diff --git a/SQL/New_patches/2020-08-12_add_CNV_CPG_data_for_genomic_browser.sql b/SQL/New_patches/2020-08-12_add_CNV_CPG_data_for_genomic_browser.sql deleted file mode 100644 index 85d0b5c8a30..00000000000 --- a/SQL/New_patches/2020-08-12_add_CNV_CPG_data_for_genomic_browser.sql +++ /dev/null @@ -1,25 +0,0 @@ ---Add CNV data for some candidates -INSERT INTO `CNV` (`CNVID`, `CandID`, `Description`, `Type`, `EventName`, `Common_CNV`, `Characteristics`, `CopyNumChange`, `Inheritance`, `ArrayReport`, `Markers`, `ArrayReportDetail`, `ValidationMethod`, `PlatformID`, `Chromosome`, `Strand`, `EndLoc`, `StartLoc`, `Symbol`, `Name`, `NCBIID`, `OfficialSymbol`, `OfficialName`) VALUES (1, 300165, NULL, 'unknown', NULL, 'Y', 'Unknown', NULL, 'unknown', 'Normal', NULL, NULL, NULL, 1, 'chr1', '+', 11007, 11008, NULL, NULL, NULL, NULL, NULL); -INSERT INTO `CNV` (`CNVID`, `CandID`, `Description`, `Type`, `EventName`, `Common_CNV`, `Characteristics`, `CopyNumChange`, `Inheritance`, `ArrayReport`, `Markers`, `ArrayReportDetail`, `ValidationMethod`, `PlatformID`, `Chromosome`, `Strand`, `EndLoc`, `StartLoc`, `Symbol`, `Name`, `NCBIID`, `OfficialSymbol`, `OfficialName`) VALUES (2, 300165, NULL, 'unknown', NULL, 'Y', 'Unknown', NULL, 'unknown', 'Normal', NULL, NULL, NULL, 1, 'chr1', '-', 11009, 11010, NULL, NULL, NULL, NULL, NULL); -INSERT INTO `CNV` (`CNVID`, `CandID`, `Description`, `Type`, `EventName`, `Common_CNV`, `Characteristics`, `CopyNumChange`, `Inheritance`, `ArrayReport`, `Markers`, `ArrayReportDetail`, `ValidationMethod`, `PlatformID`, `Chromosome`, `Strand`, `EndLoc`, `StartLoc`, `Symbol`, `Name`, `NCBIID`, `OfficialSymbol`, `OfficialName`) VALUES (3, 300141, NULL, 'unknown', NULL, 'Y', 'Unknown', NULL, 'unknown', 'Normal', NULL, NULL, NULL, 1, 'chr1', '+', 11007, 11008, NULL, NULL, NULL, NULL, NULL); -INSERT INTO `CNV` (`CNVID`, `CandID`, `Description`, `Type`, `EventName`, `Common_CNV`, `Characteristics`, `CopyNumChange`, `Inheritance`, `ArrayReport`, `Markers`, `ArrayReportDetail`, `ValidationMethod`, `PlatformID`, `Chromosome`, `Strand`, `EndLoc`, `StartLoc`, `Symbol`, `Name`, `NCBIID`, `OfficialSymbol`, `OfficialName`) VALUES (4, 300162, NULL, 'unknown', NULL, 'Y', 'Unknown', NULL, 'unknown', 'Normal', NULL, NULL, NULL, 1, 'chr1', '+', 11007, 11008, NULL, NULL, NULL, NULL, NULL); - ---Add CPG data for some candidates ---Add data to genomic_sample_candidate_rel to match CPG to Candidate -INSERT INTO `genomic_sample_candidate_rel` (`sample_label`, `CandID`) VALUES ('sl573847', 300165); -INSERT INTO `genomic_sample_candidate_rel` (`sample_label`, `CandID`) VALUES ('sl573848', 300165); -INSERT INTO `genomic_sample_candidate_rel` (`sample_label`, `CandID`) VALUES ('sl573851', 300162); -INSERT INTO `genomic_sample_candidate_rel` (`sample_label`, `CandID`) VALUES ('sl573852', 300139); - ---Add data to genomic_cpg_annotation -INSERT INTO `genomic_cpg_annotation` (`cpg_name`, `address_id_a`, `probe_seq_a`, `address_id_b`, `probe_seq_b`, `design_type`, `color_channel`, `genome_build`, `probe_snp_10`, `gene_name`, `gene_acc_num`, `gene_group`, `island_loc`, `island_relation`, `fantom_promoter_loc`, `dmr`, `enhancer`, `hmm_island_loc`, `reg_feature_loc`, `reg_feature_group`, `dhs`, `platform_id`, `Chromosome`, `Strand`, `EndLoc`, `StartLoc`) VALUES ('CPG_573847', NULL, NULL, NULL, NULL, NULL, 'Red', NULL, NULL, NULL, NULL, NULL, NULL, 'island', NULL, 'DMR', NULL, NULL, NULL, NULL, NULL, 1, 'chr1', '+', 11007, 11008); -INSERT INTO `genomic_cpg_annotation` (`cpg_name`, `address_id_a`, `probe_seq_a`, `address_id_b`, `probe_seq_b`, `design_type`, `color_channel`, `genome_build`, `probe_snp_10`, `gene_name`, `gene_acc_num`, `gene_group`, `island_loc`, `island_relation`, `fantom_promoter_loc`, `dmr`, `enhancer`, `hmm_island_loc`, `reg_feature_loc`, `reg_feature_group`, `dhs`, `platform_id`, `Chromosome`, `Strand`, `EndLoc`, `StartLoc`) VALUES ('CPG_573848', NULL, NULL, NULL, NULL, NULL, 'Red', NULL, NULL, NULL, NULL, NULL, NULL, 'island', NULL, 'DMR', NULL, NULL, NULL, NULL, NULL, 1, 'chr1', '+', 11007, 11008); -INSERT INTO `genomic_cpg_annotation` (`cpg_name`, `address_id_a`, `probe_seq_a`, `address_id_b`, `probe_seq_b`, `design_type`, `color_channel`, `genome_build`, `probe_snp_10`, `gene_name`, `gene_acc_num`, `gene_group`, `island_loc`, `island_relation`, `fantom_promoter_loc`, `dmr`, `enhancer`, `hmm_island_loc`, `reg_feature_loc`, `reg_feature_group`, `dhs`, `platform_id`, `Chromosome`, `Strand`, `EndLoc`, `StartLoc`) VALUES ('CPG_573851', NULL, NULL, NULL, NULL, NULL, 'Red', NULL, NULL, NULL, NULL, NULL, NULL, 'island', NULL, 'DMR', NULL, NULL, NULL, NULL, NULL, 1, 'chr1', '+', 11007, 11008); -INSERT INTO `genomic_cpg_annotation` (`cpg_name`, `address_id_a`, `probe_seq_a`, `address_id_b`, `probe_seq_b`, `design_type`, `color_channel`, `genome_build`, `probe_snp_10`, `gene_name`, `gene_acc_num`, `gene_group`, `island_loc`, `island_relation`, `fantom_promoter_loc`, `dmr`, `enhancer`, `hmm_island_loc`, `reg_feature_loc`, `reg_feature_group`, `dhs`, `platform_id`, `Chromosome`, `Strand`, `EndLoc`, `StartLoc`) VALUES ('CPG_573852', NULL, NULL, NULL, NULL, NULL, 'Red', NULL, NULL, NULL, NULL, NULL, NULL, 'island', NULL, 'DMR', NULL, NULL, NULL, NULL, NULL, 1, 'chr1', '+', 11007, 11008); - ---Add data to gemonic_cpg ---The beta_value was added because it cannot be null -INSERT INTO `genomic_cpg` (`sample_label`, `cpg_name`, `beta_value`) VALUES ('sl573847', 'CPG_573847', 1.000); -INSERT INTO `genomic_cpg` (`sample_label`, `cpg_name`, `beta_value`) VALUES ('sl573848', 'CPG_573848', 1.000); -INSERT INTO `genomic_cpg` (`sample_label`, `cpg_name`, `beta_value`) VALUES ('sl573851', 'CPG_573851', 1.000); -INSERT INTO `genomic_cpg` (`sample_label`, `cpg_name`, `beta_value`) VALUES ('sl573852', 'CPG_573852', 1.000); \ No newline at end of file