Simulation of a medication and methylation effects on triglycerides in the Genetic Analysis Workshop 20

BMC Proceedings

Table 1 Five major effect causal SNPs and corresponding nearby CpG markers affecting triglycerides at visits 3 and 4

Methylvar	chrom	cgposition	cggene	CpG	CpG	Cp	CpG	markname	chrom	rsposition	rsgene	role	hg²	diffpos
				mean	Sd	Gmean	Sd
				V2	V2	V4	V4
cg00000363	1	230560793		0.488	0.0589	0.492	0.3273	rs9661059	1	230556033			0.125	− 4760
cg10480950	6	5067127		0.578	0.0571	0.56	0.3247	rs736004	6	5067728	LYRM4	intron	0.075	601
cg18772399	8	89478349		0.575	0.0743	0.556	0.3265	rs1012116	8	89466383			0.100	−11966
cg00045910	10	23466070		0.474	0.0896	0.482	0.3295	rs10828412	10	23476515			0.025	10445
cg01242676	17	13413600	HS3ST3A1	0.456	0.0837	0.464	0.328	rs4399565	17	13407619	HS3ST3A1	intron	0.050	− 5981

Abbreviations: methylvar, CpG marker name; chrom, CpG marker’s chromosome; cgposition, CpG marker position in base pairs; cggene, CpG marker’s gene; CpGmeanV2, mean of methylation at visit 2; CpGSdV2, standard deviation of the same methylation marker at visit 2; CpGmeanV4, mean of methylation at visit 4; CpGSdV4, standard deviation of the same methylation marker at visit 4; markname, SNP name; chrom, SNP’s chromosome; rsposition, SNP’s position in base pairs; rsgene, SNP’s gene name; role, SNP’s role; hg², simulated expected heritability for each causative SNP; diffpos, difference in base pair positions between corresponding SNP and CpG markers

ISSN: 1753-6561