Table 1.

The characteristics of cis-mQTLs.

CHR	SNP	CpG	Gene	Beta	SE	P-value
2	rs2373298	cg04480325	Intergenic	−0.039	0.005	1.92×10−16
2	rs2373298	cg04521224	Intergenic	−0.026	0.003	5.18×10−15
2	chr2:37987728	cg06480171	Intergenic	−0.017	0.002	9.71×10−13
2	rs2373298	cg24523650	EIF2AK2	−0.079	0.006	2.64×10−34
3	rs3009045	cg04863667	Intergenic	−0.036	0.004	6.81×10−15
10	rs1751949	cg00730780	KIAA1462	−0.019	0.003	7.29×10−11
10	rs2768668	cg01062834	KIAA1462	−0.009	0.001	4.58×10−12
10	rs2768668	cg03325931	BAMBI	−0.018	0.003	5.57×10−12
10	rs2768668	cg08461107	KIAA1462	0.021	0.003	1.25×10−14
10	rs2768668	cg11614536	KIAA1462	−0.014	0.001	5.52×10−21
10	rs71492582	cg11902278	SVIL	−0.034	0.003	1.19×10−28
10	rs2768668	cg16513467	WAC	−0.007	0.001	6.98×10−15
10	rs2768668	cg17428896	SVIL	−0.031	0.004	2.86×10−15
10	rs71492582	cg18975376	BAMBI	−0.017	0.002	6.03×10−19
10	rs1751947	cg19359767	Intergenic	−0.024	0.003	6.68×10−13
10	rs71492582	cg19826211	KIAA1462	−0.01	0.001	1.17×10−18
10	rs71492581	cg20628376	Intergenic	−0.022	0.003	8.13×10−13
10	rs71492581	cg27036936	KIAA1462	−0.023	0.003	5.01×10−15
13	rs10161769	cg00473245	RAB20	−0.007	0.001	2.15×10−14
13	rs10161769	cg02742906	Intergenic	0.019	0.002	2.53×10−18
13	rs10161769	cg08152546	Intergenic	0.013	0.002	2.72×10−15
13	rs10161769	cg09469566	Intergenic	0.018	0.002	1.29×10−14
13	rs10161769	cg10372485	CARS2	0.009	0.001	1.61×10−12
13	rs10161769	cg15182896	Intergenic	0.025	0.002	1.53×10−24
13	rs10161769	cg15270851	CARS2	0.008	0.001	1.89×10−16
13	rs10161769	cg17488929	Intergenic	0.016	0.002	2.07×10−17
13	rs10161769	cg17633592	Intergenic	0.011	0.001	2.39×10−13
13	rs10161769	cg18541254	Intergenic	0.011	0.002	7.95×10−11
13	rs10161769	cg18973457	Intergenic	0.004	0.001	2.81×10−11
13	rs10161769	cg19246801	Intergenic	0.014	0.002	5.40×10−11
13	rs10161769	cg20829347	SOX1	0.006	0.001	1.72×10−12
13	rs10161769	cg21054521	Intergenic	0.02	0.003	5.71×10−12
13	rs10161769	cg23119039	COL4A2	0.029	0.003	7.25×10−17
13	rs10161769	cg23934404	Intergenic	0.012	0.002	2.89×10−13
13	rs10161769	cg24074965	Intergenic	0.013	0.002	1.49×10−14
13	rs10161769	cg25554685	Intergenic	0.012	0.001	5.13×10−16
17	rs2159085	cg03363653	C17orf76	−0.017	0.002	4.31×10−18
17	rs2159085	cg05090851	UBB	−0.006	0.001	6.08×10−11
17	rs2159085	cg09105334	Intergenic	−0.082	0.006	8.74×10−37
17	rs2159085	cg13180678	CENPV	−0.016	0.002	3.42×10−12
17	rs2159085	cg18002814	FAM18B2	−0.014	0.002	2.31×10−11
17	rs2159085	cg20577663	CDRT4	−0.027	0.003	2.58×10−21
17	rs2159085	cg22229594	PMP22	−0.006	0.001	6.92×10−11
17	rs2159085	cg24443925	NCOR1	0.012	0.001	3.08×10−20
17	rs2159085	cg26744387	C17orf76	−0.013	0.002	3.26×10−14
17	rs2159085	cg27131197	Intergenic	−0.043	0.005	2.05×10−17
18	rs56945077	cg03671802	RAX	0.043	0.004	1.58×10−22

Analyses were performed using the R package “MatrixEQTL”, and multiple testings were used (i.e., 0.05/number of SNP-CpG pairs=1.35×10⁻¹⁰).

Beta is the estimated effect size.

CHR, chromosome; SNP, single-nucleotide polymorphism; mQTL: quantitative trait loci; SE, standard error of the effect size.