1,000 controls for direct comparison (λ1000 SCZ). Additionally, for the BP+SCZ meta-analysis, we tested heterogeneity between BP vs controls and SCZ vs controls odds ratios using the Cochrane’s Q test. Association regions were defined by an LD clumping procedure for all independent index SNPs with p-value < 5×10−8. We defined the region to include any SNP within 500kb of the index SNP, in LD with the index SNP (r2 > 0.2) and having a p-value < 0.005.
