19.0275 1.3367 3.1807 6.068 5.6561 3.0891 15.0477 8.3256 16.5105 5.3394 11.2755 2.1552 +ZNF844 87.8963 291.907 72.2856 308.288 163.745 142.399 47.6585 237.646 242.072 24.0615 225.191 320.388 67.3077 293.079 116.62 109.158 15.618 106.789 83.1572 102.586 +ZNF845 33.1412 101.06 148.126 173.509 114.007 129.162 99.8757 77.5155 235.201 135.903 111.323 111.044 61.6516 155.613 152.627 121.184 136.1 82.3799 97.7214 92.2414 +ZNF846 72.5264 47.913 111.983 109.992 121.831 41.3157 47.6585 51.677 75.0529 51.6876 80.1527 94.0534 73.5294 100.782 210.13 74.0056 59.7947 70.9382 31.0078 101.724 +ZNF84 771.854 851.966 740.631 1858.25 478.94 476.534 594.695 708.859 531.712 499.944 1006.36 887.743 248.303 548.316 993.685 691.952 789.826 900.839 807.141 423.276 +ZNF853 179.635 610.79 88.2832 129.357 136.92 55.355 94.4882 207.048 21.6702 7.5749 57.2519 165.048 384.615 54.0593 43.5308 41.6281 438.644 204.424 108.527 189.224 +ZNF85 40.8261 102.671 78.2106 312.161 82.1519 225.03 61.7489 362.079 353.065 73.0756 303.435 105.582 100.679 316.247 98.8849 167.438 67.8269 173.15 117.454 245.259 +ZNF860 6.7243 46.3025 12.4426 12.3935 7.2651 3.209 2.0721 2.0399 1.0571 24.0615 8.2697 7.2816 0 13.5148 5.3742 24.0518 6.2472 8.3905 10.8057 15.5172 +ZNF862 390.97 893.034 792.179 1618.9 377.787 483.353 437.63 578.306 653.806 189.818 491.73 1162.01 95.0226 935.225 553.54 562.442 839.356999999999 1135.01 607 194.397 +ZNF8 38.3045 56.6581 92.887 138.226 55.4609 66.2014 77.2192 117.402 132.706 116.493 89.9618 76.0922 68.2862 101.913 100.476 87.2248 74.8282 77.0557 41.5175 121.978 +ZNF876P 5.2834 32.6131 5.925 56.5453 13.9714 32.0899 31.0816 27.1984 15.8562 1.3367 12.0865 28.5194 12.4434 20.0792 17.1974 16.6512 3.5698 15.2555 40.404 43.9655 +ZNF878 4.3228 1.6105 2.9625 30.9837 2.7943 7.2202 1.2433 1.0199 7.3996 1.3367 12.7226 13.9563 3.3937 10.8119 6.9864 0.9251 0.8925 4.5767 2.3491 4.7414 +ZNF879 73.0067 74.8893 2.37 250.194 65.9451 46.9314 20.7211 68.676 56.5539 20.4968 139.949 93.4466 49.7738 61.0097 77.3881 133.21 54.44 62.5477 8.9265 54.3103 +ZNF880 77.8098 167.494 91.8382 93.7258 35.208 131.167 27.7663 315.842 582.981 8.9117 301.527 106.189 174.208 122.019 134.892 94.3571 84.7836 48.0549 272.962 38.7931 +ZNF883 4.8031 190.042 12.4426 203.718 89.4171 17.2483 7.4596 280.484 46.5116 57.0346 138.677 126.82 169.683 162.178 192.933 506.013 37.037 54.9199 3.7585 44.8276 +ZNF90 146.013 76.9024 257.147 237.8 35.208 195.347 132.201 104.374 349.894 100.256 200.382 60.6796 87.6697 84.9503 228.403 102.683 166.444 33.5622 125.91 216.81 +ZNF91 204.611 227.889 287.365 294.346 310.724 339.751 93.6593 449.454 464.059 77.9771 525.445 311.286 240.95 301.187 278.382 308.048 180.277 363.082 407.799 157.759 +ZNF92 271.854 260.904 288.55 222.308 172.687 437.625 156.237 435.175 455.074 156.4 248.092 177.791 255.09 495.801 470.24 155.412 310.576 282.99 612.168 316.379 +ZNF93 18.732 29.392 45.6229 79.7831 5.0297 119.535 48.9018 123.073 170.19 37.429 83.3333 29.1262 27.7149 55.2177 60.7282 24.9769 29.4511 35.8505 36.1757 148.276 +ZNF98 0 5.6368 0 3.0984 3.3531 0.4011 0.8288 8.1595 16.9133 0 2.5445 4.2476 0 0.3861 3.2245 6.4755 0.4462 3.0511 0 0.431 +ZNF99 0 2.0132 0 0 0.5589 0 0 0 2.6427 0 0.6361 0.6068 0.5656 0 1.0748 0 0 1.5256 0 0 +ZNFX1 478.866 1253.79 793.364 560.806 1227.81 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642.223 542.812 995.433 511.45 404.126 138.575 454.484 619.105 401.48 355.199 551.487 591.027 315.086 diff --git a/apps/iatlas/app/inst/tsv/module_config.tsv b/apps/iatlas/app/inst/tsv/module_config.tsv new file mode 100644 index 0000000000..6a693df4c3 --- /dev/null +++ b/apps/iatlas/app/inst/tsv/module_config.tsv @@ -0,0 +1,21 @@ +display name type description label +Cell-Interaction Diagram cellimage cg Explore cell and protein abundance on an illustration. none +Clinical Outcomes clinical_outcomes cg Plot survival curves based on immune characteristics and identify variables associated with outcome. none +CNV Associations copy_number cg Explore associations of microenvironment with gene copy number. none +Driver Associations driver_associations cg Explore associations of microenvironment with driver mutations. none +Extracellular Networks extracellular_network cg Explore the extracellular networks modulating tumoral immune response. none +Germline Analysis germline cg Explore the germline genetic contribution to the immune landscape of cancer. none +Immune Feature Trends immune_features cg This module allows you to see how immune readouts vary across your groups, and how they relate to one another. none +Immunomodulators immunomodulators cg Explore the expression of genes that code for immunomodulating proteins, including checkpoint proteins. none +IO Targets io_targets cg Explore the expression of genes that code for immuno-oncological (IO) targets. none +TIL Maps til_map cg Explore the characteristics of maps of tumor infiltrating lymphocytes obtained from analysis of H&E images. none +Tumor Microenvironment tumor_microenvironment cg Explore the immune cell proportions in your cohort. none +Immune Subtype Classifier immune_subtype_classifier tool Use an ensemble model trained on all TCGA data to classify gene expression profiles from your own data into the six immune subtypes identified in Thorsson et al. none +Clinical Outcomes ici_clinical_outcomes ici Plot survival curves based on immune characteristics and identify variables associated with outcome. none +Hazard Ratio ici_hazard_ratio ici Create Cox Proportional Hazard Regression Models and visualize Hazard Ratio in a heatmap and a forest plot. none +Immune Features ici_immune_features ici See how immune readouts vary across groups and ICI datasets. none +Immunomodulators ici_immunomodulators ici Explore the expression of genes that code for immunomodulating proteins, including checkpoint proteins. none +Neoantigens ici_neoantigen ici Explore the prevalence, variety and distribution of predicted neoantigens in ICI datasets. none +Machine Learning ici_models ici Train and run multivariable models with cross-validation on ICI genomics and immunogenomics data. none +Immune Features sc_immune_features scRNA See how immune readouts in pseudobulk single cell RNA seq datasets. none +Immunomodulators sc_immunomodulators scRNA Explore the pseudobulk expression of genes that code for immunomodulating proteins, including checkpoint proteins. none diff --git a/apps/iatlas/app/install_and_init.R b/apps/iatlas/app/install_and_init.R new file mode 100644 index 0000000000..cf5e0934de --- /dev/null +++ b/apps/iatlas/app/install_and_init.R @@ -0,0 +1,2 @@ +# renv::restore(confirm=FALSE) +# source('./init.R') diff --git a/apps/iatlas/app/man/create_heritability_df.Rd b/apps/iatlas/app/man/create_heritability_df.Rd new file mode 100644 index 0000000000..03fb7dd9dc --- /dev/null +++ b/apps/iatlas/app/man/create_heritability_df.Rd @@ -0,0 +1,28 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/germline_functions.R +\name{create_heritability_df} +\alias{create_heritability_df} +\title{Prepare heritability tibble for plotting} +\usage{ +create_heritability_df( + heritablity_data, + parameter = "cluster", + group = "European", + pval_thres = 0.05, + ancestry_labels +) +} +\arguments{ +\item{heritablity_data}{A tibble} + +\item{parameter}{Parameter to be used for selection of results (eg, ancestry cluster, immune feature)} + +\item{group}{Specific group, in the selected parameter, to be displayed (eg. European - ancestry cluster, NK cells - immune feature)} + +\item{pval_thres}{Maximun p-value to be included} + +\item{ancestry_labels}{A list} +} +\description{ +Prepare heritability tibble for plotting +} diff --git a/apps/iatlas/app/man/create_tm_slide_link.Rd b/apps/iatlas/app/man/create_tm_slide_link.Rd new file mode 100644 index 0000000000..e60849bb8a --- /dev/null +++ b/apps/iatlas/app/man/create_tm_slide_link.Rd @@ -0,0 +1,14 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/til_map_datatable_functions.R +\name{create_tm_slide_link} +\alias{create_tm_slide_link} +\title{Create Tilmap Slide Link} +\usage{ +create_tm_slide_link(slide_barcodes) +} +\arguments{ +\item{slide_barcodes}{A vector of strings} +} +\description{ +Create Tilmap Slide Link +} diff --git a/apps/iatlas/app/man/filter_feature_tbl.Rd b/apps/iatlas/app/man/filter_feature_tbl.Rd new file mode 100644 index 0000000000..a19bb4a407 --- /dev/null +++ b/apps/iatlas/app/man/filter_feature_tbl.Rd @@ -0,0 +1,16 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/data_info_functions.R +\name{filter_feature_tbl} +\alias{filter_feature_tbl} +\title{Filter Feature Tibble} +\usage{ +filter_feature_tbl(feature_tbl, selected_row) +} +\arguments{ +\item{feature_tbl}{A tibble with columns class} + +\item{selected_row}{An integer that is a row number in the tibble} +} +\description{ +Filter Feature Tibble +} diff --git a/apps/iatlas/app/man/format_feature_tbl.Rd b/apps/iatlas/app/man/format_feature_tbl.Rd new file mode 100644 index 0000000000..bb180944c0 --- /dev/null +++ b/apps/iatlas/app/man/format_feature_tbl.Rd @@ -0,0 +1,14 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/data_info_functions.R +\name{format_feature_tbl} +\alias{format_feature_tbl} +\title{Format Feature Tibble} +\usage{ +format_feature_tbl(feature_tbl) +} +\arguments{ +\item{feature_tbl}{A tibble with columns feature, unit and class} +} +\description{ +Format Feature Tibble +} diff --git a/apps/iatlas/app/man/format_filtered_feature_tbl.Rd b/apps/iatlas/app/man/format_filtered_feature_tbl.Rd new file mode 100644 index 0000000000..1a85311652 --- /dev/null +++ b/apps/iatlas/app/man/format_filtered_feature_tbl.Rd @@ -0,0 +1,15 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/data_info_functions.R +\name{format_filtered_feature_tbl} +\alias{format_filtered_feature_tbl} +\title{Format Filtered Feature Tibble} +\usage{ +format_filtered_feature_tbl(filtered_feature_tbl) +} +\arguments{ +\item{filtered_feature_tbl}{A tibble with columns order, display, unit, and +method_tag} +} +\description{ +Format Filtered Feature Tibble +} diff --git a/apps/iatlas/app/project.json b/apps/iatlas/app/project.json new file mode 100644 index 0000000000..ee5773e92b --- /dev/null +++ b/apps/iatlas/app/project.json @@ -0,0 +1,31 @@ +{ + "name": "iatlas-app", + "$schema": "../../../node_modules/nx/schemas/project-schema.json", + "projectType": "application", + "targets": { + "prepare": { + "executor": "nx:run-commands", + "options": { + "commands": [ + "sudo apt-get update", + "sudo apt-get install -y libgit2-dev", + "Rscript -e 'renv::restore()'" + ], + "cwd": "{projectRoot}", + "parallel": false + } + }, + "build-image": { + "executor": "@nx-tools/nx-container:build", + "options": { + "context": "apps/iatlas/app", + "metadata": { + "images": ["ghcr.io/sage-bionetworks/iatlas-app"], + "tags": ["type=edge,branch=main", "type=raw,value=local", "type=sha"] + }, + "push": false + } + } + }, + "tags": ["language:r", "package-manager:renv"] +} diff --git a/apps/iatlas/app/renv.lock b/apps/iatlas/app/renv.lock new file mode 100644 index 0000000000..6b1c2cf3f9 --- /dev/null +++ b/apps/iatlas/app/renv.lock @@ -0,0 +1,3509 @@ +{ + "R": { + "Version": "4.2.0", + "Repositories": [ + { + "Name": "REPO_NAME", + "URL": "https://packagemanager.rstudio.com/all/latest" 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"Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "stats", + "utils" + ], + "Hash": "b8acdf8af494d9ec19ccb2481a9b11c2" + }, + "yaml": { + "Package": "yaml", + "Version": "2.3.5", + "Source": "Repository", + "Repository": "CRAN", + "Hash": "458bb38374d73bf83b1bb85e353da200" + }, + "zip": { + "Package": "zip", + "Version": "2.2.0", + "Source": "Repository", + "Repository": "CRAN", + "Hash": "c7eef2996ac270a18c2715c997a727c5" + }, + "zlibbioc": { + "Package": "zlibbioc", + "Version": "1.42.0", + "Source": "Bioconductor", + "Hash": "908694d02f7332d0576e7c881e572c5a" + }, + "zoo": { + "Package": "zoo", + "Version": "1.8-10", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "grDevices", + "graphics", + "lattice", + "stats", + "utils" + ], + "Hash": "277b8b4c5b7b47e664aebfe024a2092e" + } + } +} diff --git a/apps/iatlas/app/renv/.gitignore b/apps/iatlas/app/renv/.gitignore new file mode 100644 index 0000000000..22a0d01dd0 --- /dev/null +++ b/apps/iatlas/app/renv/.gitignore @@ -0,0 +1,7 @@ +sandbox/ +library/ +local/ +cellar/ +lock/ +python/ +staging/ diff --git a/apps/iatlas/app/renv/activate.R b/apps/iatlas/app/renv/activate.R new file mode 100644 index 0000000000..cb5401f93c --- /dev/null +++ b/apps/iatlas/app/renv/activate.R @@ -0,0 +1,1180 @@ + +local({ + + # the requested version of renv + version <- "1.0.3" + attr(version, "sha") <- NULL + + # the project directory + project <- getwd() + + # use start-up diagnostics if enabled + diagnostics <- Sys.getenv("RENV_STARTUP_DIAGNOSTICS", unset = "FALSE") + if (diagnostics) { + start <- Sys.time() + profile <- tempfile("renv-startup-", fileext = ".Rprof") + utils::Rprof(profile) + on.exit({ + utils::Rprof(NULL) + elapsed <- signif(difftime(Sys.time(), start, units = "auto"), digits = 2L) + writeLines(sprintf("- renv took %s to run the autoloader.", format(elapsed))) + writeLines(sprintf("- Profile: %s", profile)) + print(utils::summaryRprof(profile)) + }, add = TRUE) + } + + # figure out whether the autoloader is enabled + enabled <- local({ + + # first, check config option + override <- getOption("renv.config.autoloader.enabled") + if (!is.null(override)) + return(override) + + # next, check environment variables + # TODO: prefer using the configuration one in the future + envvars <- c( + "RENV_CONFIG_AUTOLOADER_ENABLED", + "RENV_AUTOLOADER_ENABLED", + "RENV_ACTIVATE_PROJECT" + ) + + for (envvar in envvars) { + envval <- Sys.getenv(envvar, unset = NA) + if (!is.na(envval)) + return(tolower(envval) %in% c("true", "t", "1")) + } + + # enable by default + TRUE + + }) + + if (!enabled) + return(FALSE) + + # avoid recursion + if (identical(getOption("renv.autoloader.running"), TRUE)) { + warning("ignoring recursive attempt to run renv autoloader") + return(invisible(TRUE)) + } + + # signal that we're loading renv during R startup + options(renv.autoloader.running = TRUE) + on.exit(options(renv.autoloader.running = NULL), add = TRUE) + + # signal that we've consented to use renv + options(renv.consent = TRUE) + + # load the 'utils' package eagerly -- this ensures that renv shims, which + # mask 'utils' packages, will come first on the search path + library(utils, lib.loc = .Library) + + # unload renv if it's already been loaded + if ("renv" %in% loadedNamespaces()) + unloadNamespace("renv") + + # load bootstrap tools + `%||%` <- function(x, y) { + if (is.null(x)) y else x + } + + catf <- function(fmt, ..., appendLF = TRUE) { + + quiet <- getOption("renv.bootstrap.quiet", default = FALSE) + if (quiet) + return(invisible()) + + msg <- sprintf(fmt, ...) + cat(msg, file = stdout(), sep = if (appendLF) "\n" else "") + + invisible(msg) + + } + + header <- function(label, + ..., + prefix = "#", + suffix = "-", + n = min(getOption("width"), 78)) + { + label <- sprintf(label, ...) + n <- max(n - nchar(label) - nchar(prefix) - 2L, 8L) + if (n <= 0) + return(paste(prefix, label)) + + tail <- paste(rep.int(suffix, n), collapse = "") + paste0(prefix, " ", label, " ", tail) + + } + + startswith <- function(string, prefix) { + substring(string, 1, nchar(prefix)) == prefix + } + + bootstrap <- function(version, library) { + + friendly <- renv_bootstrap_version_friendly(version) + section <- header(sprintf("Bootstrapping renv %s", friendly)) + catf(section) + + # attempt to download renv + catf("- Downloading renv ... ", appendLF = FALSE) + withCallingHandlers( + tarball <- renv_bootstrap_download(version), + error = function(err) { + catf("FAILED") + stop("failed to download:\n", conditionMessage(err)) + } + ) + catf("OK") + on.exit(unlink(tarball), add = TRUE) + + # now attempt to install + catf("- Installing renv ... ", appendLF = FALSE) + withCallingHandlers( + status <- renv_bootstrap_install(version, tarball, library), + error = function(err) { + catf("FAILED") + stop("failed to install:\n", conditionMessage(err)) + } + ) + catf("OK") + + # add empty line to break up bootstrapping from normal output + catf("") + + return(invisible()) + } + + renv_bootstrap_tests_running <- function() { + getOption("renv.tests.running", default = FALSE) + } + + renv_bootstrap_repos <- function() { + + # get CRAN repository + cran <- getOption("renv.repos.cran", "https://cloud.r-project.org") + + # check for repos override + repos <- Sys.getenv("RENV_CONFIG_REPOS_OVERRIDE", unset = NA) + if (!is.na(repos)) { + + # check for RSPM; if set, use a fallback repository for renv + rspm <- Sys.getenv("RSPM", unset = NA) + if (identical(rspm, repos)) + repos <- c(RSPM = rspm, CRAN = cran) + + return(repos) + + } + + # check for lockfile repositories + repos <- tryCatch(renv_bootstrap_repos_lockfile(), error = identity) + if (!inherits(repos, "error") && length(repos)) + return(repos) + + # retrieve current repos + repos <- getOption("repos") + + # ensure @CRAN@ entries are resolved + repos[repos == "@CRAN@"] <- cran + + # add in renv.bootstrap.repos if set + default <- c(FALLBACK = "https://cloud.r-project.org") + extra <- getOption("renv.bootstrap.repos", default = default) + repos <- c(repos, extra) + + # remove duplicates that might've snuck in + dupes <- duplicated(repos) | duplicated(names(repos)) + repos[!dupes] + + } + + renv_bootstrap_repos_lockfile <- function() { + + lockpath <- Sys.getenv("RENV_PATHS_LOCKFILE", unset = "renv.lock") + if (!file.exists(lockpath)) + return(NULL) + + lockfile <- tryCatch(renv_json_read(lockpath), error = identity) + if (inherits(lockfile, "error")) { + warning(lockfile) + return(NULL) + } + + repos <- lockfile$R$Repositories + if (length(repos) == 0) + return(NULL) + + keys <- vapply(repos, `[[`, "Name", FUN.VALUE = character(1)) + vals <- vapply(repos, `[[`, "URL", FUN.VALUE = character(1)) + names(vals) <- keys + + return(vals) + + } + + renv_bootstrap_download <- function(version) { + + sha <- attr(version, "sha", exact = TRUE) + + methods <- if (!is.null(sha)) { + + # attempting to bootstrap a development version of renv + c( + function() renv_bootstrap_download_tarball(sha), + function() renv_bootstrap_download_github(sha) + ) + + } else { + + # attempting to bootstrap a release version of renv + c( + function() renv_bootstrap_download_tarball(version), + function() renv_bootstrap_download_cran_latest(version), + function() renv_bootstrap_download_cran_archive(version) + ) + + } + + for (method in methods) { + path <- tryCatch(method(), error = identity) + if (is.character(path) && file.exists(path)) + return(path) + } + + stop("All download methods failed") + + } + + renv_bootstrap_download_impl <- function(url, destfile) { + + mode <- "wb" + + # https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17715 + fixup <- + Sys.info()[["sysname"]] == "Windows" && + substring(url, 1L, 5L) == "file:" + + if (fixup) + mode <- "w+b" + + args <- list( + url = url, + destfile = destfile, + mode = mode, + quiet = TRUE + ) + + if ("headers" %in% names(formals(utils::download.file))) + args$headers <- renv_bootstrap_download_custom_headers(url) + + do.call(utils::download.file, args) + + } + + renv_bootstrap_download_custom_headers <- function(url) { + + headers <- getOption("renv.download.headers") + if (is.null(headers)) + return(character()) + + if (!is.function(headers)) + stopf("'renv.download.headers' is not a function") + + headers <- headers(url) + if (length(headers) == 0L) + return(character()) + + if (is.list(headers)) + headers <- unlist(headers, recursive = FALSE, use.names = TRUE) + + ok <- + is.character(headers) && + is.character(names(headers)) && + all(nzchar(names(headers))) + + if (!ok) + stop("invocation of 'renv.download.headers' did not return a named character vector") + + headers + + } + + renv_bootstrap_download_cran_latest <- function(version) { + + spec <- renv_bootstrap_download_cran_latest_find(version) + type <- spec$type + repos <- spec$repos + + baseurl <- utils::contrib.url(repos = repos, type = type) + ext <- if (identical(type, "source")) + ".tar.gz" + else if (Sys.info()[["sysname"]] == "Windows") + ".zip" + else + ".tgz" + name <- sprintf("renv_%s%s", version, ext) + url <- paste(baseurl, name, sep = "/") + + destfile <- file.path(tempdir(), name) + status <- tryCatch( + renv_bootstrap_download_impl(url, destfile), + condition = identity + ) + + if (inherits(status, "condition")) + return(FALSE) + + # report success and return + destfile + + } + + renv_bootstrap_download_cran_latest_find <- function(version) { + + # check whether binaries are supported on this system + binary <- + getOption("renv.bootstrap.binary", default = TRUE) && + !identical(.Platform$pkgType, "source") && + !identical(getOption("pkgType"), "source") && + Sys.info()[["sysname"]] %in% c("Darwin", "Windows") + + types <- c(if (binary) "binary", "source") + + # iterate over types + repositories + for (type in types) { + for (repos in renv_bootstrap_repos()) { + + # retrieve package database + db <- tryCatch( + as.data.frame( + utils::available.packages(type = type, repos = repos), + stringsAsFactors = FALSE + ), + error = identity + ) + + if (inherits(db, "error")) + next + + # check for compatible entry + entry <- db[db$Package %in% "renv" & db$Version %in% version, ] + if (nrow(entry) == 0) + next + + # found it; return spec to caller + spec <- list(entry = entry, type = type, repos = repos) + return(spec) + + } + } + + # if we got here, we failed to find renv + fmt <- "renv %s is not available from your declared package repositories" + stop(sprintf(fmt, version)) + + } + + renv_bootstrap_download_cran_archive <- function(version) { + + name <- sprintf("renv_%s.tar.gz", version) + repos <- renv_bootstrap_repos() + urls <- file.path(repos, "src/contrib/Archive/renv", name) + destfile <- file.path(tempdir(), name) + + for (url in urls) { + + status <- tryCatch( + renv_bootstrap_download_impl(url, destfile), + condition = identity + ) + + if (identical(status, 0L)) + return(destfile) + + } + + return(FALSE) + + } + + renv_bootstrap_download_tarball <- function(version) { + + # if the user has provided the path to a tarball via + # an environment variable, then use it + tarball <- Sys.getenv("RENV_BOOTSTRAP_TARBALL", unset = NA) + if (is.na(tarball)) + return() + + # allow directories + if (dir.exists(tarball)) { + name <- sprintf("renv_%s.tar.gz", version) + tarball <- file.path(tarball, name) + } + + # bail if it doesn't exist + if (!file.exists(tarball)) { + + # let the user know we weren't able to honour their request + fmt <- "- RENV_BOOTSTRAP_TARBALL is set (%s) but does not exist." + msg <- sprintf(fmt, tarball) + warning(msg) + + # bail + return() + + } + + catf("- Using local tarball '%s'.", tarball) + tarball + + } + + renv_bootstrap_download_github <- function(version) { + + enabled <- Sys.getenv("RENV_BOOTSTRAP_FROM_GITHUB", unset = "TRUE") + if (!identical(enabled, "TRUE")) + return(FALSE) + + # prepare download options + pat <- Sys.getenv("GITHUB_PAT") + if (nzchar(Sys.which("curl")) && nzchar(pat)) { + fmt <- "--location --fail --header \"Authorization: token %s\"" + extra <- sprintf(fmt, pat) + saved <- options("download.file.method", "download.file.extra") + options(download.file.method = "curl", download.file.extra = extra) + on.exit(do.call(base::options, saved), add = TRUE) + } else if (nzchar(Sys.which("wget")) && nzchar(pat)) { + fmt <- "--header=\"Authorization: token %s\"" + extra <- sprintf(fmt, pat) + saved <- options("download.file.method", "download.file.extra") + options(download.file.method = "wget", download.file.extra = extra) + on.exit(do.call(base::options, saved), add = TRUE) + } + + url <- file.path("https://api.github.com/repos/rstudio/renv/tarball", version) + name <- sprintf("renv_%s.tar.gz", version) + destfile <- file.path(tempdir(), name) + + status <- tryCatch( + renv_bootstrap_download_impl(url, destfile), + condition = identity + ) + + if (!identical(status, 0L)) + return(FALSE) + + renv_bootstrap_download_augment(destfile) + + return(destfile) + + } + + # Add Sha to DESCRIPTION. This is stop gap until #890, after which we + # can use renv::install() to fully capture metadata. + renv_bootstrap_download_augment <- function(destfile) { + sha <- renv_bootstrap_git_extract_sha1_tar(destfile) + if (is.null(sha)) { + return() + } + + # Untar + tempdir <- tempfile("renv-github-") + on.exit(unlink(tempdir, recursive = TRUE), add = TRUE) + untar(destfile, exdir = tempdir) + pkgdir <- dir(tempdir, full.names = TRUE)[[1]] + + # Modify description + desc_path <- file.path(pkgdir, "DESCRIPTION") + desc_lines <- readLines(desc_path) + remotes_fields <- c( + "RemoteType: github", + "RemoteHost: api.github.com", + "RemoteRepo: renv", + "RemoteUsername: rstudio", + "RemotePkgRef: rstudio/renv", + paste("RemoteRef: ", sha), + paste("RemoteSha: ", sha) + ) + writeLines(c(desc_lines[desc_lines != ""], remotes_fields), con = desc_path) + + # Re-tar + local({ + old <- setwd(tempdir) + on.exit(setwd(old), add = TRUE) + + tar(destfile, compression = "gzip") + }) + invisible() + } + + # Extract the commit hash from a git archive. Git archives include the SHA1 + # hash as the comment field of the tarball pax extended header + # (see https://www.kernel.org/pub/software/scm/git/docs/git-archive.html) + # For GitHub archives this should be the first header after the default one + # (512 byte) header. + renv_bootstrap_git_extract_sha1_tar <- function(bundle) { + + # open the bundle for reading + # We use gzcon for everything because (from ?gzcon) + # > Reading from a connection which does not supply a 'gzip' magic + # > header is equivalent to reading from the original connection + conn <- gzcon(file(bundle, open = "rb", raw = TRUE)) + on.exit(close(conn)) + + # The default pax header is 512 bytes long and the first pax extended header + # with the comment should be 51 bytes long + # `52 comment=` (11 chars) + 40 byte SHA1 hash + len <- 0x200 + 0x33 + res <- rawToChar(readBin(conn, "raw", n = len)[0x201:len]) + + if (grepl("^52 comment=", res)) { + sub("52 comment=", "", res) + } else { + NULL + } + } + + renv_bootstrap_install <- function(version, tarball, library) { + + # attempt to install it into project library + dir.create(library, showWarnings = FALSE, recursive = TRUE) + output <- renv_bootstrap_install_impl(library, tarball) + + # check for successful install + status <- attr(output, "status") + if (is.null(status) || identical(status, 0L)) + return(status) + + # an error occurred; report it + header <- "installation of renv failed" + lines <- paste(rep.int("=", nchar(header)), collapse = "") + text <- paste(c(header, lines, output), collapse = "\n") + stop(text) + + } + + renv_bootstrap_install_impl <- function(library, tarball) { + + # invoke using system2 so we can capture and report output + bin <- R.home("bin") + exe <- if (Sys.info()[["sysname"]] == "Windows") "R.exe" else "R" + R <- file.path(bin, exe) + + args <- c( + "--vanilla", "CMD", "INSTALL", "--no-multiarch", + "-l", shQuote(path.expand(library)), + shQuote(path.expand(tarball)) + ) + + system2(R, args, stdout = TRUE, stderr = TRUE) + + } + + renv_bootstrap_platform_prefix <- function() { + + # construct version prefix + version <- paste(R.version$major, R.version$minor, sep = ".") + prefix <- paste("R", numeric_version(version)[1, 1:2], sep = "-") + + # include SVN revision for development versions of R + # (to avoid sharing platform-specific artefacts with released versions of R) + devel <- + identical(R.version[["status"]], "Under development (unstable)") || + identical(R.version[["nickname"]], "Unsuffered Consequences") + + if (devel) + prefix <- paste(prefix, R.version[["svn rev"]], sep = "-r") + + # build list of path components + components <- c(prefix, R.version$platform) + + # include prefix if provided by user + prefix <- renv_bootstrap_platform_prefix_impl() + if (!is.na(prefix) && nzchar(prefix)) + components <- c(prefix, components) + + # build prefix + paste(components, collapse = "/") + + } + + renv_bootstrap_platform_prefix_impl <- function() { + + # if an explicit prefix has been supplied, use it + prefix <- Sys.getenv("RENV_PATHS_PREFIX", unset = NA) + if (!is.na(prefix)) + return(prefix) + + # if the user has requested an automatic prefix, generate it + auto <- Sys.getenv("RENV_PATHS_PREFIX_AUTO", unset = NA) + if (auto %in% c("TRUE", "True", "true", "1")) + return(renv_bootstrap_platform_prefix_auto()) + + # empty string on failure + "" + + } + + renv_bootstrap_platform_prefix_auto <- function() { + + prefix <- tryCatch(renv_bootstrap_platform_os(), error = identity) + if (inherits(prefix, "error") || prefix %in% "unknown") { + + msg <- paste( + "failed to infer current operating system", + "please file a bug report at https://github.com/rstudio/renv/issues", + sep = "; " + ) + + warning(msg) + + } + + prefix + + } + + renv_bootstrap_platform_os <- function() { + + sysinfo <- Sys.info() + sysname <- sysinfo[["sysname"]] + + # handle Windows + macOS up front + if (sysname == "Windows") + return("windows") + else if (sysname == "Darwin") + return("macos") + + # check for os-release files + for (file in c("/etc/os-release", "/usr/lib/os-release")) + if (file.exists(file)) + return(renv_bootstrap_platform_os_via_os_release(file, sysinfo)) + + # check for redhat-release files + if (file.exists("/etc/redhat-release")) + return(renv_bootstrap_platform_os_via_redhat_release()) + + "unknown" + + } + + renv_bootstrap_platform_os_via_os_release <- function(file, sysinfo) { + + # read /etc/os-release + release <- utils::read.table( + file = file, + sep = "=", + quote = c("\"", "'"), + col.names = c("Key", "Value"), + comment.char = "#", + stringsAsFactors = FALSE + ) + + vars <- as.list(release$Value) + names(vars) <- release$Key + + # get os name + os <- tolower(sysinfo[["sysname"]]) + + # read id + id <- "unknown" + for (field in c("ID", "ID_LIKE")) { + if (field %in% names(vars) && nzchar(vars[[field]])) { + id <- vars[[field]] + break + } + } + + # read version + version <- "unknown" + for (field in c("UBUNTU_CODENAME", "VERSION_CODENAME", "VERSION_ID", "BUILD_ID")) { + if (field %in% names(vars) && nzchar(vars[[field]])) { + version <- vars[[field]] + break + } + } + + # join together + paste(c(os, id, version), collapse = "-") + + } + + renv_bootstrap_platform_os_via_redhat_release <- function() { + + # read /etc/redhat-release + contents <- readLines("/etc/redhat-release", warn = FALSE) + + # infer id + id <- if (grepl("centos", contents, ignore.case = TRUE)) + "centos" + else if (grepl("redhat", contents, ignore.case = TRUE)) + "redhat" + else + "unknown" + + # try to find a version component (very hacky) + version <- "unknown" + + parts <- strsplit(contents, "[[:space:]]")[[1L]] + for (part in parts) { + + nv <- tryCatch(numeric_version(part), error = identity) + if (inherits(nv, "error")) + next + + version <- nv[1, 1] + break + + } + + paste(c("linux", id, version), collapse = "-") + + } + + renv_bootstrap_library_root_name <- function(project) { + + # use project name as-is if requested + asis <- Sys.getenv("RENV_PATHS_LIBRARY_ROOT_ASIS", unset = "FALSE") + if (asis) + return(basename(project)) + + # otherwise, disambiguate based on project's path + id <- substring(renv_bootstrap_hash_text(project), 1L, 8L) + paste(basename(project), id, sep = "-") + + } + + renv_bootstrap_library_root <- function(project) { + + prefix <- renv_bootstrap_profile_prefix() + + path <- Sys.getenv("RENV_PATHS_LIBRARY", unset = NA) + if (!is.na(path)) + return(paste(c(path, prefix), collapse = "/")) + + path <- renv_bootstrap_library_root_impl(project) + if (!is.null(path)) { + name <- renv_bootstrap_library_root_name(project) + return(paste(c(path, prefix, name), collapse = "/")) + } + + renv_bootstrap_paths_renv("library", project = project) + + } + + renv_bootstrap_library_root_impl <- function(project) { + + root <- Sys.getenv("RENV_PATHS_LIBRARY_ROOT", unset = NA) + if (!is.na(root)) + return(root) + + type <- renv_bootstrap_project_type(project) + if (identical(type, "package")) { + userdir <- renv_bootstrap_user_dir() + return(file.path(userdir, "library")) + } + + } + + renv_bootstrap_validate_version <- function(version, description = NULL) { + + # resolve description file + # + # avoid passing lib.loc to `packageDescription()` below, since R will + # use the loaded version of the package by default anyhow. note that + # this function should only be called after 'renv' is loaded + # https://github.com/rstudio/renv/issues/1625 + description <- description %||% packageDescription("renv") + + # check whether requested version 'version' matches loaded version of renv + sha <- attr(version, "sha", exact = TRUE) + valid <- if (!is.null(sha)) + renv_bootstrap_validate_version_dev(sha, description) + else + renv_bootstrap_validate_version_release(version, description) + + if (valid) + return(TRUE) + + # the loaded version of renv doesn't match the requested version; + # give the user instructions on how to proceed + remote <- if (!is.null(description[["RemoteSha"]])) { + paste("rstudio/renv", description[["RemoteSha"]], sep = "@") + } else { + paste("renv", description[["Version"]], sep = "@") + } + + # display both loaded version + sha if available + friendly <- renv_bootstrap_version_friendly( + version = description[["Version"]], + sha = description[["RemoteSha"]] + ) + + fmt <- paste( + "renv %1$s was loaded from project library, but this project is configured to use renv %2$s.", + "- Use `renv::record(\"%3$s\")` to record renv %1$s in the lockfile.", + "- Use `renv::restore(packages = \"renv\")` to install renv %2$s into the project library.", + sep = "\n" + ) + catf(fmt, friendly, renv_bootstrap_version_friendly(version), remote) + + FALSE + + } + + renv_bootstrap_validate_version_dev <- function(version, description) { + expected <- description[["RemoteSha"]] + is.character(expected) && startswith(expected, version) + } + + renv_bootstrap_validate_version_release <- function(version, description) { + expected <- description[["Version"]] + is.character(expected) && identical(expected, version) + } + + renv_bootstrap_hash_text <- function(text) { + + hashfile <- tempfile("renv-hash-") + on.exit(unlink(hashfile), add = TRUE) + + writeLines(text, con = hashfile) + tools::md5sum(hashfile) + + } + + renv_bootstrap_load <- function(project, libpath, version) { + + # try to load renv from the project library + if (!requireNamespace("renv", lib.loc = libpath, quietly = TRUE)) + return(FALSE) + + # warn if the version of renv loaded does not match + renv_bootstrap_validate_version(version) + + # execute renv load hooks, if any + hooks <- getHook("renv::autoload") + for (hook in hooks) + if (is.function(hook)) + tryCatch(hook(), error = warnify) + + # load the project + renv::load(project) + + TRUE + + } + + renv_bootstrap_profile_load <- function(project) { + + # if RENV_PROFILE is already set, just use that + profile <- Sys.getenv("RENV_PROFILE", unset = NA) + if (!is.na(profile) && nzchar(profile)) + return(profile) + + # check for a profile file (nothing to do if it doesn't exist) + path <- renv_bootstrap_paths_renv("profile", profile = FALSE, project = project) + if (!file.exists(path)) + return(NULL) + + # read the profile, and set it if it exists + contents <- readLines(path, warn = FALSE) + if (length(contents) == 0L) + return(NULL) + + # set RENV_PROFILE + profile <- contents[[1L]] + if (!profile %in% c("", "default")) + Sys.setenv(RENV_PROFILE = profile) + + profile + + } + + renv_bootstrap_profile_prefix <- function() { + profile <- renv_bootstrap_profile_get() + if (!is.null(profile)) + return(file.path("profiles", profile, "renv")) + } + + renv_bootstrap_profile_get <- function() { + profile <- Sys.getenv("RENV_PROFILE", unset = "") + renv_bootstrap_profile_normalize(profile) + } + + renv_bootstrap_profile_set <- function(profile) { + profile <- renv_bootstrap_profile_normalize(profile) + if (is.null(profile)) + Sys.unsetenv("RENV_PROFILE") + else + Sys.setenv(RENV_PROFILE = profile) + } + + renv_bootstrap_profile_normalize <- function(profile) { + + if (is.null(profile) || profile %in% c("", "default")) + return(NULL) + + profile + + } + + renv_bootstrap_path_absolute <- function(path) { + + substr(path, 1L, 1L) %in% c("~", "/", "\\") || ( + substr(path, 1L, 1L) %in% c(letters, LETTERS) && + substr(path, 2L, 3L) %in% c(":/", ":\\") + ) + + } + + renv_bootstrap_paths_renv <- function(..., profile = TRUE, project = NULL) { + renv <- Sys.getenv("RENV_PATHS_RENV", unset = "renv") + root <- if (renv_bootstrap_path_absolute(renv)) NULL else project + prefix <- if (profile) renv_bootstrap_profile_prefix() + components <- c(root, renv, prefix, ...) + paste(components, collapse = "/") + } + + renv_bootstrap_project_type <- function(path) { + + descpath <- file.path(path, "DESCRIPTION") + if (!file.exists(descpath)) + return("unknown") + + desc <- tryCatch( + read.dcf(descpath, all = TRUE), + error = identity + ) + + if (inherits(desc, "error")) + return("unknown") + + type <- desc$Type + if (!is.null(type)) + return(tolower(type)) + + package <- desc$Package + if (!is.null(package)) + return("package") + + "unknown" + + } + + renv_bootstrap_user_dir <- function() { + dir <- renv_bootstrap_user_dir_impl() + path.expand(chartr("\\", "/", dir)) + } + + renv_bootstrap_user_dir_impl <- function() { + + # use local override if set + override <- getOption("renv.userdir.override") + if (!is.null(override)) + return(override) + + # use R_user_dir if available + tools <- asNamespace("tools") + if (is.function(tools$R_user_dir)) + return(tools$R_user_dir("renv", "cache")) + + # try using our own backfill for older versions of R + envvars <- c("R_USER_CACHE_DIR", "XDG_CACHE_HOME") + for (envvar in envvars) { + root <- Sys.getenv(envvar, unset = NA) + if (!is.na(root)) + return(file.path(root, "R/renv")) + } + + # use platform-specific default fallbacks + if (Sys.info()[["sysname"]] == "Windows") + file.path(Sys.getenv("LOCALAPPDATA"), "R/cache/R/renv") + else if (Sys.info()[["sysname"]] == "Darwin") + "~/Library/Caches/org.R-project.R/R/renv" + else + "~/.cache/R/renv" + + } + + renv_bootstrap_version_friendly <- function(version, shafmt = NULL, sha = NULL) { + sha <- sha %||% attr(version, "sha", exact = TRUE) + parts <- c(version, sprintf(shafmt %||% " [sha: %s]", substring(sha, 1L, 7L))) + paste(parts, collapse = "") + } + + renv_bootstrap_exec <- function(project, libpath, version) { + if (!renv_bootstrap_load(project, libpath, version)) + renv_bootstrap_run(version, libpath) + } + + renv_bootstrap_run <- function(version, libpath) { + + # perform bootstrap + bootstrap(version, libpath) + + # exit early if we're just testing bootstrap + if (!is.na(Sys.getenv("RENV_BOOTSTRAP_INSTALL_ONLY", unset = NA))) + return(TRUE) + + # try again to load + if (requireNamespace("renv", lib.loc = libpath, quietly = TRUE)) { + return(renv::load(project = getwd())) + } + + # failed to download or load renv; warn the user + msg <- c( + "Failed to find an renv installation: the project will not be loaded.", + "Use `renv::activate()` to re-initialize the project." + ) + + warning(paste(msg, collapse = "\n"), call. = FALSE) + + } + + renv_json_read <- function(file = NULL, text = NULL) { + + jlerr <- NULL + + # if jsonlite is loaded, use that instead + if ("jsonlite" %in% loadedNamespaces()) { + + json <- catch(renv_json_read_jsonlite(file, text)) + if (!inherits(json, "error")) + return(json) + + jlerr <- json + + } + + # otherwise, fall back to the default JSON reader + json <- catch(renv_json_read_default(file, text)) + if (!inherits(json, "error")) + return(json) + + # report an error + if (!is.null(jlerr)) + stop(jlerr) + else + stop(json) + + } + + renv_json_read_jsonlite <- function(file = NULL, text = NULL) { + text <- paste(text %||% read(file), collapse = "\n") + jsonlite::fromJSON(txt = text, simplifyVector = FALSE) + } + + renv_json_read_default <- function(file = NULL, text = NULL) { + + # find strings in the JSON + text <- paste(text %||% read(file), collapse = "\n") + pattern <- '["](?:(?:\\\\.)|(?:[^"\\\\]))*?["]' + locs <- gregexpr(pattern, text, perl = TRUE)[[1]] + + # if any are found, replace them with placeholders + replaced <- text + strings <- character() + replacements <- character() + + if (!identical(c(locs), -1L)) { + + # get the string values + starts <- locs + ends <- locs + attr(locs, "match.length") - 1L + strings <- substring(text, starts, ends) + + # only keep those requiring escaping + strings <- grep("[[\\]{}:]", strings, perl = TRUE, value = TRUE) + + # compute replacements + replacements <- sprintf('"\032%i\032"', seq_along(strings)) + + # replace the strings + mapply(function(string, replacement) { + replaced <<- sub(string, replacement, replaced, fixed = TRUE) + }, strings, replacements) + + } + + # transform the JSON into something the R parser understands + transformed <- replaced + transformed <- gsub("{}", "`names<-`(list(), character())", transformed, fixed = TRUE) + transformed <- gsub("[[{]", "list(", transformed, perl = TRUE) + transformed <- gsub("[]}]", ")", transformed, perl = TRUE) + transformed <- gsub(":", "=", transformed, fixed = TRUE) + text <- paste(transformed, collapse = "\n") + + # parse it + json <- parse(text = text, keep.source = FALSE, srcfile = NULL)[[1L]] + + # construct map between source strings, replaced strings + map <- as.character(parse(text = strings)) + names(map) <- as.character(parse(text = replacements)) + + # convert to list + map <- as.list(map) + + # remap strings in object + remapped <- renv_json_remap(json, map) + + # evaluate + eval(remapped, envir = baseenv()) + + } + + renv_json_remap <- function(json, map) { + + # fix names + if (!is.null(names(json))) { + lhs <- match(names(json), names(map), nomatch = 0L) + rhs <- match(names(map), names(json), nomatch = 0L) + names(json)[rhs] <- map[lhs] + } + + # fix values + if (is.character(json)) + return(map[[json]] %||% json) + + # handle true, false, null + if (is.name(json)) { + text <- as.character(json) + if (text == "true") + return(TRUE) + else if (text == "false") + return(FALSE) + else if (text == "null") + return(NULL) + } + + # recurse + if (is.recursive(json)) { + for (i in seq_along(json)) { + json[i] <- list(renv_json_remap(json[[i]], map)) + } + } + + json + + } + + # load the renv profile, if any + renv_bootstrap_profile_load(project) + + # construct path to library root + root <- renv_bootstrap_library_root(project) + + # construct library prefix for platform + prefix <- renv_bootstrap_platform_prefix() + + # construct full libpath + libpath <- file.path(root, prefix) + + # run bootstrap code + renv_bootstrap_exec(project, libpath, version) + + invisible() + +}) diff --git a/apps/iatlas/app/renv/settings.dcf b/apps/iatlas/app/renv/settings.dcf new file mode 100644 index 0000000000..16670bc3ed --- /dev/null +++ b/apps/iatlas/app/renv/settings.dcf @@ -0,0 +1,10 @@ +bioconductor.version: 3.15 +external.libraries: +ignored.packages: +package.dependency.fields: Imports, Depends, LinkingTo +r.version: +snapshot.type: implicit +use.cache: TRUE +vcs.ignore.cellar: TRUE +vcs.ignore.library: TRUE +vcs.ignore.local: TRUE diff --git a/apps/iatlas/app/renv/settings.json b/apps/iatlas/app/renv/settings.json new file mode 100644 index 0000000000..b70deb09d2 --- /dev/null +++ b/apps/iatlas/app/renv/settings.json @@ -0,0 +1,19 @@ +{ + "bioconductor.version": "3.15", + "external.libraries": [], + "ignored.packages": [], + "package.dependency.fields": [ + "Imports", + "Depends", + "LinkingTo" + ], + "ppm.enabled": null, + "ppm.ignored.urls": [], + "r.version": [], + "snapshot.type": "implicit", + "use.cache": true, + "vcs.ignore.cellar": true, + "vcs.ignore.library": true, + "vcs.ignore.local": true, + "vcs.manage.ignores": true +} diff --git a/apps/iatlas/app/server.R b/apps/iatlas/app/server.R new file mode 100644 index 0000000000..1d498be742 --- /dev/null +++ b/apps/iatlas/app/server.R @@ -0,0 +1,110 @@ +################################################################################ +# Options, default settings, and load packages +################################################################################ +# By default, the file size limit is 5MB. It can be changed by +# setting this option. Here we'll raise limit to 9MB. +options(shiny.maxRequestSize = 100 * 1024^2) +options(shiny.usecairo = FALSE) + +library(magrittr) + +modules_tbl <- MODULES_TBL %>% + dplyr::mutate( + "server_function" = purrr::map(.data$server_function_string, get), + ) + +ici_modules_tbl <- dplyr::filter(modules_tbl, .data$type == "ici") +cg_modules_tbl <- dplyr::filter(modules_tbl, .data$type == "cg") +sc_modules_tbl <- dplyr::filter(modules_tbl, .data$type == "scRNA") +tool_modules_tbl <- dplyr::filter(modules_tbl, .data$type == "tool") + + + + +################################################################################ +# Begin Shiny Server definition. +################################################################################ +shiny::shinyServer(function(input, output, session) { + + shiny::observe({ + query <- shiny::parseQueryString(session$clientData$url_search) + if (!is.null(query[['module']])) { + shinydashboard::updateTabItems( + session, + "explorertabs", + query[['module']] + ) + } +}) + # ICI Modules ---------------------------------------------------------- + + ici_cohort_obj <- call_iatlas_module( + "ici_cohort_selection", + iatlas.modules2::cohort_selection_server, + input, + session, + default_datasets = shiny::reactive(c("Gide_Cell_2019", "HugoLo_IPRES_2016")), + default_group = shiny::reactive("Responder"), + dataset_type = shiny::reactive("ici"), + display_module_availibility_string = shiny::reactive(F) + ) + + ici_modules_tbl %>% + dplyr::select("name", "server_function") %>% + purrr::pwalk(iatlas.app::call_iatlas_module, input, session, ici_cohort_obj) + + # CG Modules ---------------------------------------------------------- + + cg_cohort_obj <- call_iatlas_module( + "cg_cohort_selection", + iatlas.modules2::cohort_selection_server, + input, + session + ) + + cg_modules_tbl %>% + dplyr::select("name", "server_function") %>% + purrr::pwalk(iatlas.app::call_iatlas_module, input, session, cg_cohort_obj) + + # Tool Modules -------------------------------------------------------------- + + tool_modules_tbl %>% + dplyr::select("name", "server_function") %>% + purrr::pwalk(iatlas.app::call_iatlas_module, input, session) + + # Single cell Modules -------------------------------------------------------------- + + sc_cohort_obj <- call_iatlas_module( + "sc_cohort_selection", + iatlas.modules2::cohort_selection_server, + input, + session, + default_datasets = shiny::reactive(c("MSK", "Vanderbilt")), + default_group = shiny::reactive("Responder"), + dataset_type = shiny::reactive("scrna"), + display_module_availibility_string = shiny::reactive(F) + ) + + sc_modules_tbl %>% + dplyr::select("name", "server_function") %>% + purrr::pwalk(iatlas.app::call_iatlas_module, input, session, sc_cohort_obj) + + # Other --------------------------------------------------------------------- + + call_iatlas_module( + "ici_overview", + ici_overview_server, + input, + session + ) + + call_iatlas_module( + "data_info", + data_info_server, + input, + session + ) + +}) + + diff --git a/apps/iatlas/app/tests/testthat.R b/apps/iatlas/app/tests/testthat.R new file mode 100644 index 0000000000..47a508316b --- /dev/null +++ b/apps/iatlas/app/tests/testthat.R @@ -0,0 +1,4 @@ +library(testthat) +library(iatlas.app) + +test_check("iatlas.app") diff --git a/apps/iatlas/app/tests/testthat/helper-globals.R b/apps/iatlas/app/tests/testthat/helper-globals.R new file mode 100644 index 0000000000..a2a6a3019a --- /dev/null +++ b/apps/iatlas/app/tests/testthat/helper-globals.R @@ -0,0 +1,59 @@ +get_tcga_samples_tbl <- memoise::memoise( + function(){ + iatlasGraphQLClient::query_cohort_samples(cohorts = "TCGA") + } +) + +get_tcga_study_samples_tbl <- memoise::memoise( + function(){ + iatlasGraphQLClient::query_cohort_samples(cohorts = "TCGA_TCGA_Study") + } +) + +get_tcga_samples <- memoise::memoise( + function(){ + get_tcga_samples_tbl()$sample_name + } +) + +get_tcga_samples_50 <- memoise::memoise( + function(){ + get_tcga_samples()[1:50] + } +) + +get_tcga_features_tbl <- memoise::memoise( + function(){ + iatlasGraphQLClient::query_features(cohorts = "TCGA") + } +) + +get_pcawg_samples_tbl <- memoise::memoise( + function(){ + iatlasGraphQLClient::query_cohort_samples(cohorts = "PCAWG") + } +) + +get_pcawg_study_samples_tbl <- memoise::memoise( + function(){ + iatlasGraphQLClient::query_cohort_samples(cohorts = "PCAWG_PCAWG_Study") + } +) + +get_pcawg_samples <- memoise::memoise( + function(){ + get_pcawg_samples_tbl()$sample_name + } +) + +get_pcawg_samples_50 <- memoise::memoise( + function(){ + get_pcawg_samples()[1:50] + } +) + +get_pcawg_features_tbl <- memoise::memoise( + function(){ + iatlasGraphQLClient::query_features(cohorts = "PCAWG") + } +) diff --git a/apps/iatlas/app/tests/testthat/test-call_module_server.R b/apps/iatlas/app/tests/testthat/test-call_module_server.R new file mode 100644 index 0000000000..f0da314836 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-call_module_server.R @@ -0,0 +1,39 @@ + + +test_that("module isn't shown", { + shiny::testServer( + app = call_module_server, + args = list( + "cohort_obj" = shiny::reactiveVal(iatlas.modules2::pcawg_immune_subtype_cohort_obj), + "server_function" = tumor_microenvironment_cell_proportions_server, + "ui_function" = tumor_microenvironment_cell_proportions_ui, + "test_function" = shiny::reactiveVal( + function(cohort_obj) { + cohort_obj$has_features("leukocyte_fraction") + } + ) + ), + expr = { + expect_false(display_module()) + expect_type(output$ui, "list") + } + ) +}) + +test_that("module is shown", { + shiny::testServer( + app = call_module_server, + args = list( + "cohort_obj" = shiny::reactiveVal(iatlas.modules2::pcawg_immune_subtype_cohort_obj), + "server_function" = tumor_microenvironment_type_fractions_server, + "ui_function" = tumor_microenvironment_type_fractions_ui, + "test_function" = shiny::reactiveVal(function(cohort_obj) { + cohort_obj$has_features("age_at_diagnosis") + }) + ), + expr = { + expect_true(display_module()) + expect_type(output$ui, "list") + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-cellimage_functions.R b/apps/iatlas/app/tests/testthat/test-cellimage_functions.R new file mode 100644 index 0000000000..8849056e25 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-cellimage_functions.R @@ -0,0 +1,3 @@ +test_that("multiplication works", { + expect_equal(2 * 2, 4) +}) diff --git a/apps/iatlas/app/tests/testthat/test-cellimage_main_server.R b/apps/iatlas/app/tests/testthat/test-cellimage_main_server.R new file mode 100644 index 0000000000..640c319f08 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-cellimage_main_server.R @@ -0,0 +1,15 @@ +test_that("cellimage_main_server", { + shiny::testServer( + cellimage_main_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj + ) + ), + { + expect_equal(cohort_groups(), c("C1", "C2", "C3", "C4", "C5", "C6")) + expect_type(output$select_group1_ui , "list") + expect_type(output$select_group2_ui , "list") + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-cellimage_main_ui.R b/apps/iatlas/app/tests/testthat/test-cellimage_main_ui.R new file mode 100644 index 0000000000..7b760a3f1d --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-cellimage_main_ui.R @@ -0,0 +1,3 @@ +test_that("cellimage_main_ui", { + expect_type(cellimage_main_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-cellimage_network_server.R b/apps/iatlas/app/tests/testthat/test-cellimage_network_server.R new file mode 100644 index 0000000000..60c1f5e11c --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-cellimage_network_server.R @@ -0,0 +1,87 @@ +test_that("cellimage_network_server_tcga", { + shiny::testServer( + cellimage_network_server, + args = list( + "dataset" = shiny::reactiveVal("TCGA"), + "tag" = shiny::reactiveVal("C1") + ), + { + expect_named( + feature_nodes(), + c( + "node_name", + "node_feature_name", + "node_feature_display", + "tag", + "x", + "y", + "score", + "Type" + ) + ) + expect_named( + gene_nodes(), + c( + "node_name", + "node_feature_name", + "node_feature_display", + "tag", + "x", + "y", + "score", + "Type" + ) + ) + expect_named( + edges(), + c("node_display1", "node_display2", "node1", "node2", "tag") + ) + expect_type(graph_json(), "character") + expect_type(output$network, "character") + } + ) +}) + +test_that("cellimage_network_server_pcawg", { + shiny::testServer( + cellimage_network_server, + args = list( + "dataset" = shiny::reactiveVal("PCAWG"), + "tag" = shiny::reactiveVal("C1") + ), + { + expect_named( + feature_nodes(), + c( + "node_name", + "node_feature_name", + "node_feature_display", + "tag", + "x", + "y", + "score", + "Type" + ) + ) + expect_named( + gene_nodes(), + c( + "node_name", + "node_feature_name", + "node_feature_display", + "tag", + "x", + "y", + "score", + "Type" + ) + ) + expect_named( + edges(), + c("node_display1", "node_display2", "node1", "node2", "tag") + ) + expect_type(graph_json(), "character") + expect_type(output$network, "character") + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-cellimage_network_ui.R b/apps/iatlas/app/tests/testthat/test-cellimage_network_ui.R new file mode 100644 index 0000000000..ba9fdd06bd --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-cellimage_network_ui.R @@ -0,0 +1,3 @@ +test_that("cellimage_network_ui", { + expect_type(cellimage_network_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-cellimage_plot_server.R b/apps/iatlas/app/tests/testthat/test-cellimage_plot_server.R new file mode 100644 index 0000000000..b3dff22901 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-cellimage_plot_server.R @@ -0,0 +1,78 @@ +test_that("cellimage_plot_server_tcga", { + shiny::testServer( + cellimage_plot_server, + args = list( + "dataset" = shiny::reactiveVal("TCGA"), + "tag" = shiny::reactiveVal("C1") + ), + { + expect_named( + feature_nodes(), + c( + "node_name", + "node_feature_name", + "node_feature_display", + "tag", + "x", + "y", + "score", + "Type" + ) + ) + expect_named( + gene_nodes(), + c( + "node_name", + "node_feature_name", + "node_feature_display", + "tag", + "x", + "y", + "score", + "Type" + ) + ) + expect_type(plot_obj(), "list") + expect_type(output$plot, "list") + } + ) +}) + +test_that("cellimage_plot_server_pcawg", { + shiny::testServer( + cellimage_plot_server, + args = list( + "dataset" = shiny::reactiveVal("PCAWG"), + "tag" = shiny::reactiveVal("C1") + ), + { + expect_named( + feature_nodes(), + c( + "node_name", + "node_feature_name", + "node_feature_display", + "tag", + "x", + "y", + "score", + "Type" + ) + ) + expect_named( + gene_nodes(), + c( + "node_name", + "node_feature_name", + "node_feature_display", + "tag", + "x", + "y", + "score", + "Type" + ) + ) + expect_type(plot_obj(), "list") + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-cellimage_plot_ui.R b/apps/iatlas/app/tests/testthat/test-cellimage_plot_ui.R new file mode 100644 index 0000000000..71ead5ef2e --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-cellimage_plot_ui.R @@ -0,0 +1,3 @@ +test_that("cellimage_plot_ui", { + expect_type(cellimage_plot_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-cellimage_server.R b/apps/iatlas/app/tests/testthat/test-cellimage_server.R new file mode 100644 index 0000000000..7a49db69ae --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-cellimage_server.R @@ -0,0 +1,31 @@ +test_that("cellimage_server_tcga", { + shiny::testServer( + cellimage_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj + ) + ), + { + expect_true(shiny::is.reactive(show_submodule)) + expect_type(show_submodule(), "closure") + expect_true(show_submodule()(cohort_obj())) + } + ) +}) + +test_that("cellimage_server_tpcawg", { + shiny::testServer( + cellimage_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::pcawg_immune_subtype_cohort_obj + ) + ), + { + expect_true(shiny::is.reactive(show_submodule)) + expect_type(show_submodule(), "closure") + expect_true(show_submodule()(cohort_obj())) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-cellimage_ui.R b/apps/iatlas/app/tests/testthat/test-cellimage_ui.R new file mode 100644 index 0000000000..804f40aaf6 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-cellimage_ui.R @@ -0,0 +1,3 @@ +test_that("cellimage_ui", { + expect_type(cellimage_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-clinical_outcomes_functions.R b/apps/iatlas/app/tests/testthat/test-clinical_outcomes_functions.R new file mode 100644 index 0000000000..306ed0c28d --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-clinical_outcomes_functions.R @@ -0,0 +1,82 @@ + +test_that("build_co_survival_list", { + res1 <- build_co_survival_list(iatlas.modules2::tcga_immune_subtype_cohort_obj_small$feature_tbl) + expect_named(res1) + expect_vector(res1) + res2 <- build_co_survival_list(iatlas.modules2::tcga_bin_cohort_obj_small$feature_tbl) + expect_named(res2) + expect_vector(res2) +}) + +test_that("get_co_status_feature", { + expect_equal(get_co_status_feature("PFI_time_1"), "PFI_1") + expect_equal(get_co_status_feature("OS_time"), "OS") + expect_error(get_co_status_feature("not_a_feature"), "Unknown time feature") +}) + +survival_tbl1 <- build_co_survival_value_tbl(iatlas.modules2::tcga_immune_subtype_cohort_obj_small, "OS_time", "OS") +survival_tbl2 <- build_co_survival_value_tbl(iatlas.modules2::tcga_bin_cohort_obj_small, "OS_time", "OS") + +test_that("Build Survival Values Tibble", { + expect_named(survival_tbl1, c("sample", "group", "time", "status")) + expect_named(survival_tbl2, c("sample", "group", "time", "status")) +}) + +feature_tbl1 <- build_co_feature_tbl( + iatlas.modules2::tcga_immune_subtype_cohort_obj_small, "DNA Alteration" +) +feature_tbl2 <- build_co_feature_tbl( + iatlas.modules2::tcga_bin_cohort_obj_small, "DNA Alteration" +) + +test_that("build_co_feature_tbl", { + expected_columns <- c( + "sample", + "feature_display", + "feature_value", + "feature_order" + ) + expect_named(feature_tbl1, expected_columns) + expect_named(feature_tbl2, expected_columns) +}) + +heatmap_tbl1 <- build_co_heatmap_tbl(survival_tbl1, feature_tbl1) +heatmap_tbl2 <- build_co_heatmap_tbl(survival_tbl2, feature_tbl2) + +test_that("build_co_heatmap_tbl", { + expected_columns <- c( + "sample", + "group", + "time", + "status", + "feature_display", + "feature_value", + "feature_order" + ) + expect_named(heatmap_tbl1, expected_columns) + expect_named(heatmap_tbl2, expected_columns) +}) + +heatmap_matrix1 <- build_co_heatmap_matrix(heatmap_tbl1) + +test_that("Build Heatmap Matrix", { + expect_type(heatmap_matrix1, "double") + expected_rownames <- c( + "Nonsilent Mutation Rate", + "SNV Neoantigen", + "Indel Neoantigen", + "Intratumor Heterogeneity", + "Aneuploidy Score", + "Number of Segments", + "Fraction Altered", + "Homologous Recombination Deficiency", + "Number of Segments with LOH", + "Fraction of Segments with LOH", + "Silent Mutation Rate" + ) + expect_equal(rownames(heatmap_matrix1), expected_rownames) + + expected_colnames <- c("C4", "C5", "C6") + expect_equal(colnames(heatmap_matrix1), expected_colnames) +}) + diff --git a/apps/iatlas/app/tests/testthat/test-clinical_outcomes_heatmap_server.R b/apps/iatlas/app/tests/testthat/test-clinical_outcomes_heatmap_server.R new file mode 100644 index 0000000000..7c638508c2 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-clinical_outcomes_heatmap_server.R @@ -0,0 +1,40 @@ +test_that("clinical_outcomes_heatmap_server", { + shiny::testServer( + clinical_outcomes_heatmap_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj_small + ) + ), + { + session$setInputs("time_feature_choice" = "OS_time") + session$setInputs("class_choice" = "DNA Alteration") + session$setInputs("mock_event_data" = data.frame( + "x" = "C1", "y" = "Silent Mutation Rate" + )) + + expect_type(output$class_selection_ui, "list") + expect_type(output$time_feature_selection_ui, "list") + + expect_type(heatmap_tbl(), "list") + expect_named( + heatmap_tbl(), + c( + 'sample', + 'group', + 'time', + 'status', + 'feature_display', + 'feature_value', + 'feature_order' + ) + ) + + expect_type(output$heatmap, "character") + expect_type(heatmap_eventdata(), "list") + expect_named(heatmap_eventdata(), c("x", "y")) + expect_type(group_data(), "list") + expect_named(group_data(), c("group", "description")) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-clinical_outcomes_server.R b/apps/iatlas/app/tests/testthat/test-clinical_outcomes_server.R new file mode 100644 index 0000000000..8bd621c44a --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-clinical_outcomes_server.R @@ -0,0 +1,13 @@ +test_that("clinical_outcomes_server", { + shiny::testServer( + clinical_outcomes_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj_small + ) + ), + { + expect_true(T) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-clinical_outcomes_survival_server.R b/apps/iatlas/app/tests/testthat/test-clinical_outcomes_survival_server.R new file mode 100644 index 0000000000..db062543ff --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-clinical_outcomes_survival_server.R @@ -0,0 +1,18 @@ +# test_that("clinical_outcomes_survival_server", { +# shiny::testServer( +# clinical_outcomes_survival_server, +# args = list( +# "cohort_obj" = shiny::reactiveVal( +# iatlas.modules2::tcga_immune_subtype_cohort_obj_small +# ) +# ), +# { +# session$setInputs("time_feature_choice" = "OS_time") +# session$setInputs("class_choice" = "DNA Alteration") +# session$setInputs("risktable" = T) +# session$setInputs("confint" = F) +# expect_type(output$time_feature_selection_ui, "list") +# expect_type(output$survival_plot, "list") +# } +# ) +# }) diff --git a/apps/iatlas/app/tests/testthat/test-clinical_outcomes_survival_ui.R b/apps/iatlas/app/tests/testthat/test-clinical_outcomes_survival_ui.R new file mode 100644 index 0000000000..1efe3a7f28 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-clinical_outcomes_survival_ui.R @@ -0,0 +1,3 @@ +test_that("clinical_outcomes_survival_ui", { + expect_type(clinical_outcomes_survival_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-clinical_outcomes_ui.R b/apps/iatlas/app/tests/testthat/test-clinical_outcomes_ui.R new file mode 100644 index 0000000000..4edd33d5c2 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-clinical_outcomes_ui.R @@ -0,0 +1,3 @@ +test_that("clinical_outcomes_ui", { + expect_type(clinical_outcomes_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-copy_number_functions.R b/apps/iatlas/app/tests/testthat/test-copy_number_functions.R new file mode 100644 index 0000000000..f1954a81e5 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-copy_number_functions.R @@ -0,0 +1,83 @@ + +group_tbl <- iatlasGraphQLClient::query_tags( + cohorts = "TCGA", + parent_tags = "Immune_Subtype" +) %>% + dplyr::select("display" = "tag_short_display", "name" = "tag_name") + +gene_tbl <- iatlasGraphQLClient::query_genes(entrez = 1:300) %>% + dplyr::select("entrez", "hgnc") + +im_gene_tbl <- + iatlasGraphQLClient::query_genes(gene_types = "immunomodulator") %>% + dplyr::select("entrez", "hgnc") + +gene_set_tbl <- iatlasGraphQLClient::query_gene_types() + +result_tbl<- iatlasGraphQLClient::query_copy_number_results( + datasets = "TCGA", + tags = c("C1", "C2"), + entrez = 1:2, + features = "AS" +) + +test_that("build_cnv_group_list", { + result <- build_cnv_group_list(group_tbl) + items <- c("All", "C1", "C2", "C3", "C4", "C5", "C6") + expect_equal( + result, + purrr::set_names(items, items) + ) +}) + +test_that("build_cnv_gene_list", { + result <- build_cnv_gene_list(gene_set_tbl, gene_tbl) + expect_named(result, c("All Genes", "Gene Sets", "Genes")) +}) + +test_that("get_cnv_entrez_query_from_filters", { + + result1 <- get_cnv_entrez_query_from_filters("All", gene_set_tbl, gene_tbl) + expect_equal(result1, gene_tbl$entrez) + + result2 <- get_cnv_entrez_query_from_filters( + c("All", "immunomodulators"), gene_set_tbl, gene_tbl + ) + + expect_equal(result2, gene_tbl$entrez) + + result3 <- get_cnv_entrez_query_from_filters( + "immunomodulator", gene_set_tbl, gene_tbl + ) + expect_type(result3, "integer") + expect_length(result3, 78) + + result4 <- get_cnv_entrez_query_from_filters( + c("10148", "6346", "4940", "27074", "29880"), gene_set_tbl, gene_tbl + ) + expect_equal(result4, c(10148, 6346, 4940, 27074, 29880)) +}) + +test_that("create_cnv_results_string", { + result <- create_cnv_results_string(result_tbl) + expect_equal(result, "Total number of rows: 8, Number of genes: 2") +}) + +test_that("build_cnv_dt_tbl", { + result <- build_cnv_dt_tbl(result_tbl) + expect_named( + result, + c( + "Metric", + "Group", + "Gene", + "Direction", + "Mean Normal", + "Mean CNV", + "Mean Diff", + "T stat", + "Neg log10 pvalue" + ) + ) +}) + diff --git a/apps/iatlas/app/tests/testthat/test-copy_number_response_server.R b/apps/iatlas/app/tests/testthat/test-copy_number_response_server.R new file mode 100644 index 0000000000..2ef88b52b8 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-copy_number_response_server.R @@ -0,0 +1,52 @@ + +test_that("copy_number_response_server", { + shiny::testServer( + copy_number_response_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj_small + ) + ), + { + expect_type(feature_class_list(), "list") + expect_type(output$response_option_ui, "list") + expect_type(group_tbl(), "list") + expect_equal(nrow(group_tbl()), 6) + expect_named(group_tbl(), c("display", "name")) + expect_type(group_choice_list(), "character") + expect_length(group_choice_list(), 7) + expect_type(output$select_cn_group_ui, "list") + expect_type(gene_tbl(), "list") + expect_type(gene_set_tbl(), "list") + expect_type(gene_choice_list(), "list") + expect_type(output$select_cn_gene_ui, "list") + + session$setInputs("gene_filter_choices" = "All") + session$setInputs("group_choices" = "All") + session$setInputs("cn_dir_point_filter" = "All") + session$setInputs("response_variable" = "leukocyte_fraction") + + expect_type(gene_entrez_query(), "integer") + expect_true(length(gene_entrez_query()) > 1) + expect_equal(groups(), c("C1", "C2", "C3", "C4", "C5", "C6")) + expect_equal(direction_query(), NA) + + expect_type(result_tbl(), "list") + expect_type(output$text, "character") + expect_type(output$cnvPlot, "character") + expect_type(data_table(), "list") + expect_type(output$cnvtable, "character") + + session$setInputs("gene_filter_choices" = 1) + session$setInputs("group_choices" = "C1") + session$setInputs("cn_dir_point_filter" = 'Amp') + + expect_type(gene_entrez_query(), "integer") + expect_equal(gene_entrez_query(), 1) + expect_equal(groups(), "C1") + expect_equal(direction_query(), 'Amp') + + expect_error(result_tbl()) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-copy_number_response_ui.R b/apps/iatlas/app/tests/testthat/test-copy_number_response_ui.R new file mode 100644 index 0000000000..c77a685a94 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-copy_number_response_ui.R @@ -0,0 +1,3 @@ +test_that("copy_number_response_ui", { + expect_type(copy_number_response_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-copy_number_server.R b/apps/iatlas/app/tests/testthat/test-copy_number_server.R new file mode 100644 index 0000000000..b17b6cf0ca --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-copy_number_server.R @@ -0,0 +1,15 @@ +test_that("copy_number_server", { + shiny::testServer( + copy_number_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj + ) + ), + { + expect_true(shiny::is.reactive(show_submodule)) + expect_type(show_submodule(), "closure") + expect_true(show_submodule()(cohort_obj())) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-copy_number_ui.R b/apps/iatlas/app/tests/testthat/test-copy_number_ui.R new file mode 100644 index 0000000000..50e0432322 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-copy_number_ui.R @@ -0,0 +1,3 @@ +test_that("copy_number_ui", { + expect_type(copy_number_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-data_info_functions.R b/apps/iatlas/app/tests/testthat/test-data_info_functions.R new file mode 100644 index 0000000000..5ba1d581a1 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-data_info_functions.R @@ -0,0 +1,30 @@ +test_that("Format Feature Tibble", { + result1 <- format_feature_tbl(dplyr::tibble( + display = "", unit = "", class = "" + )) + expect_named(result1, c("Feature Name", "Variable Class", "Unit")) +}) + +test_that("Filter Feature Tibble", { + tbl <- dplyr::tibble(class = c("class1", "class1", "class2")) + result1 <- filter_feature_tbl(tbl, 1L) + result2 <- filter_feature_tbl(tbl, 2L) + result3 <- filter_feature_tbl(tbl, 3L) + expect_named(result1, "class") + expect_named(result2, "class") + expect_named(result3, "class") + expect_equal(result1$class, c("class1", "class1")) + expect_equal(result2$class, c("class1", "class1")) + expect_equal(result3$class, "class2") +}) + +test_that("Format Filtered Feature Tibble", { + result1 <- format_filtered_feature_tbl(dplyr::tibble( + display = "", unit = "", method_tag = "", order = 1 + )) + expect_named( + result1, + c("Variable Class Order", "Feature Name", "Unit", "Methods Tag") + ) +}) + diff --git a/apps/iatlas/app/tests/testthat/test-data_info_server.R b/apps/iatlas/app/tests/testthat/test-data_info_server.R new file mode 100644 index 0000000000..8f2a1adace --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-data_info_server.R @@ -0,0 +1,15 @@ +test_that("data_info_server", { + shiny::testServer( + data_info_server, + { + expect_type(class_list(), "character") + expect_type(output$classes, "list") + session$setInputs("class_choice" = "DNA Alteration") + expect_type(feature_tbl(), "list") + session$setInputs("class_choice" = "All classes") + expect_type(feature_tbl(), "list") + session$setInputs("feature_table_rows_selected" = 1L) + expect_type(filtered_feature_tbl(), "list") + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-data_table_server.R b/apps/iatlas/app/tests/testthat/test-data_table_server.R new file mode 100644 index 0000000000..9c8e8a0d6f --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-data_table_server.R @@ -0,0 +1,14 @@ +tbl <- shiny::reactiveVal( + dplyr::tibble("x" = c("C1", "C2", "C3"), y = c(1:3)) +) + +test_that("module_works", { + shiny::testServer( + data_table_server, + args = list("tbl" = tbl, color = T), + { + expect_type(output$download_table, "character") + expect_type(output$download_table, "character") + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-driver_associations_server.R b/apps/iatlas/app/tests/testthat/test-driver_associations_server.R new file mode 100644 index 0000000000..85d1528765 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-driver_associations_server.R @@ -0,0 +1,15 @@ +test_that("driver_associations_server", { + shiny::testServer( + driver_associations_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj + ) + ), + { + expect_true(shiny::is.reactive(show_submodule)) + expect_type(show_submodule(), "closure") + expect_true(show_submodule()(cohort_obj())) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-driver_associations_ui.R b/apps/iatlas/app/tests/testthat/test-driver_associations_ui.R new file mode 100644 index 0000000000..242e139f95 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-driver_associations_ui.R @@ -0,0 +1,3 @@ +test_that("driver_associations_ui", { + expect_type(driver_associations_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-extracellular_network_functions.R b/apps/iatlas/app/tests/testthat/test-extracellular_network_functions.R new file mode 100644 index 0000000000..ceb6629375 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-extracellular_network_functions.R @@ -0,0 +1,51 @@ + +test_that("build_ecn_gene_choice_list", { + result <- build_ecn_gene_choice_list() + expect_named(result, c("Genesets", "Genes")) + expect_named( + result$Genesets, + c("Extracellular Network Genes", "Immunomodulator Genes") + ) + expect_named(result$Genes) + expect_true(length(result$Genes) > 0) +}) + +test_that("build_ecn_celltype_choice_list", { + result <- build_ecn_celltype_choice_list() + expect_named(result) + expect_true(result[[1]] == "All") + expect_true(names(result)[[1]] == "All") +}) + +test_that("get_selected_gene_ids", { + gene_list1 <- list() + gene_list2 <- list("geneset:immunomodulator") + gene_list3 <- list("gene:1") + gene_list4 <- list("geneset:immunomodulator", "gene:1") + gene_list5 <- list("geneset:extracellular_network") + result1 <- get_selected_gene_ids(gene_list1) + result2 <- get_selected_gene_ids(gene_list2) + result3 <- get_selected_gene_ids(gene_list3) + result4 <- get_selected_gene_ids(gene_list4) + result5 <- get_selected_gene_ids(gene_list5) + expect_null(result1) + expect_length (result2, 78) + expect_equal(result3, 1) + expect_length(result4, 79) + expect_true(length(result5) > 0) +}) + +test_that("get_selected_celltypes", { + list1 <- list() + list2 <- list("All") + list3 <- list("cell1") + list4 <- list("All", "cell1") + result1 <- get_selected_celltypes(list1) + result2 <- get_selected_celltypes(list2) + result3 <- get_selected_celltypes(list3) + result4 <- get_selected_celltypes(list4) + expect_null(result1) + expect_length (result2, 9) + expect_equal(result3, "cell1") + expect_length(result4, 9) +}) diff --git a/apps/iatlas/app/tests/testthat/test-extracellular_network_main_server.R b/apps/iatlas/app/tests/testthat/test-extracellular_network_main_server.R new file mode 100644 index 0000000000..545d48ba42 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-extracellular_network_main_server.R @@ -0,0 +1,242 @@ +test_that("extracellular_network_main_server_immune_subtype", { + shiny::testServer( + extracellular_network_main_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj + ) + ), + { + session$setInputs("group_selected" = "C1") + session$setInputs("selected_genes" = "gene:2") + session$setInputs("selected_celltypes" = "All") + session$setInputs("abundance" = 0) + session$setInputs("concordance" = 0) + session$setInputs("calculate_button" = 1) + session$setInputs("do_layout" = "cose") + + + expect_false(show_stratify_option()) + expect_false(stratify()) + expect_type(gene_choice_list(), "list") + expect_equal(group_choices(), c("C1", "C2", "C3", "C4", "C5", "C6")) + + expect_type(output$select_groups_ui, "list") + expect_type(output$select_style, "list") + expect_type(output$select_celltypes, "list") + + expect_equal(selected_genes(), 2) + expect_type(selected_celltypes(), "character") + + expect_type(gene_nodes(), "list") + expect_equal(nrow(gene_nodes()), 1) + expect_type(feature_nodes(), "list") + expect_equal(nrow(feature_nodes()), 9) + expect_type(nodes(), "list") + expect_equal(nrow(nodes()), 10) + expect_named( + nodes(), + c( + "label", "node_name", "node_display", "node_friendly", "tag", "score" + ) + ) + + expect_type(edges(), "list") + expect_equal(nrow(edges()), 1) + + expect_type(output$select_node_ui, "list") + expect_type(graph_json(), "character") + expect_type(output$cyjShiny, "character") + } + ) +}) + +test_that("extracellular_network_main_server_tcga_study_no_results", { + shiny::testServer( + extracellular_network_main_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_tcga_study_cohort_obj + ) + ), + { + session$setInputs("stratify" = F) + session$setInputs("group_selected" = "BRCA") + session$setInputs("selected_genes" = "gene:2") + session$setInputs("selected_celltypes" = "All") + session$setInputs("abundance" = 100) + session$setInputs("concordance" = 100) + session$setInputs("calculate_button" = 1) + session$setInputs("do_layout" = "cose") + + expect_equal(show_stratify_option(), T) + expect_type(output$stratify_ui, "list") + expect_false(stratify()) + expect_type(output$select_groups_ui, "list") + + expect_type(output$select_style, "list") + expect_type(output$select_celltypes, "list") + + expect_type(gene_choice_list(), "list") + expect_named(gene_choice_list(), c("Genesets", "Genes")) + expect_length(gene_choice_list()$Genesets, 2) + expect_true(length(gene_choice_list()$Genes) > 0) + expect_equal(selected_genes(), 2) + expect_type(selected_celltypes(), "character") + + expect_type(gene_nodes(), "list") + expect_equal(nrow(gene_nodes()), 0) + + expect_type(feature_nodes(), "list") + expect_equal(nrow(feature_nodes()), 0) + expect_equal(nrow(nodes()), 0) + expect_named( + nodes(), + c( + "label", "node_name", "node_display", "node_friendly", "tag", "score" + ) + ) + expect_error( + edges(), + "No network for this selection. Try changing the thresholds or selecting another subset.", + "shiny.silent.error" + ) + } + ) +}) + + + +test_that("extracellular_network_main_server_tcga_study_no_stratification", { + shiny::testServer( + extracellular_network_main_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_tcga_study_cohort_obj + ) + ), + { + session$setInputs("stratify" = F) + session$setInputs("group_selected" = "BRCA") + session$setInputs("selected_genes" = "gene:2") + session$setInputs("selected_celltypes" = "All") + session$setInputs("abundance" = 0) + session$setInputs("concordance" = 0) + session$setInputs("calculate_button" = 2) + session$setInputs("do_layout" = "cose") + + expect_equal(show_stratify_option(), T) + expect_type(output$stratify_ui, "list") + expect_false(stratify()) + expect_type(output$select_groups_ui, "list") + + expect_type(output$select_style, "list") + expect_type(output$select_celltypes, "list") + + expect_equal(selected_genes(), 2) + expect_type(selected_celltypes(), "character") + + expect_type(gene_nodes(), "list") + expect_type(feature_nodes(), "list") + expect_equal(nrow(gene_nodes()), 1) + expect_equal(nrow(feature_nodes()), 9) + + expect_type(edges(), "list") + expect_equal(nrow(edges()), 1) + + expect_type(output$select_node_ui, "list") + expect_type(graph_json(), "character") + + expect_type(output$cyjShiny, "character") + } + ) +}) + +test_that("extracellular_network_main_server_tcga_study_with_stratification", { + shiny::testServer( + extracellular_network_main_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_tcga_study_cohort_obj + ) + ), + { + session$setInputs("stratify" = T) + session$setInputs("group_selected" = "BRCA") + session$setInputs("stratified_group_selected" = c("C1", "C2")) + session$setInputs("selected_genes" = "gene:2") + session$setInputs("abundance" = 0) + session$setInputs("concordance" = 0) + session$setInputs("selected_celltypes" = "All") + session$setInputs("do_layout" = "cose") + + expect_equal(show_stratify_option(), T) + expect_type(output$stratify_ui, "list") + + expect_true(stratify()) + expect_type(output$select_groups_ui, "list") + expect_type(output$select_statify_groups_ui, "list") + expect_type(output$select_style, "list") + expect_type(output$select_celltypes, "list") + + expect_equal(selected_genes(), 2) + expect_type(selected_celltypes(), "character") + + session$setInputs("calculate_button" = 1) + + expect_type(gene_nodes(), "list") + expect_equal(nrow(gene_nodes()), 2) + expect_type(feature_nodes(), "list") + expect_equal(nrow(feature_nodes()), 18) + expect_type(nodes(), "list") + expect_equal(nrow(nodes()), 20) + + expect_type(edges(), "list") + expect_equal(nrow(edges()), 2) + + expect_type(output$select_node_ui, "list") + expect_type(graph_json(), "character") + + expect_type(output$cyjShiny, "character") + } + ) +}) + +test_that("extracellular_network_main_server_pcawg_immune_subtype", { + shiny::testServer( + extracellular_network_main_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::pcawg_immune_subtype_cohort_obj + ) + ), + { + expect_false(show_stratify_option()) + expect_false(stratify()) + expect_type(gene_choice_list(), "list") + expect_type(output$select_groups_ui, "list") + expect_type(output$select_style, "list") + expect_type(output$select_celltypes, "list") + session$setInputs("group_selected" = "C1") + session$setInputs("selected_genes" = "gene:2") + expect_equal(selected_genes(), 2) + session$setInputs("selected_celltypes" = "All") + expect_type(selected_celltypes(), "character") + + session$setInputs("abundance" = 0) + session$setInputs("concordance" = 0) + session$setInputs("calculate_button" = 1) + expect_type(gene_nodes(), "list") + expect_equal(nrow(gene_nodes()), 1) + expect_type(feature_nodes(), "list") + + expect_type(edges(), "list") + expect_equal(nrow(edges()), 1) + + expect_type(output$select_node_ui, "list") + expect_type(graph_json(), "character") + session$setInputs("do_layout" = "cose") + expect_type(output$cyjShiny, "character") + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-extracellular_network_main_ui.R b/apps/iatlas/app/tests/testthat/test-extracellular_network_main_ui.R new file mode 100644 index 0000000000..83bd6e440b --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-extracellular_network_main_ui.R @@ -0,0 +1,3 @@ +test_that("extracellular_network_main_ui", { + expect_type(extracellular_network_main_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-extracellular_network_server.R b/apps/iatlas/app/tests/testthat/test-extracellular_network_server.R new file mode 100644 index 0000000000..431127707a --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-extracellular_network_server.R @@ -0,0 +1,31 @@ +test_that("extracellular_network_server_tcga", { + shiny::testServer( + extracellular_network_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj + ) + ), + { + expect_true(shiny::is.reactive(show_submodule)) + expect_type(show_submodule(), "closure") + expect_true(show_submodule()(cohort_obj())) + } + ) +}) + +test_that("extracellular_network_server_pcawg", { + shiny::testServer( + extracellular_network_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::pcawg_immune_subtype_cohort_obj + ) + ), + { + expect_true(shiny::is.reactive(show_submodule)) + expect_type(show_submodule(), "closure") + expect_true(show_submodule()(cohort_obj())) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-extracellular_network_ui.R b/apps/iatlas/app/tests/testthat/test-extracellular_network_ui.R new file mode 100644 index 0000000000..bbddaa1f84 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-extracellular_network_ui.R @@ -0,0 +1,3 @@ +test_that("extracellular_network_ui", { + expect_type(extracellular_network_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-immune_feature_correlations_server.R b/apps/iatlas/app/tests/testthat/test-immune_feature_correlations_server.R new file mode 100644 index 0000000000..3888e9ded9 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-immune_feature_correlations_server.R @@ -0,0 +1,85 @@ +test_that("immune_feature_correlations_server", { + shiny::testServer( + immune_feature_correlations_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::pcawg_immune_subtype_cohort_obj + ), + "mock_event_data" = shiny::reactive(data.frame( + "curveNumber" = 0, + "pointNumber" = 1, + "x" = "C1", + "y" = "TCR Richness", + "z" = "0.1805093" + )) + ), + { + session$setInputs("heatmap-class_choice" = "Adaptive Receptor - T cell") + session$setInputs("heatmap-response_choice" = "Eosinophils") + session$setInputs("heatmap-summarise_function_choice" = "Spearman") + + feature_sample_data <- feature_sample_data_function()( + "Adaptive Receptor - T cell" + ) + expect_true(tibble::is_tibble(feature_sample_data)) + expect_named( + feature_sample_data, + c( + 'sample_name', + 'group_name', + 'feature_name', + 'feature_display', + 'feature_value', + 'feature_order', + 'dataset_name' + ) + ) + + response_sample_data <- response_sample_data_function()("Eosinophils") + expect_true(tibble::is_tibble(response_sample_data)) + expect_named( + response_sample_data, + c( + "sample_name", + "feature_name", + "feature_value" + ) + ) + + expect_true(tibble::is_tibble(feature_data())) + expect_named( + feature_data(), + c( + "feature_name", + "feature_display", + "feature_class", + "feature_order" + ) + ) + + expect_true(tibble::is_tibble(response_data())) + expect_named( + response_data(), + c( + "feature_name", + "feature_display", + "feature_class" + ) + ) + + + expect_type(feature_sample_data_function(), "closure") + expect_type(summarise_function_list(), "list") + + expect_type(result()$heatmap_data, "list") + expect_named( + result()$heatmap_data, + c('feature_display', 'C1', 'C2', 'C3', 'C4', 'C6') + ) + expect_type(result()$scatterplot_data, "list") + expect_named(result()$scatterplot_data, c("x", "y", "text")) + + + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-immune_feature_correlations_ui.R b/apps/iatlas/app/tests/testthat/test-immune_feature_correlations_ui.R new file mode 100644 index 0000000000..d6bcc066ee --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-immune_feature_correlations_ui.R @@ -0,0 +1,4 @@ +test_that("immune_feature_correlations_ui", { + expect_type(immune_feature_correlations_ui("id"), "list") +}) + diff --git a/apps/iatlas/app/tests/testthat/test-immune_feature_distributions_server.R b/apps/iatlas/app/tests/testthat/test-immune_feature_distributions_server.R new file mode 100644 index 0000000000..a9bcfa326e --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-immune_feature_distributions_server.R @@ -0,0 +1,76 @@ +test_that("immune_feature_distributions_server", { + shiny::testServer( + immune_feature_distributions_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::pcawg_immune_subtype_cohort_obj + ), + "mock_event_data" = shiny::reactive(data.frame( + "curveNumber" = c(0,0), + "pointNumber" = c(0,0), + "x" = "C1", + "y" = c(5.1, 2.1), + "key" = "PCAWG" + )) + ), + { + expect_type(feature_data(), "list") + expect_named( + feature_data(), + c("feature_class", "feature_name", "feature_display") + ) + session$setInputs("distplot-scale_method_choice" = "None") + session$setInputs("distplot-reorder_method_choice" = "None") + session$setInputs("distplot-feature_choice" = "age_at_diagnosis") + session$setInputs("distplot-plot_type_choice" = "Violin") + session$setInputs("distplot-mock_event_data" = data.frame( + "curveNumber" = c(0,0), + "pointNumber" = c(0,0), + "x" = "C1", + "y" = c(5.1, 2.1), + "key" = "C1" + )) + + expect_type(sample_data_function(), "closure") + + plot_data <- sample_data_function()(.feature = feature_data()$feature_name[[1]]) + expect_type(plot_data, "list") + expect_named( + plot_data, + c( + "sample_name", + "group_name", + "feature_name", + "feature_display", + "feature_value", + "feature_order", + "dataset_name" + ) + ) + expect_equal( + unique(plot_data$feature_display), + feature_data()$feature_display[[1]] + ) + + histogram_data <- result()$histogram_data + expect_type(histogram_data, "list") + expect_named(histogram_data, "feature_value") + expect_true(nrow(histogram_data) > 0) + distplot_data <- result()$distplot_data + expect_type(distplot_data, "list") + expect_named( + distplot_data, + c( + 'sample_name', + 'group_display', + 'group_color', + 'group_description', + 'feature_display', + 'feature_value', + 'dataset_display' + ) + ) + expect_true(nrow(distplot_data) > 0) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-immune_features_server.R b/apps/iatlas/app/tests/testthat/test-immune_features_server.R new file mode 100644 index 0000000000..1c369cfb18 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-immune_features_server.R @@ -0,0 +1,13 @@ +test_that("immune_features_server", { + shiny::testServer( + immune_features_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj + ) + ), + { + expect_true(T) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-immune_features_ui.R b/apps/iatlas/app/tests/testthat/test-immune_features_ui.R new file mode 100644 index 0000000000..0a44a7fa29 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-immune_features_ui.R @@ -0,0 +1,3 @@ +test_that("immune_features_ui", { + expect_type(immune_features_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-immune_subtype_classifier_ui.R b/apps/iatlas/app/tests/testthat/test-immune_subtype_classifier_ui.R new file mode 100644 index 0000000000..7c07cb1c0c --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-immune_subtype_classifier_ui.R @@ -0,0 +1,3 @@ +test_that("immune_subtype_classifier_ui", { + expect_type(immune_subtype_classifier_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-immunomodulator_distributions_server.R b/apps/iatlas/app/tests/testthat/test-immunomodulator_distributions_server.R new file mode 100644 index 0000000000..b32c480c19 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-immunomodulator_distributions_server.R @@ -0,0 +1,60 @@ +test_that("immunomodulator_distributions_server", { + shiny::testServer( + immunomodulator_distributions_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::pcawg_immune_subtype_cohort_obj + ), + "mock_event_data" = shiny::reactive(data.frame( + "curveNumber" = c(0,0), + "pointNumber" = c(0,0), + "x" = "C1", + "y" = c(5.1, 2.1), + "key" = "PCAWG" + )) + ), + { + session$setInputs("distplot-feature_choice" = "135") + session$setInputs("distplot-scale_method_choice" = "None") + session$setInputs("distplot-reorder_method_choice" = "None") + session$setInputs("distplot-plot_type_choice" = "Violin") + + expect_type(feature_data(), "list") + expect_named( + feature_data(), + c( + "feature_name", + "feature_display", + "Gene Family", + "Gene Function", + "Immune Checkpoint", + "Super Category" + ) + ) + expect_type(sample_data_function(), "closure") + entrez = as.character(feature_data()$feature_name[[1]]) + + plot_data <- sample_data_function()(.feature = entrez) + expect_type(plot_data, "list") + expect_named( + plot_data, + c( + "sample_name", + "group_name", + "feature_name", + "feature_display", + "feature_value", + "dataset_name" + ) + ) + expect_equal(unique(plot_data$dataset_name), "PCAWG") + expect_true(nrow(plot_data) > 0) + expect_equal( + unique(plot_data$feature_display), + feature_data()$feature_display[[1]] + ) + expect_type(result(), "list") + } + ) +}) + diff --git a/apps/iatlas/app/tests/testthat/test-immunomodulator_distributions_ui.R b/apps/iatlas/app/tests/testthat/test-immunomodulator_distributions_ui.R new file mode 100644 index 0000000000..de94dc80e4 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-immunomodulator_distributions_ui.R @@ -0,0 +1,3 @@ +test_that("immunomodulators_distributions_ui", { + expect_type(immunomodulators_distributions_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-immunomodulators_functions.R b/apps/iatlas/app/tests/testthat/test-immunomodulators_functions.R new file mode 100644 index 0000000000..eeec0d9831 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-immunomodulators_functions.R @@ -0,0 +1,12 @@ + +test_that("Build Immunomodulators Datatable Tibble", { + res1 <- build_im_dt_tbl() + expect_named( + res1, + c("Hugo", "Entrez ID", "Friendly Name", "Gene Family", + "Super Category", "Immune Checkpoint", "Function", + 'Reference(s) [PMID]' + ) + ) +}) + diff --git a/apps/iatlas/app/tests/testthat/test-immunomodulators_server.R b/apps/iatlas/app/tests/testthat/test-immunomodulators_server.R new file mode 100644 index 0000000000..2623c9598b --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-immunomodulators_server.R @@ -0,0 +1,13 @@ +test_that("immunomodulators_server", { + shiny::testServer( + immunomodulators_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::pcawg_immune_subtype_cohort_obj + ) + ), + { + expect_true(T) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-immunomodulators_ui.R b/apps/iatlas/app/tests/testthat/test-immunomodulators_ui.R new file mode 100644 index 0000000000..6ad8e827bd --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-immunomodulators_ui.R @@ -0,0 +1,3 @@ +test_that("immunomodulators_ui", { + expect_type(immunomodulators_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-io_target_distributions_server.R b/apps/iatlas/app/tests/testthat/test-io_target_distributions_server.R new file mode 100644 index 0000000000..e82c2ae7aa --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-io_target_distributions_server.R @@ -0,0 +1,60 @@ +test_that("io_target_distributions_server", { + shiny::testServer( + io_target_distributions_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::pcawg_immune_subtype_cohort_obj + ), + "mock_event_data" = shiny::reactive(data.frame( + "curveNumber" = c(0,0), + "pointNumber" = c(0,0), + "x" = "C1", + "y" = c(5.1, 2.1), + "key" = "PCAWG" + )) + ), + { + session$setInputs("distplot-feature_choice" = "340273") + session$setInputs("distplot-scale_method_choice" = "None") + session$setInputs("distplot-reorder_method_choice" = "None") + session$setInputs("distplot-plot_type_choice" = "Violin") + + expect_true(is.na(url_gene())) + expect_null(default_gene()) + + expect_true(tibble::is_tibble(feature_data())) + expect_named( + feature_data(), + c( + "feature_name", + "feature_display", + "Pathway", + "Therapy Type" + ) + ) + expect_type(sample_data_function(), "closure") + entrez = as.character(feature_data()$feature_name[[1]]) + + sample_data <- sample_data_function()(.feature = entrez) + expect_true(tibble::is_tibble(sample_data)) + expect_named( + sample_data, + c( + "sample_name", + "group_name", + "feature_name", + "feature_display", + "feature_value", + "dataset_name" + ) + ) + expect_true(nrow(sample_data) > 0) + expect_equal( + unique(sample_data$feature_display), + feature_data()$feature_display[[1]] + ) + + expect_type(result(), "list") + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-io_target_functions.R b/apps/iatlas/app/tests/testthat/test-io_target_functions.R new file mode 100644 index 0000000000..732cbbc94d --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-io_target_functions.R @@ -0,0 +1,36 @@ + +test_that("Get Gene From URL", { + expect_equal(get_gene_from_url(list()), NA) + expect_equal(get_gene_from_url(list("gene" = "gene1")), "gene1") +}) + +io_target_tbl <- iatlasGraphQLClient::query_io_targets() + +test_that("Build IO Target Datatable Tibble", { + result <- build_io_target_dt_tbl(io_target_tbl) + expect_named( + result, + c( + "Hugo", + "Entrez ID", + "Friendly Name", + "Pathway", + "Therapy Type", + "Description", + "Link to IO Landscape" + ) + ) +}) + +test_that("Create IO Landscape Links", { + expect_equal( + create_io_landscape_links("CD19"), + stringr::str_c( + "CD19" + ) + ) +}) + diff --git a/apps/iatlas/app/tests/testthat/test-io_targets_ui.R b/apps/iatlas/app/tests/testthat/test-io_targets_ui.R new file mode 100644 index 0000000000..49841812fb --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-io_targets_ui.R @@ -0,0 +1,3 @@ +test_that("io_targets_ui", { + expect_type(io_targets_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-model_selection_functions.R b/apps/iatlas/app/tests/testthat/test-model_selection_functions.R new file mode 100644 index 0000000000..62bc5a5aeb --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-model_selection_functions.R @@ -0,0 +1,126 @@ + +test_that("get_numeric_covariate_ids_from_output", { + input1 <- list( + "element1" = list( + "covariate_choice_id" = 1L, + "transformation_choice" = "None" + ) + ) + input2 <- list( + "element1" = list( + "covariate_choice_id" = 1L, + "transformation_choice" = "None" + ), + "element2" = list( + "covariate_choice_id" = 2L, + "transformation_choice" = "None" + ) + ) + expect_null( + get_items_from_numeric_covariate_output( + NULL, + "covariate_choice_id" + ) + ) + expect_null( + get_items_from_numeric_covariate_output( + NULL, + "transformation_choice" + ) + ) + expect_equal( + get_items_from_numeric_covariate_output( + input1, + "covariate_choice_id" + ), + 1L + ) + expect_equal( + get_items_from_numeric_covariate_output( + input2, + "covariate_choice_id" + ), + c(1L, 2L) + ) + expect_equal( + get_items_from_numeric_covariate_output( + input1, + "transformation_choice" + ), + "None" + ) + expect_equal( + get_items_from_numeric_covariate_output( + input2, + "transformation_choice" + ), + c("None", "None") + ) +}) +test_that("get_names_from_categorical_covariate_output", { + input1 <- list("element1" = "Immune_Subtype") + input2 <- list( + "element1" = "Immune_Subtype", + "element2" = "TCGA_Subtype" + ) + input3 <- list( + "element1" = NULL, + "element2" = "Immune_Subtype", + "element3" = "TCGA_Subtype" + ) + expect_null(get_names_from_categorical_covariate_output(NULL)) + expect_equal( + get_names_from_categorical_covariate_output(input1), + "Immune_Subtype" + ) + expect_equal( + get_names_from_categorical_covariate_output(input2), + c("Immune_Subtype", "TCGA_Subtype") + ) + expect_equal( + get_names_from_categorical_covariate_output(input3), + c("Immune_Subtype", "TCGA_Subtype") + ) +}) + +test_that("create_numerical_covariate_string", { + expect_null( + create_numerical_covariate_string( + NULL, + NULL, + transform_feature_formula + ) + ) + expect_type( + create_numerical_covariate_string( + 1, + "None", + iatlas.modules::transform_feature_formula + ), + "character" + ) + expect_length( + create_numerical_covariate_string( + 1, + "None", + iatlas.modules::transform_feature_formula + ), + 1L + ) +}) + +test_that("create_covariate_string", { + expect_equal( + create_covariate_string("str1", NULL, NULL), + "str1" + ) + expect_equal( + create_covariate_string("str1", "str2", NULL), + "str1 + str2" + ) + expect_equal( + create_covariate_string("str1", "str2", "str3"), + "str1 + str2 + str3" + ) +}) + diff --git a/apps/iatlas/app/tests/testthat/test-model_selection_server.R b/apps/iatlas/app/tests/testthat/test-model_selection_server.R new file mode 100644 index 0000000000..a338b8612e --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-model_selection_server.R @@ -0,0 +1,43 @@ +numerical_covariate_tbl <- iatlasGraphQLClient::query_features() %>% + dplyr::select("class", "display", "feature" = "name") %>% + shiny::reactiveVal() + +categorical_covariate_tbl <- + dplyr::tribble( + ~class, ~display, ~feature, + "Groups", "Immune Subtype", "Immune_Subtype", + "Groups", "TCGA Study", "TCGA_Study", + "Groups", "TCGA Subtype", "TCGA_Subtype" + ) %>% + shiny::reactiveVal() + +test_that("model_selection_server", { + shiny::testServer( + model_selection_server, + args = list( + "numerical_covariate_tbl" = numerical_covariate_tbl, + "categorical_covariate_tbl" = categorical_covariate_tbl, + "model_string_prefix" = shiny::reactiveVal("Feature ~ Status") + ), + { + expect_type(numerical_covariate_list(), "list") + expect_type(numeric_covariate_module(), "closure") + expect_null(numerical_covariates()) + expect_null(numerical_transformations()) + expect_null(numerical_display_string()) + expect_null(numerical_formula_string()) + + expect_type(categorical_covariate_list(), "list") + expect_type(categorical_covariate_module(), "closure") + expect_null(categorical_covariates()) + expect_null(categorical_display_string()) + expect_null(categorical_formula_string()) + + expect_equal(display_string(), "Feature ~ Status") + expect_equal(formula_string(), "response ~ status") + + result <- group_object <- session$getReturned()() + expect_type(result, "list") + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-model_selection_ui.R b/apps/iatlas/app/tests/testthat/test-model_selection_ui.R new file mode 100644 index 0000000000..b16884b490 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-model_selection_ui.R @@ -0,0 +1,3 @@ +test_that("model_selection_ui", { + expect_type(model_selection_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-til_map_datatable_functions.R b/apps/iatlas/app/tests/testthat/test-til_map_datatable_functions.R new file mode 100644 index 0000000000..72fa2f93f8 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-til_map_datatable_functions.R @@ -0,0 +1,48 @@ + + # test_that("Build Tilmap Datatbale Tibble", { + # til_features <- 'TIL Map Characteristic' %>% + # get_class_id_from_name() %>% + # build_feature_value_tbl_from_class_ids %>% + # dplyr::pull(feature) %>% + # unique() + # + # tbl1 <- dplyr::tibble( + # sample_id = 1:10000, + # group = "G1", + # sample_name = paste0("S", 1:10000), + # slide_barcode = paste0("BS", 1:10000), + # ) + # result1 <- build_tm_dt_tbl(tbl1) + # expect_named( + # result1, + # c("Sample", "Selected Group", "Image", til_features) + # ) + # }) + # + # test_that("Create Tilmap Datatbale Tibble Query", { + # expect_equal( + # create_build_tm_dt_tbl_query(), + # paste0( + # "SELECT a.sample_id, a.value, b.display FROM ( ", + # "SELECT feature_id, sample_id, value FROM features_to_samples ", + # "WHERE feature_id IN ( ", + # "SELECT id AS feature FROM features WHERE class_id = ", + # "( SELECT id FROM classes WHERE name = ", + # "'TIL Map Characteristic' ) ) ) a INNER JOIN ", + # "(SELECT id, display from features) b ON a.feature_id = b.id" + # ) + # ) + # }) + # + # test_that("Create Tilmap Slide Link", { + # expect_equal( + # create_tm_slide_link("barcode"), + # paste0( + # "barcode" + # ) + # ) + # }) + diff --git a/apps/iatlas/app/tests/testthat/test-til_map_datatable_server.R b/apps/iatlas/app/tests/testthat/test-til_map_datatable_server.R new file mode 100644 index 0000000000..8755242f5b --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-til_map_datatable_server.R @@ -0,0 +1,26 @@ +test_that("til_map_datatable_server", { + shiny::testServer( + til_map_datatable_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj_small + ) + ), + { + + expect_type(patient_tbl(), "list") + expect_named(patient_tbl(), c("sample_name", "patient_name")) + expect_true(nrow(patient_tbl()) > 0) + + expect_type(slide_tbl(), "list") + expect_named(slide_tbl(), c("patient_name", "slide_name")) + expect_true(nrow(slide_tbl()) > 0) + + expect_type(feature_tbl(), "list") + expect_true(nrow(feature_tbl()) > 0) + + expect_type(tilmap_tbl(), "list") + expect_true(nrow(tilmap_tbl()) > 0) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-til_map_datatable_ui.R b/apps/iatlas/app/tests/testthat/test-til_map_datatable_ui.R new file mode 100644 index 0000000000..ceaccfe6c9 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-til_map_datatable_ui.R @@ -0,0 +1,4 @@ +test_that("til_map_datatable_ui", { + expect_type(til_map_datatable_ui("id"), "list") +}) + diff --git a/apps/iatlas/app/tests/testthat/test-til_map_distributions_server.R b/apps/iatlas/app/tests/testthat/test-til_map_distributions_server.R new file mode 100644 index 0000000000..3590416195 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-til_map_distributions_server.R @@ -0,0 +1,71 @@ +test_that("til_map_distributions_server", { + shiny::testServer( + til_map_distributions_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj_small + ), + "mock_event_data" = shiny::reactive(data.frame( + "curveNumber" = c(0,0), + "pointNumber" = c(0,0), + "x" = "C4", + "y" = c(5.1, 2.1), + "key" = "TCGA" + )) + ), + { + session$setInputs("distplot-scale_method_choice" = "None") + session$setInputs("distplot-reorder_method_choice" = "None") + session$setInputs("distplot-feature_choice" = "Ball_Hall") + session$setInputs("distplot-plot_type_choice" = "Violin") + + + expect_type(feature_data(), "list") + expect_named( + feature_data(), + c("feature_name", "feature_display", "feature_class") + ) + + expect_type(sample_data_function(), "closure") + + plot_data <- sample_data_function()(.feature = "Ball_Hall") + expect_type(plot_data, "list") + expect_named( + plot_data, + c( + "sample_name", + "group_name", + "feature_name", + "feature_display", + "feature_value", + "feature_order", + "dataset_name" + ) + ) + expect_equal( + unique(plot_data$feature_display), + "Ball Hall Index" + ) + + histogram_data <- result()$histogram_data + expect_type(histogram_data, "list") + expect_named(histogram_data, "feature_value") + expect_true(nrow(histogram_data) > 0) + distplot_data <- result()$distplot_data + expect_type(distplot_data, "list") + expect_named( + distplot_data, + c( + 'sample_name', + 'group_display', + 'group_color', + 'group_description', + 'feature_display', + 'feature_value', + 'dataset_display' + ) + ) + expect_true(nrow(distplot_data) > 0) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-til_map_distributions_ui.R b/apps/iatlas/app/tests/testthat/test-til_map_distributions_ui.R new file mode 100644 index 0000000000..10adfa7044 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-til_map_distributions_ui.R @@ -0,0 +1,3 @@ +test_that("til_map_distributions_ui", { + expect_type(til_map_distributions_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-til_map_server.R b/apps/iatlas/app/tests/testthat/test-til_map_server.R new file mode 100644 index 0000000000..76d8f7fca8 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-til_map_server.R @@ -0,0 +1,16 @@ +test_that("til_map_server", { + shiny::testServer( + til_map_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj_small + ) + ), + { + expect_true(shiny::is.reactive(show_submodule)) + expect_type(show_submodule(), "closure") + expect_true(show_submodule()(cohort_obj())) + } + ) +}) + diff --git a/apps/iatlas/app/tests/testthat/test-til_map_ui.R b/apps/iatlas/app/tests/testthat/test-til_map_ui.R new file mode 100644 index 0000000000..f850899d0f --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-til_map_ui.R @@ -0,0 +1,3 @@ +test_that("til_map_ui", { + expect_type(til_map_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-til_maps_functions.R b/apps/iatlas/app/tests/testthat/test-til_maps_functions.R new file mode 100644 index 0000000000..6c52835f9e --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-til_maps_functions.R @@ -0,0 +1,12 @@ + + # test_that("Build Tilmap Sample Tibble", { + # tbl1 <- dplyr::tibble( + # sample_id = 1:10000, + # group = "G1" + # ) + # result1 <- build_tm_sample_tbl(tbl1) + # expect_named( + # result1, + # c("sample_id", "sample_name", "slide_barcode", "group") + # ) + # }) diff --git a/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_cell_proportions_server.R b/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_cell_proportions_server.R new file mode 100644 index 0000000000..3ca589faed --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_cell_proportions_server.R @@ -0,0 +1,42 @@ +test_that("tumor_microenvironment_cell_proportions_server", { + shiny::testServer( + tumor_microenvironment_cell_proportions_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj_small + ), + "mock_event_data" = shiny::reactive(data.frame( + "curveNumber" = 1, + "pointNumber" = 2, + "x" = "C4", + "y" = 6.588, + "key" = "C4" + )) + ), + { + expect_type(sample_data_function(), "closure") + plot_data <- sample_data_function()(NULL) + expect_type(plot_data, "list") + expect_named( + plot_data, + c( + 'sample_name', + 'group_name', + 'feature_name', + 'feature_display', + 'feature_value' + ) + ) + + scatterplot_data <- result()$scatterplot_data + expect_type(scatterplot_data, "list") + expect_named(scatterplot_data, c("x", "y", "text")) + barplot_data <- result()$barplot_data + expect_type(barplot_data, "list") + expect_named( + barplot_data, + c('group_display', 'feature_display', 'text', 'MEAN', 'SE') + ) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_cell_proportions_ui.R b/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_cell_proportions_ui.R new file mode 100644 index 0000000000..a81f553b3f --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_cell_proportions_ui.R @@ -0,0 +1,3 @@ +test_that("tumor_microenvironment_cell_proportions_ui", { + expect_type(tumor_microenvironment_cell_proportions_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_server.R b/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_server.R new file mode 100644 index 0000000000..0d8ca29b3b --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_server.R @@ -0,0 +1,19 @@ +test_that("tumor_microenvironment_server", { + shiny::testServer( + tumor_microenvironment_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::tcga_immune_subtype_cohort_obj_small + ) + ), + { + expect_true(shiny::is.reactive(show_ocp_submodule)) + expect_type(show_ocp_submodule(), "closure") + expect_true(show_ocp_submodule()(cohort_obj())) + + expect_true(shiny::is.reactive(show_ctf_submodule)) + expect_type(show_ctf_submodule(), "closure") + expect_true(show_ctf_submodule()(cohort_obj())) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_type_fractions_server.R b/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_type_fractions_server.R new file mode 100644 index 0000000000..201a1cccde --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_type_fractions_server.R @@ -0,0 +1,48 @@ + +test_that("tumor_microenvironment_type_fractions_server_pcawg", { + shiny::testServer( + tumor_microenvironment_type_fractions_server, + args = list( + "cohort_obj" = shiny::reactiveVal( + iatlas.modules2::pcawg_immune_subtype_cohort_obj + ), + "mock_event_data" = shiny::reactive(data.frame( + "curveNumber" = 1, + "pointNumber" = 2, + "x" = "C4", + "y" = 6.588, + "key" = "C4" + )) + ), + { + session$setInputs( + "barplot-feature_class_choice" = + "Immune Cell Proportion - Common Lymphoid and Myeloid Cell Derivative Class" + ) + + expect_type(sample_data_function(), "closure") + sample_data <- sample_data_function()("Immune Cell Proportion - Original") + expect_true(tibble::is_tibble(sample_data)) + expect_named( + sample_data, + c( + "sample_name", + "group_name", + "feature_name", + "feature_display", + "feature_value" + ) + ) + + scatterplot_data <- result()$scatterplot_data + expect_true(tibble::is_tibble(scatterplot_data)) + expect_named(scatterplot_data, c("x", "y", "text")) + barplot_data <- result()$barplot_data + expect_true(tibble::is_tibble(barplot_data)) + expect_named( + barplot_data, + c('group_display', 'feature_display', 'text', 'MEAN', 'SE') + ) + } + ) +}) diff --git a/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_type_fractions_ui.R b/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_type_fractions_ui.R new file mode 100644 index 0000000000..9a6f49b84b --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_type_fractions_ui.R @@ -0,0 +1,3 @@ +test_that("tumor_microenvironment_type_fractions_ui", { + expect_type(tumor_microenvironment_cell_proportions_ui("id"), "list") +}) diff --git a/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_ui.R b/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_ui.R new file mode 100644 index 0000000000..4101101591 --- /dev/null +++ b/apps/iatlas/app/tests/testthat/test-tumor_microenvironment_ui.R @@ -0,0 +1,3 @@ +test_that("tumor_microenvironment_ui", { + expect_type(tumor_microenvironment_ui("id"), "list") +}) diff --git a/apps/iatlas/app/ui.R b/apps/iatlas/app/ui.R new file mode 100644 index 0000000000..6d87a13e04 --- /dev/null +++ b/apps/iatlas/app/ui.R @@ -0,0 +1,77 @@ +################################################################################ +# Define general header tag list +# List of tags to display as a common header above all tabPanels. +################################################################################ + +headerTagList <- list( + shiny::tags$style( + type = "text/css", + ".navbar .navbar-nav {float: right; font-size: 14px} .navbar .navbar-nav li a {font-size: 14px} .nav-tabs {font-size: 12px}" + ), + shiny::tags$base(target = "_blank") +) + +footerTagList <- list( + shiny::tags$footer( + id = "myFooter", + shiny::includeHTML(get_html_path("footer")) + ) +) + +################################################################################ +# Define the full user-interface, `ui` +################################################################################ + +ui <- shiny::navbarPage( + shiny::includeCSS("css/custom.css"), + shiny::includeCSS("css/footer.css"), + shiny::includeCSS("css/bootstrapTable.min.css"), + title = shiny::strong("CRI iAtlas Portal"), selected = "Explore", + shiny::tabPanel("Explore", explorepage_ui()), #, icon = icon("chart-bar")), + shiny::tabPanel(shiny::HTML("
  • Documentation"), docspage_ui()), #, icon = icon("file-alt")), + shiny::tabPanel(title=shiny::HTML("
  • Notebooks")), #, icon = icon("book-open")), + shiny::tabPanel(title=shiny::HTML("
  • About")), + shiny::tabPanel(title=shiny::HTML("
  • Resources")), + shiny::tabPanel(title=shiny::HTML("
  • Help")), + header = headerTagList, + footer = footerTagList, + collapsible = TRUE, + inverse = TRUE, + windowTitle = "CRI iAtlas Portal", + # This make shiny::need messages easier to see + shiny::tags$head(shiny::tags$style(shiny::HTML( + ".shiny-output-error-validation {color: black; font-size: large}" + ))), + shiny::tags$head( + shiny::tags$script( + ' + var dimension = [0, 0]; + $(document).on("shiny:connected", function(e) { + dimension[0] = window.innerWidth; + dimension[1] = window.innerHeight; + Shiny.onInputChange("dimension", dimension); + }); + $(window).resize(function(e) { + dimension[0] = window.innerWidth; + dimension[1] = window.innerHeight; + Shiny.onInputChange("dimension", dimension); + }); + ' + ), + HTML( + " + + + + " + ) + ) +) + +shiny::shinyUI(ui) diff --git a/apps/iatlas/app/www/images/cell-image-legend.png b/apps/iatlas/app/www/images/cell-image-legend.png new file mode 100644 index 0000000000..16f75d0588 Binary files /dev/null and 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