Table 2.
Previously identified variants showing genome-wide significant association with schizophrenia
| SNP | Mb | Al | Freq | SGENE-plus + ISC + MGS (7 946 cases; 19 036 controls) |
Primary follow-up (9 246 cases; 22 356 controls) |
Secondary follow-up (1 014 cases; 1 144 controls) |
SGENE-plus + ISC + MGS and all follow-up (18 206 cases; 42 536 controls) |
||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| OR (95% CI) | P value | OR (95% CI) | P value | OR (95% CI) | P value | OR (95% CI) | P value | ||||
| 6p21.3–6p22.1, MHC | |||||||||||
| rs6913660 | 27.2 | C | 0.85 | 1.19 (1.12, 1.27) | 4.6 × 10−8 | 1.09 (1.04, 1.15) | 0.00067 | 1.34 (1.13, 1.57) | 0.00050 | 1.14 (1.10, 1.19) | 1.7 × 10−11 |
| rs6932590 | 27.4 | T | 0.78 | 1.15 (1.09, 1.21) | 5.6 × 10−7 | 1.10 (1.05, 1.15) | 6.9 × 10−5 | 1.11 (0.96, 1.28) | 0.15 | 1.12 (1.08, 1.16) | 1.6 × 10−10 |
| rs13211507 | 28.4 | T | 0.92 | 1.22 (1.12, 1.33) | 5.2 × 10−6 | 1.21 (1.13, 1.30) | 1.1 × 10−7 | 1.34 (1.08, 1.67) | 0.0089 | 1.22 (1.16, 1.29) | 1.4 × 10−13 |
| rs3131296 | 32.3 | G | 0.87 | 1.18 (1.10, 1.27) | 9.8 × 10−6 | 1.14 (1.07, 1.21) | 1.4 × 10−5 | 1.28 (1.07, 1.54) | 0.0080 | 1.16 (1.11, 1.21) | 5.1 × 10−11 |
| 11q24.2, NRGN | |||||||||||
| rs12807809 | 124.1 | T | 0.83 | 1.16 (1.09, 1.24) | 2.3 × 10−6 | 1.09 (1.04, 1.15) | 0.00057 | 1.16 (0.99, 1.37) | 0.063 | 1.12 (1.08, 1.17) | 2.8 × 10−9 |
| 18q21.2, TCF4 | |||||||||||
| rs9960767 | 51.3 | C | 0.056 | 1.27 (1.15, 1.40) | 1.8 × 10−6 | 1.16 (1.07, 1.25) | 0.00025 | 1.09 (0.85, 1.41) | 0.50 | 1.20 (1.13, 1.27) | 4.2 × 10−9 |
Mb, megabase based on NCBI Build 36; al, allele; freq, average frequency in SGENE-plus controls.