Table 2 Combined analysis of allele frequency differences between SLE cases and controls for nine autosomal loci
Minor allele frequency (%)a | Mantel – Haenszel analysis | Breslow – Day test | |||
|---|---|---|---|---|---|
SNP (locus) | SLE cases | Controls | OR (95% CI) | P value | P value |
rs1143679 (ITGAM) | 23.2 (730/3,152) | 15.1 (521/3,448) | 1.70 (1.5 to 1.9) | 1.1 × 10-16 | 0.5 |
rs7574865 (STAT4) | 32.8 (709/2,162) | 23.2 (485/2,092) | 1.62 (1.4 to 1.9) | 2.4 × 10-12 | 1.0 |
rs13277113 (C8orf13-BLK) | 30.9 (874/2,824) | 25.7 (776/3,024) | 1.34 (1.2 to 1.5) | 5.1 × 10-7 | 1.0 |
rs2304256 (TYK2) | 23.3 (733/3,152) | 27.8 (960/3,450) | 0.79 (0.7 to 0.9) | 2.5 × 10-5 | 0.6 |
rs10798269 (1q25.1) | 27.3 (861/3,158) | 31.8 (1,098/3,452) | 0.81 (0.7 to 0.9) | 0.00013 | 0.2 |
rs17266594 (BANK1) | 24 (526/2,192) | 27.6 (624/2,260) | 0.83 (0.7 to 0.9) | 0.0062 | 0.4 |
rs4963128 (KIAA1542) | 30.3 (955/3,150) | 34.0 (1,173/3,448) | 0.84 (0.8 to 0.9) | 0.0011 | 0.2 |
rs6445975 (PXK) | 27.3 (772/2,824) | 24.2 (734/3,034) | 1.19 (1.1 to 1.3) | 0.0038 | 0.7 |
rs509749 (LY9) | 43.1 (1,359/3,154) | 43.8 (1,513/3,452) | 0.97 (0.9 to 1.1) | 0.5 | 0.4 |