Manhattan plots from each of the GWAS meta-analyses are shown in Supplementary Figures 6a, b, and c. Our NEUR meta-analysis was based on the same cohort-level data as the SSGAC study11 and unsurprisingly yielded substantively identical results: 10 lead SNPs. Consistent with what studies have reported for other complex traits, the increased discovery samples for DEP and SWB relative to the SSGAC study increased the number of lead SNPs: from 2 to 32 for DEP (Neff = 149,707 to 354,862) and from 3 to 13 for SWB (N = 298,420 to 388,538). Applying bivariate LD score regression6 to the GWAS results, we estimate the genetic correlations to be 0.72 (s.e. = 0.026) between DEP and NEUR, −0.67 (s.e. = 0.027) between NEUR and SWB, and −0.69 (s.e. = 0.024) between DEP and SWB (Supplementary Table 7). The intercepts from each of these regressions are found in Supplementary Table 8. Lead SNPs with a P value less than 10−5 from the GWAS for each trait are listed in Supplementary Table 9.
