. 2021 Sep 13;10:e68671. doi: 10.7554/eLife.68671

Table 2. Associations of 25 significant CpGs with the risk of coronary heart disease.

Chr	Position(hg19)	CpG	SD	Gene	Relation to gene	EWAS			WGCNA^*	Odds Ratio^† (95% CI)
Chr	Position(hg19)	CpG	SD	Gene	Relation to gene	β^‡	P	FDR	Module-specific FDR	Odds Ratio^† (95% CI)
9	115513036	cg23398826	0.008	SNX30	TSS200	–0.003	1.57E-08	0.012	1.05E-04	0.56 (0.45, 0.70)
3	49068057	cg02386575	0.016	IMPDH2	TSS1500	0.006	9.61E-08	0.036	2.02E-04	2.00 (1.57, 2.56)
3	49068057	cg02386575	0.016	QRICH1	Body	0.006	9.61E-08	0.036	2.02E-04	2.00 (1.57, 2.56)
19	37329330	cg10400937	0.007	ZNF790	TSS200	0.002	1.09E-05	0.288	0.009	1.53 (1.24, 1.89)
12	131758671	cg20562821	0.022	(RPS6P20 ^§)		0.005	2.42E-05	0.288	0.009	1.72 (1.28, 2.31)
6	34855635	cg08106661	0.016	TAF11	1stExon	0.003	3.16E-05	0.305	0.009	1.87 (1.35, 2.59)
6	34855635	cg08106661	0.016	ANKS1A	TSS1500	0.003	3.16E-05	0.305	0.009	1.87 (1.35, 2.59)
1	153203211	cg11630610	0.019	(MIR584^§)		0.005	3.83E-05	0.329	0.009	1.77 (1.36, 2.32)
1	8426319	cg20302171	0.018	RERE	5'UTR	–0.004	4.29E-05	0.340	0.009	0.55 (0.42, 0.73)
11	63909324	cg26334131	0.025	MACROD1	Body	–0.005	4.44E-05	0.340	0.009	0.53 (0.38, 0.73)
20	2444631	cg07560408	0.018	SNORD119	TSS1500	–0.005	4.46E-05	0.340	0.009	0.60 (0.47, 0.77)
20	2444631	cg07560408	0.018	SNRPB	Body	–0.005	4.46E-05	0.340	0.009	0.60 (0.47, 0.77)
19	46522185	cg21210537	0.027	MIR769	TSS200	0.004	4.85E-05	0.356	0.009	2.18 (1.47, 3.23)
20	60546782	cg15833447	0.021	(TAF4^§)		0.006	5.55E-05	0.375	0.009	1.50 (1.20, 1.88)
11	94963255	cg02591826	0.005	LOC100129203	TSS200	0.002	5.70E-05	0.375	0.009	1.52 (1.23, 1.87)
7	100861083	cg16639138	0.006	ZNHIT1	5'UTR/1stExon	0.002	6.46E-05	0.375	0.009	1.52 (1.24, 1.86)
7	100861083	cg16639138	0.006	PLOD3	TSS200	0.002	6.46E-05	0.375	0.009	1.52 (1.24, 1.86)
6	27863042	cg01545454	0.007	(HIST1H2BO^§)		0.002	7.29E-05	0.378	0.009	1.64 (1.26, 2.13)
1	203242409	cg07219103	0.008	(CHIT1^§)		0.002	7.35E-05	0.378	0.009	1.78 (1.28, 2.47)
22	23994996	cg05681643	0.018	GUSBP11	Body	0.004	7.42E-05	0.378	0.009	1.60 (1.24, 2.08)
2	88991375	cg06358566	0.009	RPIA	1stExon	–0.002	7.74E-05	0.385	0.009	0.62 (0.48, 0.80)
2	162273185	cg19583211	0.016	TBR1	1stExon	–0.003	7.97E-05	0.385	0.009	0.56 (0.41, 0.77)
20	3613189	cg10643850	0.025	ATRN	Body	0.004	8.04E-05	0.385	0.009	1.97 (1.37, 2.82)
17	17460905	cg13311494	0.016	PEMT	Body	–0.005	8.50E-05	0.397	0.009	0.64 (0.52, 0.79)
1	179852195	cg11754670	0.009	TOR1AIP1	Body	0.001	8.84E-05	0.398	0.009	2.04 (1.40, 2.97)
15	74928935	cg05740632	0.014	EDC3	Body	–0.004	9.07E-05	0.398	0.009	0.62 (0.49, 0.78)
11	1972510	cg08484100	0.023	MRPL23	Body	–0.004	9.19E-05	0.398	0.009	0.54 (0.40, 0.74)
1	52822428	cg24792179	0.019	CC2D1B	Body	0.004	9.87E-05	0.410	0.009	1.79 (1.36, 2.35)
7	68973036	cg22794712	0.021	(LOC100507468^§)		–0.006	1.10E-04	0.413	0.010	0.63 (0.50, 0.80)

cg23398826 in the Turquoise module, all other CpGs in the Brown module.

^†

Odds ratios were for per standard deviation increase in DNA methylation level.

^‡

Effect sizes were calculated based on normalized methylation values, denoting the methylation difference between cases and controls.

^§

For inter-genic CpG sites, R package FDb.InfiniumMethylation.hg19 was used to locate the nearest annotated gene.

CpG = cytosine-phosphoguanine site; Chr = chromosome; EWAS = epigenome wide association; WGCNA = weighted gene co-methylation network analysis; FDR = false discovery rate; CI = confidence interval; TSS200 = within 200 bp from transcription start site; TSS1500 = within 1500 bp from transcription start site; Body = the CpG is in gene body; 1stExon = the first exon; and UTR = untranslated region.