Table 5. Comparison of association results for loci associated with systemic lupus erythematosus described in Gateva et. al [7], stratified by anti–dsDNA autoantibody production.
| SLE versus healthy controls | anti–dsDNA + versus healthy controls | anti–dsDNA – versus healthy controls | Case Only Analysis | |||||||
| (1717 cases, 4813 controls) | (811 cases, 4813 controls) | (906 cases, 4813 controls) | Test of hetero-geneity | (811 anti–dsDNA+ cases versus 906 anti–dsDNA – cases) | ||||||
| Gene | SNP | OR (95% CI) | p(λGC = 1.080) | OR (95% CI) | p(λGC = 1.048) | OR (95% CI) | p(λGC = 1.045) | p | OR (95% CI) | p(λGC = 1.000) |
| PTPN22 | rs2476601 | 1.26 (1.1–1.43) | 9.5E-04 | 1.41 (1.19–1.66) | 8.7E-05 | 1.14 (0.96–1.35) | 0.15 | 0.078 | 1.24 (1.00–1.53) | 0.047 |
| FCGR2A | rs1801274 | 0.84 (0.77–0.91) | 4.7E-05 | 0.83 (0.74–0.92) | 0.0010 | 0.84 (0.76–0.94) | 0.0022 | 0.80 | 0.99 (0.87–1.14) | 0.92 |
| OX40L | rs2205960 | 1.24 (1.13–1.36) | 1.7E-05 | 1.28 (1.13–1.44) | 1.6E-04 | 1.22 (1.09–1.38) | 0.0012 | 0.64 | 1.06 (0.91–1.23) | 0.48 |
| IL10 | rs3024505 | 1.25 (1.13–1.39) | 4.8E-05 | 1.29 (1.12–1.49) | 4.1E-04 | 1.24 (1.08–1.41) | 0.0022 | 0.66 | 1.04 (0.87–1.23) | 0.69 |
| STAT4 | rs7574865 | 1.49 (1.36–1.63) | 3.6E-16 | 1.77 (1.57–1.99) | 2.0E-20 | 1.26 (1.12–1.41) | 2.4E-04 | <0.0005 | 1.41 (1.21–1.63) | 7.9E-06 |
| PXK | rs6445975 | 1.14 (1.05–1.25) | 0.0045 | 1.15 (1.02–1.29) | 0.027 | 1.14 (1.02–1.28) | 0.027 | 0.95 | 1.01 (0.88–1.17) | 0.87 |
| BANK1 | rs10516487 | 0.93 (0.85–1.01) | 0.11 | 0.85 (0.76–0.96) | 0.011 | 1.01 (0.9–1.13) | 0.92 | 0.048 | 0.85 (0.73–0.99) | 0.030 |
| TNIP1 | rs10036748 | 1.26 (1.15–1.38)a | 2.5E-06a | 1.30 (1.15–1.46)b | 3.0E-05b | 1.23 (1.09–1.38)c | 7.9E-04c | 0.51 | 1.08 (0.93–1.25)d | 0.32d |
| PTTG1 | rs2431099 | 0.84 (0.78–0.91)a | 1.1E-04a | 0.78 (0.70–0.87)b | 1.4E-05b | 0.91 (0.82–1.01)c | 0.072c | 0.052 | 0.87 (0.76–0.99)d | 0.037d |
| HLA-DR2 | rs9271366 | 1.27 (1.13–1.41) | 7.4E-05 | 1.36 (1.17–1.57) | 7.1E-05 | 1.18 (1.03–1.36) | 0.024 | 0.19 | 1.16 (0.97–1.39) | 0.11 |
| HLA-DR3 | rs2187668 | 1.91 (1.71–2.14) | 1.0E-27 | 2.23 (1.94–2.57) | 5.8E-28 | 1.62 (1.4–1.87) | 1.2E-10 | 0.002 | 1.40 (1.18–1.67) | 1.4E-04 |
| UHRF1BP1 | rs9462015 | 1.27 (1.16–1.38) | 1.8E-07 | 1.27 (1.14–1.42) | 5.3E-05 | 1.27 (1.14–1.42) | 2.4E-05 | 1.00 | 1 (0.87–1.15) | 0.96 |
| PRDM1 | rs6568431 | 1.19 (1.1–1.3) | 4.2E-05 | 1.19 (1.06–1.32) | 0.0026 | 1.2 (1.08–1.33) | 8.5E-04 | 0.88 | 0.98 (0.86–1.12) | 0.77 |
| ATG5 | rs633724 | 1.13 (1.04–1.22) | 0.0069 | 1.18 (1.06–1.32) | 0.0043 | 1.08 (0.97–1.2) | 0.16 | 0.27 | 1.1 (0.96–1.26) | 0.19 |
| TNFAIP3 | rs2327832 | 1.2 (1.08–1.32) | 5.4E-04 | 1.27 (1.12–1.44) | 2.8E-04 | 1.13 (1–1.28) | 0.065 | 0.19 | 1.12 (0.96–1.31) | 0.14 |
| JAZF1 | rs1635852 | 1.15 (1.06–1.24) | 0.0012 | 1.21 (1.09–1.35) | 6.2E-04 | 1.09 (0.99–1.21) | 0.091 | 0.18 | 0.89 (0.78–1.02) | 0.091 |
| IRF5 | rs10488631 | 1.74 (1.55–1.95) | 1.9E-19 | 1.92 (1.66–2.22) | 7.2E-18 | 1.57 (1.35–1.82) | 6.2E-09 | 0.056 | 1.23 (1.03–1.48) | 0.022 |
| BLK | rs2248932 | 1.24 (1.14–1.35) | 2.7E-06 | 1.28 (1.14–1.43) | 2.9E-05 | 1.2 (1.08–1.34) | 0.0011 | 0.44 | 1.06 (0.92–1.22) | 0.39 |
| KIAA1542 | rs4963128 | 0.84 (0.77–0.92) | 1.9E-04 | 0.75 (0.67–0.85) | 3.9E-06 | 0.92 (0.82–1.03) | 0.14 | 0.014 | 0.81 (0.70–0.93) | 0.0034 |
| ITGAM | rs9888739 | 1.53 (1.37–1.71) | 3.4E-13 | 1.8 (1.56–2.07) | 1.1E-15 | 1.32 (1.15–1.53) | 2.1E-04 | 0.003 | 1.35 (1.14–1.61) | 7.0E-04 |
| UBE2L3 | rs5754217 | 1.22 (1.1–1.35) | 1.7E-04 | 1.38 (1.21–1.57) | 1.9E-06 | 1.09 (0.95–1.24) | 0.22 | 0.011 | 1.28 (1.08–1.51) | 0.0038 |
| IRAK1 | rs2269368 | 1.19 (1.06–1.33) | 6.1E-03 | 1.2 (1.03–1.4) | 2.2E-02 | 1.17 (1.01–1.35) | 0.045 | 0.80 | 1.02 (0.85–1.23) | 0.82 |
a imputed analysis, λGC = 1.118.
b imputed analysis, λGC = 1.071.
c imputed analysis, λGC = 1.066.
d imputed analysis, λGC = 1.001.