TABLE 1.
Summary of risk alleles, 1,000 Genome frequencies and SNPs associated with rheumatoid arthritis.
| CHR | SNP | A1/A2 | RA (no.) | Normal (no.) | OR | P | EAS | EUR | AFR |
|---|---|---|---|---|---|---|---|---|---|
| 6p21.32 | rs9268839 | A/G | 42.4% (1,364) | 56.0% (1768) | 0.58 (0.53–0.64) | 3.95 × 10−27 a | 0.354 | 0.451 | 0.236 |
| 6p21.32 | rs9275376 | T/G | 25.0% (804) | 15.7% (496) | 1.79 (1.58–2.03) | 2.65 × 10−20 a | 0.192 | 0.299 | 0.285 |
| 6q23.3 | rs7752903 | G/T | 6.4% (205) | 4.3% (136) | 1.51 (1.21–1.89) | 2.33 × 10−4 a | 0.049 | 0.019 | 0.056 |
| 6p21.33 | rs4947332 | T/C | 2.2% (72) | 1.1% (34) | 2.11 (1.4–3.18) | 2.78 × 10−4 a | 0.012 | 0.029 | 0.094 |
| 1p13.1 | rs1414273 | C/T | 40.5% (1,303) | 44.7% (1,412) | 0.84 (0.76–0.93) | 8.26 × 10−4 a | 0.585 | 0.140 | 0.584 |
| 15q15.1 | rs2620381 | C/A | 7.9% (254) | 10.1% (318) | 0.77 (0.65–0.91) | 2.55 × 10−3 a | 0.086 | 0.004 | 0.130 |
| 14q32.31 | rs75330474 | T/C | 3.8% (121) | 5.0% (159) | 0.74 (0.58–0.94) | 0.0136 | 0.065 | 0.003 | 0.064 |
| 18p11.21 | rs370878033 | G/A | 1.7% (54) | 2.6% (81) | 0.65 (0.46–0.92) | 0.01435 | 0.032 | 0.001 | 0.001 |
| 7q22.1 | rs3823658 | A/G | 13.4% (432) | 11.5% (363) | 1.20 (1.03–1.39) | 0.01825 | 0.138 | 0.138 | 0.006 |
| 1p32.3 | rs74085143 | A/G | 4.0% (130) | 5.3% (166) | 0.76 (0.6–0.96) | 0.0219 | 0.048 | 0.022 | 0.331 |
| 6q23.2 | rs7740161 | T/A | 14.3% (459) | 16.3% (515) | 0.86 (0.75–0.98) | 0.0253 | 0.102 | 0.347 | 0.614 |
| 3p21.1 | rs4687672 | A/G | 33.7% (1,082) | 31.1% (983) | 1.12 (1.01–1.25) | 0.02914 | 0.317 | 0.264 | 0.202 |
| 22q12.2 | rs5997893 | A/G | 46.9% (1,509) | 49.5% (1,565) | 0.90 (0.82–1.00) | 0.03972 | 0.498 | 0.667 | 0.918 |
| 19p13.2 | rs2967897 | T/C | 16.8% (541) | 15.0% (473) | 1.15 (1.00–1.31) | 0.04189 | 0.849 | 0.686 | 0.614 |
| 15q25.3 | rs76468441 | T/C | 3.2% (104) | 2.4% (76) | 1.36 (1.00–1.83) | 0.0453 | 0.042 | 0.054 | 0.011 |
a
FDR corrections were not shown in the table while only p < 2.55 × 10−3 is significant in the table with FDR correction. EAS, EUR, and AFR represent allele frequency of A1 in East Asian, European and African populations based on 1,000 Genome dataset. All the OR and p-value are referring to A1 while taking A2 as reference. Bayesian logistic regression model adjusted for covariates including gender, age, and BMI, were applied as the statistical approach.