Parity is associated with long-term differences in DNA methylation at genes related to neural plasticity in multiple sclerosis

Campagna, Maria Pia; Xavier, Alexandre; Stankovich, Jim; Maltby, Vicki E.; Slee, Mark; Yeh, Wei Z.; Kilpatrick, Trevor; Scott, Rodney J.; Butzkueven, Helmut; Lechner-Scott, Jeannette; Lea, Rodney A.; Jokubaitis, Vilija G.

doi:10.1186/s13148-023-01438-4

Table 3 Validated CpGs from Mehta et al. [30] ordered by chromosomal position

From: Parity is associated with long-term differences in DNA methylation at genes related to neural plasticity in multiple sclerosis

CpG	Chr	Position (bp)	Gene	This study		Mehta et al. [30]		DOE validation
CpG	Chr	Position (bp)	Gene	∆_meth*	FDR	∆_meth*	p value	DOE validation
cg15132013	1	2163529	SKI	0.028	0.042	− 0.083	0.043	No
cg00935967	1	3822762	LOC100133612	0.018	0.048	− 0.047	0.028	No
cg12385729	1	9243679		− 0.025	0.038	0.140	0.046	No
cg22332037	1	153951279	JTB	− 0.013	0.025	0.028	0.02	No
cg17403266	1	226719677		0.011	0.037	− 0.027	0.046	No
cg20848488	4	6417932	PPP2R2C	0.025	0.026	− 0.115	0.018	No
cg05104897	4	120127485		0.029	0.012	− 0.097	0.031	No
cg19083007	6	46293862	RCAN2	0.016	0.027	− 0.049	0.026	No
cg22390040	8	17220621	MTMR7	0.017	0.049	− 0.062	0.012	No
cg03460027	10	390328	DIP2C	0.01	0.026	− 0.040	0.003	No
cg03004330	10	13934438	FRMD4A	− 0.017	0.041	0.180	0.024	No
cg21937554	11	44331934	ALX4	− 0.024	0.045	0.305	0.043	No
cg11933951	11	82997796	CCDC90B	0.022	0.028	− 0.062	3.78 × 10⁻⁴	No
cg16984132	11	117052181	SIDT2	− 0.011	0.025	− 0.103	0.031	Hypo
cg23031939	11	134216076	GLB1L2	− 0.014	0.044	− 0.179	0.005	Hypo
cg10812526	12	101192122	ANO4	0.037	0.05	0.056	0.041	Hyper
cg01903420	13	27295928		0.049	0.043	− 0.397	0.048	No
cg08419873	13	27296010		0.072	0.031	− 0.386	0.049	No
cg15288350	13	113987359	GRTP1	− 0.011	0.037	− 0.033	0.038	Hypo
cg26647324	16	1516388	CLCN7	0.011	0.046	− 0.023	0.031	No
cg00356208	16	55167581		0.016	0.016	− 0.082	0.034	No
cg09663193	17	7486821	MPDU1	− 0.016	0.031	− 0.124	0.029	Hypo
cg14121185	17	64488849	PRKCA	0.026	0.037	− 0.079	0.032	No
cg05229454	17	80494379	FOXK2	0.031	0.022	− 0.202	0.010	No
cg23973972	18	72152075		0.034	0.008	− 0.090	0.039	No
cg08134671	19	2542837	GNG7	0.035	0.015	− 0.104	0.038	No
cg10669058	19	19648555	CILP2	− 0.029	0.048	− 0.171	0.022	Hypo
cg14166009	19	37825309	HKR1	− 0.022	0.042	− 0.100	0.044	Hypo
cg13687570	19	37825320	HKR1	− 0.028	0.044	− 0.170	0.008	Hypo
cg04442417	20	62191507	HELZ2	− 0.033	0.003	− 0.073	0.025	Hypo
cg02836046	21	38120824	SIM2	− 0.024	0.022	− 0.059	0.044	Hypo
cg11314536	22	18033434	CECR2	0.017	0.034	− 0.046	0.010	No

CpG, cytosine-phosphate-guanine; Chr, chromosome; bp, base pair; FDR, false discovery rate; and DOE, direction of effect
^*Nulligravida to parous

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ISSN: 1868-7083

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