Table 5

Replication results for variants with P < 5 × 10−8 (traditional, nominal threshold for genome-wide significance) in the discovery analysis

Discovery population/LT modelingRSIDNearest geneREFDisc NEFFDisc RAFDisc PDisc ORAll rep NEFFAll rep RAFAll rep ORAll rep PDisc + rep OR (95% CI)Disc + rep P
Variants identified in the PDR discovery analysis
 AA/nors115523882GOLIM4A1,4520.97219.42 × 10−93.105710.99750.200.132.89 (1.97, 4.23)8.51 × 10−8
 AA/yesrs115523882GOLIM4A1,4520.97215.37 × 10−93.105710.99750.200.182.89 (1.99, 4.20)4.25 × 10−8
 European/nors139205645NDUFB3T9070.99073.93 × 10−80.133,4310.99000.740.770.48 (0.29, 0.79)0.004
 European/yesrs17791,488NOS2/LYRM9T9070.97057.26 × 10−93.705,8830.97720.820.331.08 (0.98, 1.19)0.12
Variants identified in the extremes of DR analysis
 AA/nors184340784AJAP1C6030.00633.52 × 10−8NA****
 European/yesrs142293996NVLC5230.98952.10 × 10−92.381,2290.99103.230.162.91 (1.85, 4.57)4.10 × 10−6
 European/yesrs17706,958PDZRN3T7970.76153.04 × 10−81.584,1940.98281.280.021.39 (1.24, 1.56)7.41 × 10−8
 European/yesrs80117617SLC8A1T7970.95984.04 × 10−83.783,3450.97261.290.241.71 (1.30, 2.25)1.35 × 10−4
  • AA, African American; All rep, all replication cohorts; CHR, chromosome; Disc, discovery; LT, liability threshold; NA, not available; NEFF, effective sample size; RAF, reference allele frequency in sample; REF, reference allele; Rep, replication; RSID, rs identifier.

  • *None of the replication cohorts were able to provide data for this SNP.