around the lead SNPs using Ripke et al.’s46 locus definition, and we performed conditional and joint multiple-SNP analyses (COJO)13. Ripke et al. defined a locus as “the physical region containing all SNPs correlated at r2 > 0.6 with [one of the lead] SNPs”, and merged associated loci within 250 kb of each other. To define the set of distinct loci that contain all the loci corresponding to the locus associations from across the seven GWAS, we pooled the loci corresponding to the locus associations and merged loci within 250 kb from each other. For the COJO analyses, for each of the seven main GWAS we restricted the analysis to the set of SNPs that (1) pass all GWAS quality control filters, and (2) are located within the loci of the phenotype (which includes all of the lead SNPs).
