Genome-Wide Expression of MicroRNAs Is Regulated by DNA Methylation in Hepatocarcinogenesis

Table 2

Inverse correlations between DNA methylation differences and miRNA fold changes in the discovery set ( pairs).

mir^* (chromosome location)	CpG sites	Distance to miRNA (bp)	Methylation difference (T versus NT)	Fold change (T versus NT)	Spearman correlation coefficients	P values
mir-10a; 17q21.32; 46,657,200–46,657,309	cg15649236	195	0.25	−3.58	−0.35
	cg01572694	246	0.19	−3.58	−0.33
	cg14884929	347	0.10	−3.58	−0.09
mir-18a; 13q31.3; (92,002,997–92,003,088)	cg17799287	1241	−0.09	2.57	−0.26
	cg07641807	1046	−0.09	2.57	−0.17
	cg23665802	667	−0.11	2.57	−0.27
	cg02297838	551	−0.15	2.57	−0.24
mir-125b-1; 11q24.1; 121,970,465–121,970,552	cg02101355	142	0.06	−2.89	−0.69
	cg03891346	173	0.04	−2.89	−0.74
	cg24150623	540	0.21	−2.89	−0.74
	cg06749053	667	0.12	−2.89	−0.46
	cg20475322	680	0.16	−2.89	−0.65
	cg24603444	782	0.15	−2.89	−0.62
	cg16865908	0	0.05	−2.89	−0.26
	cg26916936	61	0.04	−2.89	−0.17
	cg07685357	1402	0.07	−2.89	−0.34
mir-130a; 11q12.1; 57,408,671–57,408,759	cg16520038	11	0.10	−3.18	−0.03
	cg10512089	0	0.16	−3.18	−0.18
	cg01681881	1250	0.03	−3.18	−0.04
mir-144; 17q11.2; 27,188,551–27,188,636	cg19196414	0	0.001	−7.52	−0.48
mir-182; 7q32.2; 129,410,223–129,410,332	cg16576544	0	−0.05	8.34	−0.11
	cg24423782	85	−0.05	8.34	−0.09
	cg17677032	95	−0.03	8.34	−0.08
	cg04579608	103	−0.05	8.34	−0.04
	cg13713066	325	−0.03	8.34	−0.07
mir-199a-1; 19p13.2; 10,928,102–10,928,172	cg27648270	0	0.09	−6.02	−0.78
	cg18544365	6	0.08	−6.02	−0.66
	cg23047544	39	0.09	−6.02	−0.73
	cg02660440	61	0.09	−6.02	−0.75
	cg06754197	150	0.07	−6.02	−0.83
	cg02907064	155	0.06	−6.02	−0.74
	cg23068797	377	0.10	−6.02	−0.77
	cg03216043	467	0.10	−6.02	−0.72
	cg13965612	524	0.07	−6.02	−0.50
mir-1180	cg04864152	15	−0.08	3.73	−0.05
	cg20272287	18	−0.10	3.73	−0.01
	cg02796621	678	−0.05	3.73	−0.05
	cg02206323	1181	−0.05	3.73	−0.49
	cg26619894	1277	−0.04	3.73	−0.27

“mir-” refers to the precursor miRNA (pre-miRNA).