I have a list of variants and I want to integrate the data from GTex database. Is there any specific way to do this?
The files provided on the GTEx portal are quite complicated to understand.
I want to extract the information related to variant and its expression in all the tissues. (eg. if a variant is rsxxxxxxx, so how it affects the gene expression tissue wise is what I want to add in my study)
I downloaded the file GTEx_Analysis_v7_eQTL.tar.gz from the portal but it has rsIDs and p-value for all the tissue types. I am not sure how to use this data to make sense and integrate with the SNP list I have.
Another thing to mention is that, DBNSFP database integrated in annovar also provides 2 columns that is GTEx gene and tissue but there is no clarification on what exactly it is trying to display in those columns.
Any help of suggestions will be appreciated.