cGTEx_dataset:A multi-tissue atlas of regulatory variants in cattle

The files are raw data of the cGTEX dataset used in the publication https://doi.org/10.1038/s41588-022-01153-5. For details, please read the Methods section. 

1. cGTEx_meta_data_8646sample.xlsx

Metadata consists of sample names with their sample accession, including information such as data size, cleaned reads, mapping rate, and age. The data is extracted from SRA (https://www.ncbi.nlm.nih.gov/sra/) and BIGD (https://bigd.big.ac.cn/bioproject/) ( samples starting with CRS)

2. cGTEx_count_8646sample_27607gene.txt.gz

Data consist of raw RNA-seq read count of 27607 genes (column names as Ensembl gene id )of 8646 samples (as row names) 

3. cGTEx_TPM_8646sample_27607gene.txt.gz

Data consist of TPM values of 27607 genes (column names as Ensembl gene id) in  samples (8646 samples as row names)

4. cGTEx_imputed_vcf.tar.gz

Imputed genotypes (SNP) of 7297 RNA-seq samples in 29 autosomes.

5. cGTEx_exon_junction_8646sample.tar.gz

Exon junction files of 8646 files 

Note: Small discrepancies in some sample names or the absence of headers in some data sets compared to https://cgtex.roslin.ed.ac.uk/ are sorted out in this upload.