Table 3.

Detected methQTLs based on 1 MB neighboring SNPs of CpGs in gene IKZF3 between genetic and epigenetic association studies with asthma.

Gene	CpG	SNPs	Gtypea	DNAmean	DNAm SD	Effects (95% CIb)	P value	PFDR c
IKZF3	cg03293732	rs4795405	AA	0.64	0.054	—	4.04 × 10−5	3.63 × 10−2
			AG	0.92	0.053	0.28; (0.11, 0.45)
			GG	1.22	0.033	0.58; (0.35, 0.81)
	cg03293732	rs10445308	AA	0.64	0.060	—	5.26 × 10−5	3.63 × 10−2
			AG	0.92	0.051	0.28; (0.11, 0.45)
			GG	1.26	0.031	0.62; (0.37, 0.88)
	cg03293732	rs12603332	AA	0.68	0.049	—	7.16 × 10−5	3.63 × 10−2
			AG	0.94	0.059	0.25; (0.091, 0.42)
			GG	1.22	0.033	0.54; (0.315, 0.77)
	cg03293732	rs4378650	AA	0.68	0.049	—	7.16 × 10−5	3.63 × 10−2
			AG	0.94	0.059	0.25; (0.091, 0.42)
			GG	1.22	0.033	0.54; (0.315, 0.77)
	cg03293732	rs12950743	AA	1.26	0.031	—	9.68 × 10−5	3.63 × 10−2
			AG	0.93	0.057	−0.33; (−0.57, −0.10)
			GG	0.68	0.053	−0.58; (−0.82, −0.33)
	cg03293732	rs907091	AA	1.26	0.031	—	9.68 × 10−5	3.63 × 10−2
			AG	0.93	0.057	−0.33; (−0.57, −0.10)
			GG	0.68	0.053	−0.58; (−0.82, −0.33)
	cg20709984	rs2598068	AA	2.1	0.194	—	1.21 × 10−5	2.14 × 10−2
			AG	2.6	0.118	0.50; (0.24, 0.76)
			GG	1.4	0.081	−0.71; (−1.20, −0.22)
	cg20709984	exm614782	AA	1.4	0.081	—	2.86 × 10−5	2.14 × 10−2
			AG	2.6	0.124	1.22; (0.71, 1.7)
			GG	2.2	0.196	0.75; (0.25, 1.3)
	cg20709984	rs2722371	AA	1.4	0.081	—	2.86 × 10−5	2.14 × 10−2
			AG	2.6	0.124	1.22; (0.71, 1.7)
			GG	2.2	0.196	0.75; (0.25, 1.3)

Abbreviations: ANOVA, analysis of variance; CpG, 5′-C-phosphate-G-3′; DNAm, DNA methylation; FDR, false discovery rate; methQTLs, methylation quantitative loci; SNPs, single-nucleotide polymorphisms.

^aGtype: genotype; the first genotype for each SNP is the reference in the ANOVA test.

^b95% CI: 95% confidence interval of the effects. Also, “—” indicates the reference group.

^cP_FDR: P values after adjusting for multiple testing by controlling the FDR of 0.05 based on the P values from ANOVA tests for each gene.