The significance test was done in two ways: selecting SNPs from Sw1-6 results and evaluating the signs in the independent PGC results, and by reversing the procedure (select from PGC, evaluate signs in Sw1-6). Similar results were obtained selecting SNPs for: (a) P < 1×10−5, (b) P < 1×10−6, (c) keeping one SNP every 3 Mb (effectively removing or greatly minimizing the effects of residual linkage disequilibrium).
