Table 4 Genome-wide differentially methylated positions (DMPs) and regions (DMRs) associated with posttraumatic stress disorder in the discovery sample.

From: Genome-wide differentially methylated genes associated with posttraumatic stress disorder and longitudinal change in methylation in rape survivors

Gene Name^a	Position^b	Probe	Location in Gene^c,d	β	SE	t/z	p	Adj. p	Other exposures/phenotypes associated with the CpG site^e	Mood, anxiety or trauma-related disorders previously associated with the site in EWAS or GWAS studies^e,f	Reference of prior candidate gene study linking the gene to PTSD^g
Differentially methylated positions (DMPs)
NA, SLC16A9^h	Chr10:61385771	cg01700569	Intergenic	0.031	0.004	7.119	6.187e−08	0.049233	None	NA	NA
FEZ1	Chr11:125365803	cg06309855	5’UTR	0.022	0.004	5.727	2.930e−06	0.777284	Gestational age	Depression, Bipolar	None
ADCYAP1	Chr18:905177	cg22388954	5’UTR; TSS200	−0.025	0.005	−5.181	1.371e−05	0.999998	B acute lymphoblastic leukemia	None	Ressler et al. [64]
BRSK2	Chr11:1431833	cg09450823	Body	0.036	0.007	5.115	1.653e−05	0.999998	None	PTSD (paralog BRSK1)	None
CTNNA3	Chr10:68940214	cg23307744	Body	−0.012	0.002	−5.012	2.208e−05	0.999998	None	Depression	None
PARD3	Chr10:35016204	cg18026072	Body	−0.009	0.002	−4.961	2.534e−05	0.999998	None	Depression	None
Differentially methylated regions (DMRs)
CC2D2A	Chr4:15471214-15471399			0.015	0.002	7.856	3.964e−15	3.285e−09		Depression	None
		cg21329975	TSS1500						Smoking status; air population exposure; gestational age
		cg16509355	TSS1500						Fetal vs. adult liver; smoking status; gestational age; Down syndrome
		cg21123203	Intergenic						Smoking status; fruit consumption
		cg02964094	TSS200						Gingivobuccal oral squamous cell carcinoma; Gulf War illness
		cg18470593	TSS200						Fetal vs. adult liver; smoking status; obesity
		cg20184469	TSS200						None
BRSK2	Chr11:1463541-1463670			0.112	0.016	7.131	9.935e−13	8e−07		PTSD (paralog BRSK1)	None
		cg12186219	Body						Childhood stress; ethnicity
		cg14064268	Body						Aging; childhood stress; ethnicity
		cg10590925	Body						Aging; childhood stress; ethnicity
		cg17429870	Body						Aging; childhood stress; ethnicity
		cg18651858	Body						Ethnicity
ADCYAP1	Chr18:905177-905180			−0.022	0.003	−6.761	1.370e−11	1.13e−05		None	Ressler et al. [64]
		cg22388954	5’UTR; TSS200						B Acute lymphoblastic leukemia
		cg11773720	5’UTR; TSS200						None

SE Standard error, Adj adjusted, EWAS epigenome-wide association study, GWAS genome-wide association study, PTSD posttraumatic stress disorder, SLC16A9 solute carrier family 16 member 9, Chr chromosome, NA not applicable, FEZ1 fasciculation and elongation protein zeta 1, 5’UTR 5’ untranslated region, ADCYAP1 adenylate cyclase activating polypeptide 1, TSS200 transcription start site 200, BRSK2 brain-specific serine/threonine-protein kinase 2, BRSK1 brain-specific serine/threonine-protein kinase 1, MCEE methylmalonyl-CoA epimerase, CTNNA3 catenin alpha 3, PARD3 PAR-3 family cell polarity regulator, CC2D2A coiled-coil and C2 domain-containing protein 2A, TSS1500 transcription start site 1500.
^aIdentified using the GENECODE database.
^bidentified using the Human Genome 19 (HG19) build from the Genome Reference Consortium.
^cidentified using the University of California Santa Cruz (UCSC) Genomic Institute/Genome Browser.
^dmultiple listings indicate splice variants.
^eidentified using the Medical Research Council’s Integrative Epidemiology Unit (MRC-IEU) catalog of epigenome-wide association studies (EWAS) [60] and the China National Center for Bioinformation National Genomics Data Center EWAS atlas [61].
^fidentified using the European Molecular Biology Laboratory-European Bioinformatic Institute (EMBL-EBI) genome-wide association studies (GWAS) Catalog for GWAS studies [62].
^gidentified through a literature search in PubMed [63].
^hCpG sites located in a region not attributed to a gene, the gene closest to the CpG site is provided.

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Table 4 Genome-wide differentially methylated positions (DMPs) and regions (DMRs) associated with posttraumatic stress disorder in the discovery sample.

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