Table 3. Function prediction of alcohol-nicotine codependence-associated CpGs.

CpGs	Genes	Chr.	Coordinate	DNA Sequences around CpGs	aTF core binding sites	bDHSs	cH3K27Ac
cg01706569	OPRD1	1	29011768	GTGGGGATCA[CG]AACTTGAGAC		Yes	No
cg04123893	GAD1	2	171380892	AACCTTCAAA[CG]TGATTAATCA		Yes	Yes
cg27531267	HTR2B	2	231699986	CACACATACA[CG]CACACACACG		Yes	Yes
cg21074850	GABRB1	4	46729246	ACATGGTCTC[CG]AAGTGAATAT	TFII-I (GTCTCC)	No	No
cg00037218	SLC6A3	5	1498390	CCCCGGCCCC[CG]CCCCTGCGCC	E2F-1 (GCCCCCGC);	No	No
					Sp1 (CCCCCGCCCC)
cg02095443	GABRB2	5	160908531	TGGCGGCAGG[CG]GCGGAAGTAG	AP-2alphaA (GCAGGC);	Yes	No
					Elk-1 (CGGCGGAAG)
cg12505522	RGS17	6	153494537	CTGCCTGCTC[CG]GGTCCCGGAG		Yes	Yes
cg07344165	OPRK1	8	54326330	ACAGGGAGAA[CG]GACTTCTCGC	FOXP3 (GAGAAC)	Yes	No
cg26106216	PENK	8	57521167	AGGGGATCGT[CG]AGCAAAAGCC	NF-kappaB1 (GGGGATCGTCG)	Yes	No
cg08079114	DRD4	11	627981	CCCTGGCTGC[CG]TGGGACACAC	ENKTF-1 (TGGCTGCC)	Yes	No
cg21572351	NCAM1	11	112335975	GGGCAGATCA[CG]AGGTCAGGAG	GR-alpha (CGAGGTCAGG);	No	Yes
					COUP-TF1 (CACGAGGTCAGGA)
cg14313206	NCAM1	11	112337308	CCCGGGCCAG[CG]CAAGGATCTC	GCF (GGCCAGCGC)	Yes	Yes
cg05421426	DRD2	11	112850463	ACCGTGGGAG[CG]GGAGAATCCA	E2F-1 (GCGGGAGA)	Yes	No
cg08989585	HTR3A	11	113350239	GCAGTGATTG[CG]CCACTGCACT	C/EBPbeta (TTGC);	Yes	No
					C/EBPalpha (GATTGCG);
					ENKTF-1 (TTGCGCCA)
cg14534584	SLC6A4	17	25587232	CCTGCCGCCC[CG]CGCCCACAGG	Pax-5 (GCCGCCCCGCGCCC);	Yes	No
					p53 (GCCGCCCCGCGCCC);
					Sp1 (CTGCCGCCCC);
					GCF (GCCCCGCGC);
					ETF (GCCCCGCGCCC)
cg21372728	MBD3	19	1543111	CCCTGCTCCC[CG]AAATCCCGGC		Yes	Yes
cg02156408	HTR2C	X	113725033	GGCCTTCGTC[CG]TTTAGAGTAG		Yes	No

^aTranscription factor (TF) binding sites predicted by PROMO.

^bDNase I Hypersensitivity sites (DHSs) from ENCODE (95 cell types) by the UCSC Genome Browser.

^cH3K27Ac mark (often found near active regulatory elements) on 7 cell lines from ENCODE by the UCSC Genome Browser.