Table 2.
Replication of SNP markers discovered in the GWA study
| Ethnicity | rs12587781 | rs1154155 | rs1263646 |
|---|---|---|---|
| Caucasians | C | C | G |
| Freq Controls (n) | 0.14 (352) | 0.14 (348) | 0.16 (351) |
| Freq Cases (n) | 0.22 (353) | 0.22 (343) | 0.24 (353) |
| χ 2 | 17.08 | 17.04 | 13.66 |
| P | 3.58 × 10−5 | 3.67 × 10−4 | 2.19 × 10−4 |
| OR (95% CI) | 1.79 (1.36-2.37) | 1.80 (1.36-2.39) | 1.65 (1.26-2.15) |
| Asians | C | C | G |
| Freq Controls (n) | 0.61 (601) | 0.47 (599) | 0.45 (600) |
| Freq Cases (n) | 0.68 (552) | 0.57 (549) | 0.51 (553) |
| χ 2 | 11.09 | 26.76 | 9.81 |
| P | 8.70 × 10−4 | 2.30 × 10−7 | 1.73 × 10−3 |
| OR (95% CI) | 1.34 (1.13-1.59) | 1.54 (1.31-1.82) | 1.30 (1.10-1.53) |
| African Americans | C | C | G |
| Freq Controls (n) | 0.11 (142) | 0.08 (138) | 0.13 (139) |
| Freq Cases (n) | 0.13 (124) | 0.10 (113) | 0.17 (124) |
| χ 2 | 0.70 | 0.74 | 1.08 |
| P | 0.40 | 0.39 | 0.30 |
| OR (95% CI) | 1.25 (0.74-2.13) | 1.31 (0.71-2.42) | 1.29 (0.80-2.09) |
Note: Frequencies at the 3 SNPs did not differ between DQB1*0602 positive (n=81) versus DQB1*0602 negative (n=271) controls within the subset of Caucasians with that information. In addition, allele frequency of these three SNPs did not differ between DQB1*0602 positive (n=470) and negative (n=1375) Caucasian controls.