Table 2.
Genes with suggestive evidence of association (p<0.01) by both FET and SKAT-O aggregation tests. Shown are the proportions of controls and cases with at least one rare (MAF<5%) deleterious (truncating or damaging missense) variant.
| African-Americans (200 cases, 297 controls) | ||||||
|---|---|---|---|---|---|---|
| Gene | Source | Controls | Cases | FET | OR | SKAT |
| TET2 | Known | 9.61% | 24.35% | 1.84×10−5 | 3.0 | 0.00027 |
| CEP63 | Discovery | 3.91% | 13.47% | 0.00019 | 3.8 | 0.00241 |
| TRBV7-7 | Discovery | 1.07% | 5.70% | 0.00468 | 5.6 | 0.00621 |
| NUBP2 | Pathway | 2.85% | 8.81% | 0.00588 | 3.3 | 0.00206 |
| SPRR3 | Discovery | 4.98% | 0.52% | 0.00598 | 0.1 | 0.00515 |
| European-Americans (452 cases, 455 controls) | ||||||
|---|---|---|---|---|---|---|
| Gene | Source | Controls | Cases | FET | OR | SKAT |
| ZSWIM2 | Discovery | 3.76% | 0.47% | 0.00072 | 0.1 | 0.00189 |
| PARP2 | Discovery | 6.64% | 2.36% | 0.00310 | 0.3 | 0.00867 |
| Both Ancestries (652 cases, 752 controls) | ||||||
|---|---|---|---|---|---|---|
| Gene | Source | Controls | Cases | FET | OR | SKAT |
| PARP2 | Discovery | 5.18% | 1.78% | 0.00071 | 0.3 | 0.00188 |
| MSH6 | Pathway | 3.96% | 7.43% | 0.00599 | 1.9 | 0.00051 |
| LAMB3 | Pathway | 8.46% | 4.85% | 0.00915 | 0.6 | 0.00296 |
Abbreviations: FET = Fisher's Exact Test. SKAT = SKAT-O.