Table 5. Allele frequencies of MECP2 SNPs in European-derived SLE patients and controls.

SNP	Risk allele	Risk allele frequency*		Chi2	OR (95% CI)		p value	Permutation p value	HWE (p value)
		Cases n (%)	Controls n (%)						Cases	Controls
rs2266890	A	418 (21.2)	354 (18.0)	6.24	1.22	(1.04–1.43)	0.013	0.068	0.45	0.21
rs2075596	A	371(18.5)	301(15.5)	8.59	1.28	(1.09–1.52)	0.0034	0.02	0.70	1
rs3027933	C	383 (19.1)	308 (15.3)	9.83	1.30	(1.10–1.53)	0.0017	0.01	0.72	0.92
rs3027935	G	1879 (93.8)	1865 (93.0)	1.01	1.14	(0.89–1.46)	0.31	0.79	0.03	0.14
rs3027939	G	104 (5.5)	97 (5.0)	0.57	1.12	(0.84–1.48)	0.45	0.92	0.02	0.68
rs17435	T	500 (24.9)	411 (20.5)	11.25	1.29	(1.11–1.49)	0.0008	0.0047	0.27	0.36
rs1624766	G	497 (24.8)	412 (20.5)	10.39	1.28	(1.10–1.48)	0.0013	0.0074	0.48	0.36
rs7884370	G	109 (5.4)	98 (4.9)	0.63	1.12	(0.85–1.48)	0.43	0.91	0.02	0.68
rs1734787	C	387 (19.3)	307 (15.3)	11.15	1.32	(1.12–1.56)	0.0008	0.0048	1	0.92
rs5987201	A	109 (5.4)	98 (4.9)	0.62	1.12	(0.85–1.48)	0.43	0.91	0.02	0.68
rs1734791	A	389 (19.4)	311 (15.5)	10.43	1.31	(1.11–1.54)	0.0012	0.0072	0.91	1
rs1734792	A	388 (19.3)	311 (15.5)	10.27	1.31	(1.11–1.54)	0.0014	0.0078	0.88	1
rs11156611	A	108 (5.4)	98 (4.9)	0.51	1.11	(0.84–1.47)	0.47	0.94	0.02	0.68
rs2239464	A	475 (23.7)	400 (19.9)	8.13	1.24	(1.07–1.45)	0.0044	0.026	0.72	0.27
rs5945175	G	115 (5.7)	103 (5.1)	0.70	1.12	(0.86–1.48)	0.40	0.89	0.85	0.45

OR, odds ratio; CI, confidence interval; HWE, Hardy-Weinberg equilibrium.

^*A total of 1080 independent cases and 1080 healthy unrelated controls matched for race and sex were genotyped