The GWAS Catalog compiles associations from published GWAS [ref]. We're using the resource in rephetio, our network for drug repurposing. This repository extracts associations for the diseases and genes in rephetio.
The notebooks are executed as follows:
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windows.ipynbprocesses the results of a SNAP proxy search to extract windows (genomic regions) around each lead SNP based on linkage disequilibrium (data/snap/windows.tsv). See this discussion for details. -
loci.ipynbextracts disease–loci (SNP) associations (data/snp-associations.tsv) and disease–gene associations (data/gene-associations.tsv).
GWAS Catalog downloads and derivatives are licensed under CC BY 4.0 in accordance with the EBI's terms of use. All original content in this repository is licensed under CC0 1.0.