A longitudinal epigenome-wide association study of preeclamptic and normotensive pregnancy

Table 2 CpGs suggestively associated with preeclampsia status with p values less than 1×10^-5 from the discovery EWAS

Tri.	Chr.	Position*	Gene name	CpG	Mean DNA methylation as beta-values (%)		Mean DNA methylation as M values		Direction (cases vs. controls)	Raw value^**	FDR Q value
Tri.	Chr.	Position*	Gene name	CpG	Controls	Cases	Controls	Cases	Direction (cases vs. controls)	Raw value^**	FDR Q value
1	7	33637324	BBS9	cg13619623	62.02	65.68	0.71	0.94	+	4.82×10^-7	0.34
	11	45628269	N/A	cg27232360	15.76	17.15	−2.43	−2.28	+	3.43×10^-6	0.99
	12	57388441	GPR182	cg02305251	74.39	71.34	1.55	1.32	−	8.34×10^-6	0.99
	15	41785772	ITPKA	cg25609143	4.23	3.94	−4.52	−4.62	−	7.20×10^-6	0.99
	16	3151202	N/A	cg08717632	75.82	78.43	1.65	1.87	+	9.63×10^-6	0.99
2	10	459908	DIP2C	cg15306863	63.82	70.83	0.84	1.29	+	6.49×10^-6	1.00
3	1	26127185	SEPN1	cg21187265	12.58	10.95	−2.81	−3.03	−	7.73×10^-6	0.67
	6	111902385	TRAF3IP2-AS1; TRAF3IP2	cg21882990^	77.24	80.11	1.77	2.02	+	1.70×10^-6	0.60
	6	111902611	TRAF3IP2-AS1; TRAF3IP2	cg16155413^	35.16	44.07	−0.90	−0.35	+	1.23×10^-6	0.60
	6	32163533	GPSM3; NOTCH4	cg13721764	3.64	2.83	−4.82	−5.11	−	6.14×10^-6	0.67
	11	77300361	AQP11	cg16768953	5.16	4.55	−4.21	−4.41	−	7.09×10^-6	0.67
	12	56660492	COQ10A	cg00025436	5.00	3.94	−4.35	−4.62	−	6.30×10^-6	0.67
	12	108992148	TMEM119	cg02768162	47.25	51.09	−0.16	0.06	+	8.65×10^-6	0.67
	16	2298791	ECI1	cg19713585	48.56	44.84	−0.08	−0.32	−	7.40×10^-6	0.67
	17	49198586	SPAG9	cg23966705	3.57	3.69	−4.83	−4.72	+	9.56×10^-6	0.67
	21	43735722	TFF3	cg05671561	74.03	76.29	1.51	1.69	+	8.16×10^-6	0.67

Table ordered by trimester, chromosome, and position; FDR Q value indicates the expected proportion of false positives among all significant probes
Chr. chromosome, Tri. trimester, N/A this CpG site is not annotated to any genes under Illumina UCSC annotation
^*Position based on Human Genome Build 37 (hg19)
^**Raw p values generated from linear regression analyses (DNA methylation regressed on case-control status and trimester-specific surrogate variables)
^{^}Sites carried forward for replication testing. Direction (cases vs. controls)
“+” indicates that DNA methylation values are higher in cases compared to controls while “−” indicates that DNA methylation values are lower in cases compared to controls

ISSN: 2730-7034