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ssREAD

scREAD (version 1 archive): https://bmbls.bmi.osumc.edu/scread

Dev server: https://bmblx.bmi.osumc.edu/ssread/

This repository serves as the front end part of ssREAD, it also contains ssREAD workflow in the /script folder.

ssREAD (A single-cell and spatial RNA-seq database for Alzheimer’s Disease) is the first database dedicated to collect all existing Human and Mouse Alzheimer's Disease scRNA-Seq, snRNA-seq, and spatially resovled transcriptomics data, and provide comprehensive interpretations.

If you have any questions, suggestions, or found a new AD paper generated scRNA-seq datasets, please let us know via email: qin.ma@osumc.edu.

Citation

Jiang, Jing, Cankun Wang, Ren Qi, Hongjun Fu, and Qin Ma. “ScREAD: A Single-Cell RNA-Seq Database for Alzheimer’s Disease.” IScience 23, no. 11 (November 20, 2020): 101769. https://doi.org/10.1016/j.isci.2020.101769.

Code tutorials

Please check the following GitHub link for full tutorials, including:

  1. Calculating overlapping DEGs from the same cell type across datasets
  2. Running backend analysis workflow locally

https://github.com/OSU-BMBL/scread-protocol

Local development

First, install Node.js (v12+)

Add configuration file

git clone git@github.com:OSU-BMBL/ssread.git
cd ssread

Create a .env file in project root and put API URL in the env file:

Next,

npm install
npm run dev