Table 3.
Top 10 SNPs and corresponding genes, sorted by crude P-value of the meta-risk estimate for all subjects combined and by ancestry group: CLIC.
| Rs# | Symbol | Gene | Reference allele frequency | Beta coefficient | P-value |
|---|---|---|---|---|---|
| Total | |||||
| rs2239910 | SLC46A1 | Solute carrier family 46 (folate transporter), member 1/sterile alpha and TIR motif containing 1 | 0.3643 | 0.0788 | 2.65E−04 |
| rs9371202 | MTHFD1L | Methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like | 0.8455 | 0.1103 | 4.35E−04 |
| rs12947270 | SLC46A1 | Solute carrier family 46 (folate transporter), member 1/H3 histone, family 3B (H3.3B) pseudogene 2 | 0.675 | −0.0781 | 5.28E−04 |
| rs9322291 | MTHFD1L | Methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like | 0.865 | 0.1397 | 6.31E−04 |
| rs34449727 | CPS1 | Carbamoyl-phosphate synthase 1, mitochondrial | 0.3292 | −0.078 | 7.61E−04 |
| rs11679391 | SLC19A3 | Solute carrier family 19 member 3 | 0.3726 | 0.0777 | 8.36E−04 |
| rs2268369 | LRP2 | Low-density lipoprotein receptor-related protein 2 | 0.5444 | −0.0645 | 1.09E−03 |
| rs2268367 | LRP2 | Low-density lipoprotein receptor-related protein 2 | 0.5445 | −0.0643 | 1.12E−03 |
| rs11886318 | LRP2 | Low-density lipoprotein receptor-related protein 2 | 0.5349 | −0.0635 | 1.34E−03 |
| rs28785011 | MTHFD1L | Methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like | 0.8654 | 0.1345 | 1.40E−03 |
| European | |||||
| rs11679391 | SLC19A3 | Solute carrier family 19 (thiamine transporter), member 3 | 0.4029 | 0.1107 | 3.55E−04 |
| rs9371202 | MTHFD1L | Methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like | 0.8636 | 0.1576 | 5.33E−04 |
| rs2138406 | C2orf83 | Chromosome 2 open reading frame 83 | 0.1873 | 0.1185 | 1.21E−03 |
| rs7601819 | SLC19A3 | Solute carrier family 19 (thiamine transporter), member 3 | 0.8777 | 0.1626 | 1.24E−03 |
| rs7583413 | C2orf83 | Chromosome 2 open reading frame 83 | 0.8086 | −0.1156 | 1.32E−03 |
| rs76758508 | SHMT2 | Serine hydroxymethyltransferase 2 | 0.315 | 0.0958 | 1.63E−03 |
| rs68176600 | NXPH4 | Neurexophilin 4 | 0.6767 | −0.0949 | 1.69E−03 |
| rs11679339 | SLC19A3 | Solute carrier family 19 (thiamine transporter), member 3 | 0.7727 | −0.1108 | 1.74E−03 |
| rs4973234 | SLC19A3 | Solute carrier family 19 (thiamine transporter), member 3 | 0.7727 | −0.1093 | 1.96E−03 |
| rs803456 | MTHFD1L | Methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like | 0.5117 | 0.0907 | 2.24E−03 |
| Latinx | |||||
| rs8018688 | GCH1 | GTP cyclohydrolase 1 | 0.7902 | 0.1384 | 1.38E−03 |
| rs9980564 | CBS | cystathionine-beta-synthase | 0.6155 | 0.1202 | 1.60E−03 |
| rs7147201 | GCH1 | GTP cyclohydrolase 1 | 0.7875 | 0.1298 | 2.73E−03 |
| rs9671455 | GCH1 | GTP cyclohydrolase 1 | 0.7462 | 0.1212 | 2.78E−03 |
| rs56213135 | GCH1 | GTP cyclohydrolase 1 | 0.2014 | −0.1308 | 2.79E−03 |
| rs3759664 | GCH1 | GTP cyclohydrolase 1 | 0.1988 | −0.13 | 3.07E−03 |
| rs11886318 | LRP2 | Low density lipoprotein receptor-related protein 2 | 0.5423 | −0.1056 | 3.24E−03 |
| rs6433109 | LRP2 | Low density lipoprotein receptor-related protein 2 | 0.5391 | −0.1047 | 3.37E−03 |
| rs7600336 | LRP2 | Low density lipoprotein receptor-related protein 3 | 0.4182 | 0.1047 | 3.73E−03 |
| rs113100590 | GCH1 | GTP cyclohydrolase 1 | 0.8052 | 0.1302 | 3.74E−03 |
| Asian | |||||
| rs11018581 | NOX4 | NADPH oxidase 4 | 0.2848 | 0.2081 | 7.74E−05 |
| rs11821838 | NOX4 | NADPH oxidase 4 | 0.2103 | 0.196 | 7.09E−04 |
| rs6677781 | CTH | Cystathionase | 0.2337 | 0.1782 | 1.43E−03 |
| rs7925419 | FOLH1 | Folate hydrolase 1 | 0.4587 | 0.1463 | 3.79E−03 |
| rs609054 | FOLH1 | Folate hydrolase 2 | 0.5818 | 0.135 | 6.76E−03 |
| rs2734002 | FOLH1 | Folate hydrolase 3 | 0.5818 | 0.1348 | 6.82E−03 |
| rs10839236 | FOLH1 | Folate hydrolase 4 | 0.5658 | 0.1326 | 8.20E−03 |
| rs3872578 | FOLH1 | Folate hydrolase 5 | 0.5659 | 0.1326 | 8.22E−03 |
| rs9651571 | FOLH1 | Folate hydrolase 6 | 0.5658 | 0.1325 | 8.27E−03 |
| rs7120943 | FOLH1 | Folate hydrolase 7 | 0.4342 | −0.1321 | 8.44E−03 |