In Phase 2, we repeated the primary OD analyses for SNPs with p<10−4 (403 SNPs for the case-control model, 1,522 SNPs for the Sympcountadj model in AAs) in the independent SAGE sample. Four distinct regions contained GWS SNP sympcountadj p-values in AAs after meta-analysis of the results from Phases 1 and 2 (Table 1). These included the regions containing the potassium voltage-gated channel genes KCNG2 (rs62103177, p=6.7×10−10; Figure 1) and KCNC1 (rs60349741, p=7.5×10−9; Figure S6 in Supplement 1), and APBB2 (rs115368721, p=1.8×10−9; Figure S7 in Supplement 1), and PARVA (rs73411566, p=1.8×10−8; Figure S8 in Supplement 1). Several GWS results from Phase 1 did not remain so in Phase 2, including SNPs mapped to HHLA2 and PITPNM3.
