Table 4

Comparison of SNP allele frequencies between SLE men and control men

Minor allele frequency (%)^a

Mantel – Haenszel analysis

SNP (locus)

SLE cases

Controls

OR (95% CI)

P value

rs1143679 (ITGAM)

27.9 (83/298)

15.7 (181/1,154)

2.08 (1.5 to 2.8)

1.2 × 10^-6

rs7574865 (STAT4)

31.7 (64/202)

21.5 (159/740)

1.69 (1.2 to 2.4)

0.0025

rs13277113 (C8orf13-BLK)

31.0 (88/284)

25.1 (267/1,064)

1.34 (1.0 to 1.8)

0.045

rs2304256 (TYK2)

26.8 (80/298)

28.8 (334/1,158)

0.91 (0.7 to 1.2)

0.5

rs17435 (MECP2)^b

29.2 (42/144)

18.5 (105/568)

1.82 (1.2 to 2.8)

0.0046

rs10798269 (1q25.1)

28.0 (84/300)

30.7 (355/1,158)

0.88 (0.7 to 1.2)

0.4

rs17266594 (BANK1)

26.2 (56/214)

28.4 (227/798)

0.89 (0.6 to 1.3)

0.5

rs4963128 (KIAA1542)

28.0 (84/300)

34.9 (403/1,156)

0.73 (0.6 to 1.0)

0.025

rs6445975 (PXK)

32.1 (86/268)

24.8 (265/1,068)

1.43 (1.1 to 1.9)

0.016

rs509749 (LY9)

40.6 (121/298)

42.9 (496/1,156)

0.91 (0.7 to 1.2)

0.5

Loci ordered as presented in Table 2. All results refer to the minor allele of each SNP, which is indicated in Table 1. No stratified analysis by sample collection was done due to the small number of patients with systemic lupus erythematosus (SLE) in each collection. CI, confidence interval; OR, odds ratio. ^aData presented as percentage (number of minor alleles/total number of alleles). ^bThese results are of carrier analysis because MECP2 is in the X chromosome and there is a single allele in each man.

Suarez-Gestal et al. Arthritis Research & Therapy 2009 11:R69   doi:10.1186/ar2698