Additional file 3: Table S2. of CPAG: software for leveraging pleiotropy in GWAS to reveal similarity between human traits links plasma fatty acids and intestinal inflammation

CPAG results based on NHGRI GWAS Catalog (last visit on 4 September 2013). Listed are associated disease–trait pairs and counts of overlap based on the SNP, SNP_LD, and gene-based methods. Based on these counts, a series of statistical tests were done to test the significance of the similarity, including Fisher’s exact test, an empirical permutations test (10,000 permutations), hypergeometric test and binomial test. The last three columns list the overlapping genes, SNPs and SNPs in LD. (XLSX 1076 kb)