Meta-analysis of two Chinese populations identifies an autoimmune disease risk allele in 22q11.21 as associated with systemic lupus erythematosus

Table 2 Meta-analysis results for single-nucleotide polymorphisms reported in previous genome-wide association studies on other immune-related diseases in the 22q11.21 region ^a

G/I	SNP	Base pair	A1/A2	AH			HK			P _meta-value	P _het-value	Disease(s)
G/I	SNP	Base pair	A1/A2	F_A/F_U	P -value	OR (95% CI)	F_A/F_U	P -value	OR (95% CI)	P _meta-value	P _het-value	Disease(s)
G	rs463426	21,809,185	C/T	0.46/0.53	3.62E-05	0.78 (0.70 to 0.88)	0.42/0.45	0.08	0.89 (0.79 to 1.02)	2.50E-05	0.14	SLE
G	rs131654	21,917,190	G/T	0.41/0.48	1.60E-05	0.77 (0.69 to 0.87)	0.38/0.40	0.24	0.93 (0.81 to 1.05)	7.27E-05	0.04	SLE
I	rs2266959	21,922,904	T/G	0.45/0.37	3.22E-07	1.37 (1.21 to 1.54)	0.52/0.47	1.66E-03	1.22 (1.07 to 1.38)	4.41E-09	0.27	IBD
I	rs181359	21,928,641	A/G	0.53/0.46	1.86E-06	1.33 (1.18 to 1.50)	0.58/0.56	0.07	1.12 (0.99 to 1.28)	2.36E-06	0.06	PS, CD
G	rs5754217	21,939,675	T/G	0.53/0.46	1.04E-06	1.34 (1.19 to 1.51)	0.59/0.56	0.09	1.12 (0.98 to 1.27)	2.07E-06	0.04	SLE
G	rs2298428	21,982,892	T/C	0.44/0.37	4.72E-07	1.37 (1.21 to 1.54)	0.51/0.46	8.44E-04	1.24 (1.09 to 1.40)	2.70E-09	0.36	CD, CeD, RA, SSc

^aAH, Anhui; CeD, Celiac disease; CS, Crohn’s disease; CI, Confidence interval; HK, Hong Kong; IBD, Inflammatory bowel disease; PS, Psoriasis; RA, Rheumatoid arthritis; SSc, Systemic sclerosis; SLE, Systemic lupus erythematosus. G/I indicates whether the single-nucleotide polymorphism (SNP) are genotyped (G) or imputed (I). A1/A2 indicates the minor allele/major allele of the SNP. F_A/F_U indicates minor allele frequency of the SNP in cases or controls. The calculation of odds ratio (OR) is also based on the minor allele of each SNP. The risk allele of each SNP is italics.

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