Epigenetics of early-life adversity in youth: cross-sectional and longitudinal associations

Clinical Epigenetics

Table 2 Probes significantly associated with lifetime experience of abuse and neglect at baseline in cross-sectional epigenome-wide analyses

Probe ID	Position	Gene	Gene region feature^a	Coefficient (SE)	FDR^b
Lifetime experience of abuse
Model 1^c
cg08671764	chr11:57996369	OR10Q1	1st exon	0.016 (0.003)	.018
cg19454603	chr11:107730446	SLC35F2	TSS1500	− 0.005 (0.001)	.020
cg05462437	chr14:70528945	SLC8A3	5’UTR	0.022 (0.004)	.020
cg25625296	chr1:1145848	Unassigned	Unassigned	− 0.029 (0.005)	.020
cg18348616	chr10:97470256	ENTPD1	TSS1500	− 0.101 (0.018)	.027
cg26357241	chr1:109289876	STXBP3	Body	− 0.012 (0.002)	.034
cg06383709	chr16:26148977	HS3ST4	3’UTR	0.016 (0.003)	.034
cg00992846	chr12:122906318	CLIP1	5’UTR	− 0.003 (0.000)	.034
cg16793662	chr2:55407554	CLHC1	Body	− 0.065 (0.012)	.036
cg07451097	chr4:143641250	INPP4B	5’UTR	0.046 (0.008)	.036
cg10091662	chr10:22609897	BMI1	TSS200	− 0.017 (0.003)	.047
cg15350036	chr7:86973677	TP53TG1	TSS1500	− 0.054 (0.010)	.047
cg03727700	chr10:115614022	DCLRE1A	TSS1500	− 0.004 (0.001)	.047
cg02047211	chr17:78932697	RPTOR	Body	0.011 (0.002)	.047
cg04866720	chr2:150588473	LOC101929231	Body	0.009 (0.002)	.047
Model 2^d
cg20241299	chr10:105362799	SH3PXD2A	Body	0.023 (0.004)	.013
cg08671764	chr11:57996369	OR10Q1	1st exon	0.018 (0.003)	.013
cg27152686	chr4:47645625	CORIN	Body	− 0.069 (0.012)	.019
cg24241897	chr16:4421892	VASN/CORO7	1st exon	− 0.003 (0.001)	.023
Lifetime experience of neglect
Model 1^c
cg00284420	chr16:87311948	Unassigned	Unassigned	− 0.009 (0.001)	.002

Chr chromosome, FDR false discovery rate, SE standard error
^aGene region feature category describing the CpG position from the UCSC Genome Browser. TSS200 = 0–200 bases upstream of the transcriptional start site (TSS); TSS1500 = 200–1500 bases upstream of the TSS; 5'UTR = within the 5' untranslated region (UTR), between the TSS and the ATG start site; Body = between the ATG and stop codon; irrespective of the presence of introns, exons, TSS, or promoters; 3'UTR = between the stop codon and poly A signal
^bProbes significant at FDR < .05
^cModel 1 adjusted for age and income-to-needs ratio at baseline, sex, first five cell-type principal components, first five ancestry principal components, and random batch effects of DNA methylation measurement
^dModel 2 adjusted for Model 1 covariates and lifetime neglect

ISSN: 1868-7083