Profile of copper-associated DNA methylation and its association with incident acute coronary syndrome

Long, Pinpin; Wang, Qiuhong; Zhang, Yizhi; Zhu, Xiaoyan; Yu, Kuai; Jiang, Haijing; Liu, Xuezhen; Zhou, Min; Yuan, Yu; Liu, Kang; Jiang, Jing; Zhang, Xiaomin; He, Meian; Guo, Huan; Chen, Weihong; Yuan, Jing; Cheng, Longxian; Liang, Liming; Wu, Tangchun

doi:10.1186/s13148-021-01004-w

Clinical Epigenetics

Table 3 Methylation-gene expression correlations of the plasma copper-related CpGs (p Value < 1 × 10⁻⁵)

From: Profile of copper-associated DNA methylation and its association with incident acute coronary syndrome

CpGs		Gene expression probes			Methylation–expression correlations
CHR	CpG	Expression probe	Gene	Expression rate	Relation to gene	Effect	p-Value	FDR
1	cg25112191	ILMN_1771126	RORC	51.39%	1stExon;5′UTR	1.67 (3.01)	0.58	0.76
1	cg25112191	ILMN_1734366	RORC	84.72%	1stExon;5′UTR	1.64 (2.22)	0.74	0.84
1	cg25112191	ILMN_1680399	KIAA1026	65.28%	< 50 kb	− 7.51 (2.20)	9.83 × 10^–4	3.71 × 10^–3
1	cg25112191	ILMN_1770927	KIAA1026	87.50%	< 50 kb	− 7.43 (2.05)	4.33 × 10^–4	1.84 × 10^–3
1	cg25112191	ILMN_1798458	KIAA1026	95.83%	< 50 kb	− 7.19 (1.98)	3.91 × 10^–4	2.22 × 10^–3
1	cg25112191	ILMN_1792726	TDRKH	36.81%	< 50 kb	1.15 (2.76)	0.68	0.82
2	cg11023668	ILMN_1676893	ADCY3	100.00%	Body	− 0.51 (0.92)	0.58	0.73
2	cg20995564	ILMN_1688698	ZEB2	100.00%	Body	1.39 (1.26)	0.27	0.46
3	cg21945842	ILMN_1670870	ALCAM	100.00%	TSS1500	3.25 (3.58)	0.37	0.57
5	cg24805089	ILMN_2357015	GRK6	100.00%	Body	− 2.42 (4.28)	0.57	0.78
5	cg24805089	ILMN_1681802	GRK6	100.00%	Body	0.68 (4.37)	0.88	0.97
7	cg21852842	ILMN_2358069	MAD1L1	100.00%	Body	3.14 (1.73)	0.07	0.19
8	cg18734877	ILMN_1732318	PTK2B	100.00%	Body	5.44 (2.21)	0.01	0.05
8	cg18734877	ILMN_2330966	PTK2B	100.00%	Body	3.51 (2.18)	0.11	0.23
8	cg18734877	ILMN_1698849	CHRNA2	82.64%	< 50 kb	0.15 (2.53)	0.95	0.98
8	cg18734877	ILMN_1709237	EPHX2	100.00%	< 50 kb	− 2.03 (2.19)	0.35	0.57
16	cg07798295	ILMN_1709439	CHMP1A	100.00%	Body	− 2.63 (3.67)	0.47	0.67
19	cg18608055	ILMN_1808811	SBNO2	100.00%	Body	7.28 (1.81)	9.53 × 10^–5	6.48 × 10^–4
19	cg18608055	ILMN_1734353	GPX4	100.00%	< 50 kb	− 10.28 (1.78)	4.48 × 10^–8	7.62 × 10^–7
19	cg18608055	ILMN_2378952	GPX4	100.00%	< 50 kb	− 10.57 (1.77)	1.84 × 10^–8	6.26 × 10^–7
19	cg18608055	ILMN_1811392	HMHA1	100.00%	< 50 kb	9.28 (1.79)	7.40 × 10^–7	8.39 × 10^–6
19	cg18608055	ILMN_3239240	POLR2E	100.00%	< 50 kb	0.78 (1.97)	0.69	0.81
19	cg26470501^a	ILMN_1710514	BCL3	100.00%	Body	− 3.77 (2.55)	0.14	0.27
20	cg24263062^a	ILMN_3261292	EBF4	90.97%	Body	2.01 (1.33)	0.14	0.27
20	cg24263062	ILMN_1712046	CPXM1	66.67%	< 50 kb	2.57 (1.49)	0.09	0.21
20	cg05825244^a	ILMN_3261292	EBF4	90.97%	Body	1.25 (0.73)	0.09	0.21
20	cg05825244	ILMN_1712046	CPXM1	66.67%	< 50 kb	2.06 (0.82)	0.01	0.04
20	cg01523712	ILMN_1746031	RIMS4	59.44%	Body	1.80 (2.39)	0.45	0.67
22	cg09349128	ILMN_1782129	ZBED4	100.00%	< 50 kb	10.42 (2.88)	4.20 × 10^–4	2.04 × 10^–3
22	cg09349128	ILMN_1743995	ALG12	97.22%	< 50 kb	− 0.14 (3.00)	0.96	0.96
22	cg09349128	ILMN_1748707	CRELD2	100.00%	< 50 kb	− 0.20 (2.97)	0.95	1.00
22	cg09349128	ILMN_1672034	PIM3	48.95%	< 50 kb	− 5.22 (3.86)	0.18	0.33
22	cg09349128	ILMN_1707748	PIM3	100.00%	< 50 kb	− 12.08 (2.76)	2.34 × 10^–5	1.99 × 10^–4
22	cg09349128	ILMN_1789781	PIM3	88.11%	< 50 kb	− 7.22 (3.04)	0.02	0.06

Methylation–expression correlations were calculated using linear regressions in which inverse normal transformed expression values were regressed on original methylation values adjusted for age and gender. The significant threshold of methylation–expression associations was set at FDR < 0.05
^aDNA methylation level of cg26470501 was reported to associated with expression of BCL3 gene; DNA methylation level of cg24263062 and cg05825244 was reported to positively associated with EBF4 gene in public database (FDR < 0.05) (https://www.genenetwork.nl/biosqtlbrowser/)

Back to article page

ISSN: 1868-7083

Contact us

Submission enquiries: avalyn.villar@springernature.com
General enquiries: info@biomedcentral.com