Temporal changes of gene expression in health and mental disorders. Supporting Data

This dataset provides data necessary to replicate the results of the time-perturbation analysis of gene expression in health and mental disorders. The corresponding code is available in the GitHub repository https://github.com/susieavagyan/BrainExp-TemporalDynamics․

The content of the data archive is following:

"GTEX_unzipped" folder contains  GTEx single-tissue cis-eQTL dataset (v8)

"pheno" folder  contains sample phenotype data for datasets used in the analysis 

"scRNA-Ruzicka_data" folder  contains gene signatures for neuronally associated processes and brian cell populations from Ruzicka, W. Brad, Shahin Mohammadi, Jose Davila-Velderrain, Sivan Subburaju, Daniel Reed Tso, Makayla Hourihan, and Manolis Kellis. 2020. “Single-Cell Dissection of Schizophrenia Reveals Neurodevelopmental-Synaptic Axis and Transcriptional Resilience.” MedRxiv, January, 2020.11.06.20225342. https://doi.org/10.1101/2020.11.06.20225342 paper.

"v5_results.SOM - Results" folder  contains the transcriptome analysis results generated with oposSOM pipeline  

"BM.table.Rdata" file contains gene symbol ENSEMBL ID conversion table required for eQTL analysis 

"Brain_development_v3.Rdata" file contains combined raw gene expression data of datasets used in this analysis

"som_input_v5.Rdata" file contains batch adjusted and normalized gene expression matrix that was used as an input for oposSOM pipeline.