Chunk #24 — METHODS — Example and validation

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SNPinfo: integrating GWAS and candidate gene information into functional SNP selection for genetic association studies.

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The CGEMS GWAS reported 6034 GWAS SNPs with P ≤ 0.01. GenomePipe identified 41755 SNPs that are in high LD with these GWAS SNPs (r2 ≥ 0.8), and from the 41755 SNPs selected 543 common SNPs (MAF ≥ 0.05) that were predicted to be functional by at least one of the prediction methods.