Changes of DNA methylation are associated with changes in lung function during adolescence

Sunny, Shadia Khan; Zhang, Hongmei; Rezwan, Faisal I.; Relton, Caroline L.; Henderson, A. John; Merid, Simon Kebede; Melén, Erik; Hallberg, Jenny; Arshad, S. Hasan; Ewart, Susan; Holloway, John W.

doi:10.1186/s12931-020-01342-y

Respiratory Research

Table 3 CpGs showing consistent associations in females between the IOW and replication cohorts, ALSPAC and BAMSE

From: Changes of DNA methylation are associated with changes in lung function during adolescence

CpG Name	Chr.	Gene name	Location	IOW cohort			ALSPAC-cohort		BAMSE cohort
CpG Name	Chr.	Gene name	Location	Coeff.	P_Raw-value	P_FDR -value	Coeff.	P-value	Coeff.	P-value
cg08095278	1	ASH1L	TSS1500	−0.008	0.0031	0.0218	–	–	−0.031	0.339
cg13342625	1	WDR65	TSS200	−0.009	0.0016	0.0187	–	–	−0.021	0.663
cg02288301	2	TMEFF2	TSS1500	−0.011	0.0021	0.0201	–	–	−0.020	0.549
cg08366885	2	*RAPH1*	5’UTR	−0.006	0.0092	0.0381	−0.001	0.889	−0.005	0.758
cg16710348	3	*SLC15A2*	3’UTR	−0.008	0.0114	0.0436	−0.0002	0.975	−0.001	0.980
cg09839318	4	*GAK*	Body	−0.007	0.0084	0.0364	−0.002	0.762	−0.035	0.163
cg00930455	7	DLX5	TSS1500	−0.010	0.0055	0.0299	–	–	−0.0003	0.990
cg04132649	7	*TECPR1*	Body	−0.008	0.0071	0.0345	−0.003	0.573	−0.008	0.770
cg14552568	7	HTR5A	Intergenic	−0.011	0.0012	0.0187	–	–	−0.091	0.006
cg15575249	7	*INSIG1*	Intergenic	−0.008	0.0014	0.0187	−0.005	0.523	−0.007	0.826
cg21584493	7	*PTPRN2*	Body	−0.024	0.0033	0.0218	−0.008	0.287	−0.044	0.369
cg09573852	8	IKBKB	Body	−0.006	0.0054	0.0299	−0.005	0.399	–	–
cg23188819	8	FAM160B2	Body	−0.007	0.0030	0.0218	−0.009	0.422	–	–
cg14319249	9	*PTCH1*	TSS200	−0.008	0.0021	0.0201	−0.0002	0.987	−0.012	0.684
cg09033333	10	JAKMIP3	Intergenic	−0.007	0.0035	0.0223	−0.0002	0.977	–	–
cg01082111	11	*RPS6KA4*	Intergenic	−0.016	0.0002	0.0092	−0.005	0.551	−0.058	0.051
cg07427606	12	MMP17	Body	−0.007	0.0031	0.0218	–	–	−0.022	0.412
cg05312779	15	ANPEP	3’UTR	−0.010	0.0062	0.0315	–	–	−0.037	0.220
cg04575609*	16	BANP	Body	−0.007	0.0021	0.0201	−0.001	0.884	–	–
cg04933438	16	WWOX	Body	−0.012	0.0002	0.0092	–	–	−0.006	0.849
cg11316510	17	RARA	Body	−0.006	0.0100	0.0403	−0.012	0.290	–	–
cg11493223	17	*TMC6*	TSS200	−0.008	0.0027	0.0217	−0.005	0.703	−0.039	0.186
cg13206530	18	*CELF4*	Intergenic	−0.011	0.0026	0.0217	−0.0004	0.961	−0.016	0.621
cg00850039	19	ZNF442	TSS200	−0.007	0.0056	0.0299	–	–	−0.013	0.710
cg10157975	19	*ZNF304*	TSS1500	−0.006	0.0063	0.0315	−0.020	0.256	−0.003	0.909
cg10027934	22	MAP 3K7IP1	Body	−0.014	0.0012	0.0187	–	–	−0.051	0.081
cg27652464	22	FAM19A5	Body	−0.008	0.0022	0.0201	–	–	−0.028	0.219

Note: 1) Regression coefficients were for the associations of changes in DNA-M with FEV₁/FVC changes in females
2) CpGs with the genes’ names in bold font were overlapped across all the three cohorts (IOW-ALSPAC-BAMSE consistent CpGs)
3) In BAMSE cohort, DNA-M of *cg04575609 was excluded at the time of quality control and was not available for the replication analysis
4) Chr. chromosome number, Coeff. coefficients

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