How to access VCF files for Genotype Tissue Expression (GTEx) data

Question

[jparker4]

Hello,

I have access to the raw GTEx data and am trying to the download VCF files containing the SNP data for each of the donors within the dataset. However, I cannot find where these files are kept/how to access them. Any help would be much appreciated.

Answer 1

[Tao]

Hi, You might want to be authorized first to access GTEx genotyping data. From the link below, https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000424.v6.p1, there is instructions for requestors. Once you are authorized, you can access via the Authorized Access. The genotyping data were saved under panel of "Phenotype and Genotype files". And the genotyping data is saved in: phg000520.v2.GTEx_MidPoint_Illumina25M.genotype-calls-vcf.c1.GRU.tar