Mouse data

This is a compressed dataset containing 4 files:

1) "raw_count_data_filtered.txt" (1.3GB): raw read counts of genes in 12,114 mouse bulk RNA-seq samples.

2) "logCombat_UQ_log10.txt" (4.9GB): the RNA-seq data after upper-quartile (UQ) normalization, and batch effect correction using ComBat. According to our study this is in general the best processing workflow for calculating gene co-expression. Values are log10 values after addition of a small pseudo count.

3) "annotation_data.txt" (394KB): a table with the sample ID, study ID, and assigned cell type or tissue of each RNA-seq sample in this dataset.

4) "cell_types_vs_index.txt" (1.3KB): a list of each cell type and tissue in this dataset, along with their sample counts.