Table 2. Top results (p<1 x 10−4) from SKAT-O gene-based association analysis in the discovery sample, overall (adjusted for age, sex, and bacterial clonal complex) and stratified by bacterial clonal complex (adjusted for age and sex).
| Gene | SNV | p-value |
|---|---|---|
| Overall (n = 168), all variants | ||
| CHRNA2 | 17 | 4.6 x 10−5 |
| PLEC | 191 | 4.9 x 10−5 |
| GNPDA1 | 16 | 6.5 x 10−5 |
| FAM153B | 8 | 7.4 x 10−5 |
| CDK3 | 9 | 9.1 x 10−5 |
| GLS2** | 19 | 5.4 x 10−3 |
| Overall (n = 168), functional variants* | ||
| No genes with p<10−4 | ||
| CC5 and CC30 subset (n = 122), all variants | ||
| LCMT2 | 10 | 2.5 x 10−5 |
| EFCAB4B | 53 | 6.1 x 10−5 |
| GLS2** | 14 | 0.18 |
| CC5 and CC30 subset (n = 122), functional variants* | ||
| LCMT2 | 5 | 3.1 x 10−6 |
| CC8 subset (n = 46), all variants | ||
| FAM111B | 2 | 5.6 x 10−6 |
| GLS2** | 13 | 1.8 x 10−3 |
| CC8 subset (n = 46), functional variants* | ||
| No genes with p<10−4 | ||
*functional variant = missense, nonsense (stop-gain or stop-loss), or splice-gain or loss
** GLS2 is included for comparison with other top results in the discovery dataset.