Association of directly typed and imputed markers in the ICAM locus and ITGAM with susceptibility to systemic lupus erythematosus
| European (n=7427) | African (n=3613) | Hispanic (n=2299) | Korean (n=1380 or 4142)† | Meta-analysis (n≤17 481)‡ | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Gene | SNP* | MAF (SLE/controls) | OR | MAF (SLE/controls) | OR | MAF (SLE/controls) | OR | MAF (SLE/controls) | OR | OR | p Value |
| ICAM1–ICAM4–ICAM5 | |||||||||||
| rs3093030 (G>A) | (0.471/0.442) | 1.12 | (0.107/0.092) | 1.18 | (0.580/0.518) | 1.28 | (0.353/0.318) | 1.17 | 1.16 | 4.88×10−10 | |
| rs2569693 (C>T) | (0.427/0.403) | 1.11 | (0.097/0.085) | 1.16§ | (0.550/0.492) | 1.26 | (0.363/0.332) | 1.14§ | 1.14 | 4.50×10−7 | |
| rs5498 (A>G) | (0.470/0.445) | 1.11 | (0.188/0.173) | 1.11§ | (0.582/0.524) | 1.26 | (0.414/0.384) | 1.13§ | 1.13 | 6.08×10−7 | |
| rs2228615 (G>A) | (0.427/0.403) | 1.11 | (0.098/0.087) | 1.14§ | (0.552/0.496) | 1.25 | (0.346/0.319) | 1.13§ | 1.14 | 1.05×10−6 | |
| rs2569702 (T>C) | (0.431/0.408) | 1.10 | (0.097/0.085) | 1.16§ | (0.552/0.494) | 1.26 | (0.345/0.318) | 1.13§ | 1.14 | 1.27×10−6 | |
| rs892188 (C>T) | (0.431/0.408) | 1.10 | (0.097/0.085) | 1.16§ | (0.552/0.494) | 1.26 | (0.345/0.318) | 1.13§ | 1.14 | 1.27×10−6 | |
| rs281437 (G>A) | (0.276/0.288) | 0.94§ | (0.339/0.379) | 0.84§ | (0.175/0.220) | 0.75 | (0.088/0.092) | 0.95§ | 0.89 | 8.28×10−6 | |
| ITGAM | |||||||||||
| rs1143679 (G>A) | (0.194/0.126) | 1.67 | (0.157/0.104) | 1.82 | (0.168/0.100) | 1.59 | (0.002/0.000) | NC | 1.67 | 3.32×10−46 | |
↵* Four SNPs (rs3093030, rs5498, rs2228615 and rs281437) were genotyped and the other three SNPs (rs2569693, rs2569702 and rs892188) were imputed. The major allele is more common than the minor allele in the whole control population but not necessarily in each subpopulation.
↵† A total of 4142 Korean participants from phase I and phase II were genotyped for rs3093030, and the separate analyses are shown in online supplementary table S2.
↵‡ Fixed-effects p value and OR were calculated from the meta-analysis because the effect size of each SNP was not significantly different among the ancestry populations (p>0.01 in Cochran's Q statistic). For ITGAM rs1143679, the meta-analysis was performed with European, African and Hispanic results.
↵§ Allelic associations with SLE were not statistically significant at a threshold of α=0.05. The detailed information is shown in online supplementary table S2.
MAF, minor allele frequency; NC, not calculated; SLE, systemic lupus erythematosus; SNP, single-nucleotide polymorphism.