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Table 2 Combined analysis of allele frequency differences between SLE cases and controls for nine autosomal loci

From: Replication of recently identified systemic lupus erythematosus genetic associations: a case–control study

  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
  1. Loci ordered by decreasing effect size (odds ratio (OR)). All results refer to the minor allele of each SNP, which is indicated in Table 1. CI, confidence interval; SLE, systemic lupus erythematosus. aData presented as percentage (number of minor alleles/total number of alleles).