How to find any GWAS associations my genes have
Hello,
I have a list of 1000 genes and I want to produce a file summarising the known GWAS associations of each one of those genes. Is there a way to do this programmatically please?
Many thanks
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Kevin Blighe
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arissaoulidis •
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arissaoulidis •
1 answer
There are likely many ways. One way is to download the NHGRI's GWAS Catalog as TSV and then programmatically overlap your data with these: https://www.ebi.ac.uk/gwas/downloads
Be wary of gene synonyms and general gene naming conventions, which may affect the overlap. May be better to convert all symbols to Entrez IDs or Ensembl gene IDs just for the purpose of the overlap.
Kevin
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