Table 3.
Genome-wide significant signals (Credible sets) for PUFAs in CHARGE African Americans.
| Lead variant (Chr:Pos:EFF:OTH) | EAF | Zscore | P-value | Cluster | # Of SNP | Novel/ Known | Nearest Gene | |
|---|---|---|---|---|---|---|---|---|
| AA | rs174585 (11:61611694:A:G) | 0.060 | −9.32 | 1.08E−20 | 1 | 1 | Known | FADS2 |
| rs174607 (11:61627321:C:G) | 0.078 | −6.49 | 8.47E−11 | 2 | 1 | Known | FADS2 | |
| rs174564 (11:61588305:G:A) | 0.133 | −14.85 | 6.43E−50 | 3 | 1 | Known | FADS2 | |
| rs174559 (11:61581656:A:G) | 0.078 | −13.68 | 1.27E−42 | 4 | 1 | Known | FADS1 | |
| rs17161592 (7:9388418:C:G) | 0.085 | −6.31 | 2.75E−10 | 1 | 2 | Novel | NA | |
| DGLA | rs174560 (11:61581764:C:T) | 0.216 | 9.12 | 7.51E−20 | 1 | 1 | Known | FADS1 |
| rs1136001 (16:15131974:T:G) | 0.220 | −6.11 | 9.69E−10 | 2 | 17 | Known | PDXDC1 | |
| DPA | rs717894 (6:22119292:A:G) | 0.250 | −5.48 | 4.11E−08 | 1 | 1 | Novel | CASC15 |
| rs9295741 (6:10997166:T:C) | 0.223 | 5.54 | 2.89E−08 | 2 | 2 | Known | ELOVL2 | |
| DHA | rs114622288 (10:14663844:A:G) | 0.050 | −5.71 | 1.16e−08 | NA | NA | Novel | FAM107B |
| LA | rs1535 (11:61597972:G:A) | 0.163 | 7.88 | 3.14E−15 | 1 | 2 | Known | FADS2 |
Table 3 shows the signals (credible sets) of putative causal variants identified for each of the PUFAs by fine-mapping using SuSiE in AFA (n = 2278). All variant positions are presented based on Human Genome Build 37. Variants previously documented in the CHARGE GWAS meta-analysis of n-3 and n-6 PUFAs were considered known prior to the current meta-analysis. The remaining variants were considered novel in the current study. There was only one genome-wide significant variant on chromosome 10 for DHA (rs114622288) in AFA, and this signal was not carried forward for fine-mapping. P-values are calculated using a two-sided test for the z-score derived by meta-analysis including a total of n = 2278 biologically independent samples.