Table 2.
Genome-wide significant signals (Credible sets) for PUFAs in CHARGE Hispanic Americans.
| Lead variant (Chr:Pos:EFF:OTH) | EAF | Zscore | P-value | Cluster | # Of SNP | Novel/ Known | Nearest Gene | |
|---|---|---|---|---|---|---|---|---|
| AA | rs102274 (11:61557826:C:T) | 0.506 | −24.26 | 5.1E−130 | 1 | 7 | Known | TMEM258 |
| rs142068305 (11:67065755:T:G) | 0.196 | −7.06 | 1.63E−12 | 2 | 1 | Novel | ANKRD13D | |
| rs28364240 (11:67120530:G:C) | 0.204 | −7.04 | 1.88E−12 | 3 | 1 | Novel | POLD4 | |
| rs2668898 (11:61725498:G:A) | 0.402 | −5.83 | 5.32E−09 | 4 | 1 | Known | BEST1 | |
| rs180792704 (11:67325239:C:G) | 0.199 | −7.56 | 3.81E−14 | 5 | 1 | Novel | NA | |
| rs198434 (11:61483417:A:G) | 0.710 | −8.97 | 2.80E−19 | 6 | 1 | Novel | DAGLA | |
| rs518804 (11:57494487:C:A) | 0.420 | −7.73 | 1.01E−14 | 7 | 1 | Novel | TMX2 | |
| rs3177514 (11:66130358:G:T) | 0.699 | −5.60 | 2.06E−08 | 8 | 1 | Novel | SLC29A2 | |
| ALA | rs174562 (11:61585144:G:A) | 0.503 | 7.84 | 4.30E−15 | 1 | 23 | Known | FADS1 |
| DGLA | rs174538 (11:61560081:A:G) | 0.488 | 14.70 | 6.03E−49 | 1 | 1 | Known | TMEM258 |
| rs174585 (11:61611694:A:G) | 0.274 | 9.82 | 8.72E−23 | 2 | 1 | Known | FADS2 | |
| rs198434 (11:61483417:A:G) | 0.710 | 6.27 | 3.57E−10 | 3 | 1 | Novel | DAGLA | |
| rs198461 (11:61524366:C:A) | 0.363 | −5.95 | 2.54E−09 | 4 | 1 | Novel | MYRF | |
| rs57112407 (15:78088914:T:C) | 0.255 | −5.86 | 4.46E−09 | NA | NA | Novel | LINGO1 | |
| rs4985155 (16:15129459:G:A) | 0.524 | −7.72 | 1.16E−14 | 1 | 25 | Known | PDXDC1 | |
| DPA | rs1535 (11:61597972:G:A) | 0.520 | −11.31 | 1.07E−29 | 1 | 18 | Known | FADS2 |
| rs198434 (11:61483417:A:G) | 0.710 | −6.26 | 3.67E−10 | 2 | 1 | Novel | DAGLA | |
| EPA | rs102274 (11: 61557826:C:T) | 0.506 | −11.56 | 6.18E−31 | 1 | 17 | Known | TMEM258 |
| GLA | rs174576 (11: 61603510:A:C) | 0.546 | −7.73 | 1.07E−14 | 1 | 19 | Known | FADS2 |
| LA | rs174564 (11:61588305:G:A) | 0.520 | 15.11 | 1.23E−51 | 1 | 10 | Known | FADS2 |
| rs10751002 (11:63617634:G:T) | 0.664 | 6.06 | 1.36E−09 | 2 | 1 | Novel | MARK2 | |
| rs2668898 (11:61725498:G:A) | 0.402 | 5.54 | 2.99E−08 | 3 | 1 | Known | BEST1 | |
| rs28364240 (11:67120530:G:C) | 0.204 | 5.90 | 3.44E−09 | 4 | 1 | Novel | POLD4 | |
| rs11039018 (11:46909524:A:C) | 0.67 | −6.10 | 1.01E−09 | 5 | 1 | Novel | LRP4 | |
| rs518804 (11:57494487:C:A) | 0.420 | 6.03 | 1.62E−09 | 6 | 1 | Novel | TMX2 |
Table 2 shows the signals (credible sets) of putative causal variants identified for each of the PUFAs by fine- mapping using SuSiE in HIS (n = 1454). 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 15 for DGLA (rs57112407) in HIS, 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 = 1454 biologically independent samples.