author	consortium	pmid	date	trait	efo	analysis	source	outcome	exposure	covariates	outcome_units	exposure_units	methylation_array	tissue	further_details	n	n_cohorts	age	sex	ethnicity	cpg	chrpos	chr	pos	gene	type	beta	se	p	details	study_id
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg05575921	chr5:373378	5	373378	AHRR	North shore	-0.046	0.0026	1.45e-69	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg05575921	chr5:373378	5	373378	AHRR	North shore	-0.0466	0.0027	6.67e-65	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04180046	chr7:45002736	7	45002736	MYO1G	Island	0.051	0.0038	1.53e-40	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04180046	chr7:45002736	7	45002736	MYO1G	Island	0.05	0.0039	5.08e-38	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg09935388	chr1:92947588	1	92947588	GFI1	Island	-0.086	0.007	2.39e-34	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg09935388	chr1:92947588	1	92947588	GFI1	Island	-0.0848	0.0072	9.360000000000001e-32	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25949550	chr7:145814306	7	145814306	CNTNAP2	South shore	-0.02	0.0017	1.39e-31	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12876356	chr1:92946825	1	92946825	GFI1	Island	-0.069	0.0059	2.2200000000000002e-31	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12803068	chr7:45002919	7	45002919	MYO1G	South shore	0.053	0.0046	3.5800000000000004e-31	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25949550	chr7:145814306	7	145814306	CNTNAP2	South shore	-0.0198	0.0017	7.15e-31	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18146737	chr1:92946700	1	92946700	GFI1	Island	-0.065	0.0057	3.83e-30	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12876356	chr1:92946825	1	92946825	GFI1	Island	-0.0699	0.0061	4.49e-30	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12803068	chr7:45002919	7	45002919	MYO1G	South shore	0.0525	0.0046	1.2200000000000001e-29	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18316974	chr1:92947035	1	92947035	GFI1	Island	-0.033	0.0029	3.47e-29	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18146737	chr1:92946700	1	92946700	GFI1	Island	-0.0657	0.0059	5.46e-29	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18316974	chr1:92947035	1	92947035	GFI1	Island	-0.0339	0.0031	3.72e-27	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg21161138	chr5:399360	5	399360	AHRR	Open sea	-0.019	0.0018	5.51e-26	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg19089201	chr7:45002287	7	45002287	MYO1G	Island	0.017	0.0017	1.62e-23	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg14179389	chr1:92947961	1	92947961	GFI1	Island	-0.068	0.0069	3.38e-23	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg06338710	chr1:92946187	1	92946187	GFI1	Island	-0.0232	0.0024	9.38e-22	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg06338710	chr1:92946187	1	92946187	GFI1	Island	-0.023	0.0024	1.9600000000000003e-21	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg21161138	chr5:399360	5	399360	AHRR	Open sea	-0.0181	0.0019	2e-21	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg19089201	chr7:45002287	7	45002287	MYO1G	Island	0.0163	0.0017	2.2200000000000002e-21	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg14179389	chr1:92947961	1	92947961	GFI1	Island	-0.0664	0.007	2.7500000000000003e-21	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22937882	chr5:405774	5	405774	AHRR;LOC100310782	Open sea	0.013	0.0014	2.76e-21	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22937882	chr5:405774	5	405774	AHRR;LOC100310782	Open sea	0.0139	0.0015	7.930000000000001e-21	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg09662411	chr1:92946132	1	92946132	GFI1	Island	-0.035	0.0038	3.77e-20	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25464840	chr10:14372910	10	14372910	FRMD4A	Open sea	0.0262	0.0029	8.03e-20	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg09662411	chr1:92946132	1	92946132	GFI1	Island	-0.034	0.0037	1.06e-19	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22132788	chr7:45002486	7	45002486	MYO1G	Island	0.015	0.0017	2.11e-19	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07339236	chr20:50312490	20	50312490	ATP9A	Open sea	-0.0138	0.0016	7.28e-19	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07339236	chr20:50312490	20	50312490	ATP9A	Open sea	-0.013	0.0015	2.21e-18	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15507334	chr10:14372913	10	14372913	FRMD4A	Open sea	0.0238	0.0028	5.78e-18	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22132788	chr7:45002486	7	45002486	MYO1G	Island	0.0147	0.0017	6.92e-18	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg05549655	chr15:75019143	15	75019143	CYP1A1	Island	0.032	0.0037	7.92e-18	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11924019	chr15:75019283	15	75019283	CYP1A1	Island	0.029	0.0034	9.4e-18	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg00253658	chr16:54210496	16	54210496	-	Open sea	0.059	0.0069	1.37e-17	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22549041	chr15:75019251	15	75019251	CYP1A1	Island	0.059	0.0071	5.94e-17	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg00253658	chr16:54210496	16	54210496	-	Open sea	0.058	0.007	8.6e-17	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08606254	chr5:323969	5	323969	AHRR	South shore	0.0215	0.0026	2.36e-16	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg05549655	chr15:75019143	15	75019143	CYP1A1	Island	0.0312	0.0039	6.58e-16	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11924019	chr15:75019283	15	75019283	CYP1A1	Island	0.0286	0.0035	6.99e-16	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22549041	chr15:75019251	15	75019251	CYP1A1	Island	0.0581	0.0072	9.64e-16	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08606254	chr5:323969	5	323969	AHRR	South shore	0.02	0.0025	0.00000000000000214	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25464840	chr10:14372910	10	14372910	FRMD4A	Open sea	0.022	0.0028	0.00000000000000315	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12101586	chr15:75019203	15	75019203	CYP1A1	Island	0.039	0.005	0.00000000000000538	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg23067299	chr5:323907	5	323907	AHRR	South shore	0.0249	0.0033	0.0000000000000292	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12101586	chr15:75019203	15	75019203	CYP1A1	Island	0.0393	0.0053	0.000000000000174	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26681628	chr16:54210550	16	54210550	-	Open sea	0.0224	0.0031	0.000000000000213	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15507334	chr10:14372913	10	14372913	FRMD4A	Open sea	0.02	0.0027	0.000000000000243	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26681628	chr16:54210550	16	54210550	-	Open sea	0.023	0.0032	0.000000000000405	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18092474	chr15:75019302	15	75019302	CYP1A1	Island	0.042	0.0058	0.000000000000547	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg23067299	chr5:323907	5	323907	AHRR	South shore	0.022	0.0031	0.000000000000894	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13570656	chr15:75019196	15	75019196	CYP1A1	Island	0.042	0.0059	0.000000000000963	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11429111	chr5:134813329	5	134813329	-	Open sea	0.031	0.0044	0.00000000000104	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg14817490	chr5:392920	5	392920	AHRR	Open sea	-0.0248	0.0035	0.00000000000107	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg01952185	chr5:134813213	5	134813213	-	Open sea	0.029	0.0041	0.00000000000255	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg01952185	chr5:134813213	5	134813213	-	Open sea	0.0309	0.0044	0.00000000000259	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10399789	chr1:92945668	1	92945668	GFI1	North shore	-0.0177	0.0025	0.00000000000272	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18092474	chr15:75019302	15	75019302	CYP1A1	Island	0.0425	0.0061	0.00000000000429	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg20344448	chr10:14372431	10	14372431	FRMD4A	Open sea	0.0175	0.0025	0.00000000000532	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11429111	chr5:134813329	5	134813329	-	Open sea	0.0315	0.0046	0.00000000000732	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18703066	chr2:105363536	2	105363536	-	Open sea	-0.006	9e-04	0.00000000000763	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11902777	chr5:368843	5	368843	AHRR	North shore	-0.0087	0.0013	0.00000000000933	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11902777	chr5:368843	5	368843	AHRR	North shore	-0.008	0.0012	0.0000000000113	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11813497	chr10:14372879	10	14372879	FRMD4A	Open sea	0.0277	0.0041	0.0000000000194	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13570656	chr15:75019196	15	75019196	CYP1A1	Island	0.0417	0.0062	0.0000000000199	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18132363	chr6:166260572	6	166260572	-	Open sea	-0.027	0.0042	0.0000000000892	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15325070	chr1:2792704	1	2792704	-	Open sea	0.018	0.0028	0.0000000000907	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15325070	chr1:2792704	1	2792704	-	Open sea	0.0188	0.0029	0.000000000171	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26764244	chr1:68299511	1	68299511	GNG12	South shore	-0.0233	0.0037	0.000000000329	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18132363	chr6:166260572	6	166260572	-	Open sea	-0.0272	0.0043	0.000000000394	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10399789	chr1:92945668	1	92945668	GFI1	North shore	-0.016	0.0026	0.000000000574	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg14817490	chr5:392920	5	392920	AHRR	Open sea	-0.023	0.0037	0.000000000575	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg01031101	chr6:28227091	6	28227091	NKAPL	Island	0.023	0.0037	0.000000000586	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26764244	chr1:68299511	1	68299511	GNG12	South shore	-0.023	0.0037	0.000000000668	-	24906187_maternal_smoking_during_pregnancy_model_1
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg12803068	chr7:45002919	7	45002919	MYO1G	South shore	0.09	0.02	0.000000000715	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg00213123	chr15:75019070	15	75019070	CYP1A1	Island	0.012	0.0019	0.000000000747	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg01031101	chr6:28227091	6	28227091	NKAPL	Island	0.0237	0.0039	0.000000000802	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18703066	chr2:105363536	2	105363536	-	Open sea	-0.0059	0.001	0.00000000102	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03796381	chr15:36650033	15	36650033	-	Open sea	0.015	0.0025	0.00000000117	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13822849	chr9:137999757	9	137999757	OLFM1	South shelf	0.0161	0.0027	0.00000000124	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Replication SEED	Table S1	DNA methylation	Maternal smoking during pregnancy	Sex, ancestry, autism spectrum disorder, maternal age, maternal education and cell counts	Beta values	-	Illumina HumanMethylation450	Whole blood	-	528	1	5	Both	European,East Asian,African,Admixed,Other	cg25949550	chr7:145814306	7	145814306	CNTNAP2	South shore	-0.02	0.0033	0.0000000013	-	27171005_maternal_smoking_during_pregnancy_replication_seed
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg25949550	chr7:145814306	7	145814306	CNTNAP2	South shore	-0.02	-	0.00000000157	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10520740	chr12:1952798	12	1952798	CACNA2D4	Open sea	-0.009	0.0015	0.00000000186	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10520740	chr12:1952798	12	1952798	CACNA2D4	Open sea	-0.0094	0.0016	0.00000000192	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03144619	chr1:230415668	1	230415668	GALNT2	Island	-0.037	0.0062	0.00000000217	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04459939	chr15:90291141	15	90291141	-	North shelf	0.0278	0.0047	0.0000000025	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg20344448	chr10:14372431	10	14372431	FRMD4A	Open sea	0.015	0.0025	0.00000000297	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg01359532	chr15:75045126	15	75045126	CYP1A2	Open sea	0.014	0.0024	0.00000000311	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13834112	chr15:90361639	15	90361639	-	South shelf	0.0247	0.0042	0.00000000434	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg23335299	chr15:90291756	15	90291756	-	North shore	0.0269	0.0046	0.0000000059	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10253847	chr6:28227085	6	28227085	NKAPL	Island	0.013	0.0022	0.00000000651	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11813497	chr10:14372879	10	14372879	FRMD4A	Open sea	0.024	0.0041	0.00000000685	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg01359532	chr15:75045126	15	75045126	CYP1A2	Open sea	0.0149	0.0026	0.00000000708	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18096987	chr3:11623873	3	11623873	VGLL4	Open sea	-0.0173	0.003	0.00000000722	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15578140	chr7:147718109	7	147718109	MIR548F3;CNTNAP2	Open sea	0.015	0.0026	0.00000000757	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25189904	chr1:68299493	1	68299493	GNG12	South shore	-0.0208	0.0036	0.00000000784	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25189904	chr1:68299493	1	68299493	GNG12	South shore	-0.02	0.0035	0.00000000906	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg24250902	chr1:230415547	1	230415547	GALNT2	Island	-0.032	0.0056	0.0000000113	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13822849	chr9:137999757	9	137999757	OLFM1	South shelf	0.015	0.0026	0.0000000118	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg23916896	chr5:368804	5	368804	AHRR	North shore	-0.022	0.0039	0.0000000124	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg00213123	chr15:75019070	15	75019070	CYP1A1	Island	0.0116	0.002	0.0000000124	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26889659	chr6:684090	6	684090	EXOC2	Open sea	-0.055	0.0097	0.0000000146	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13834112	chr15:90361639	15	90361639	-	South shelf	0.023	0.0041	0.0000000146	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12806681	chr5:368394	5	368394	AHRR	North shore	-0.009	0.0016	0.0000000159	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg05568941	chr17:38517913	17	38517913	GJD3	North shore	0.0175	0.0031	0.000000016	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg22132788	chr7:45002486	7	45002486	MYO1G	Island	0.05	0.01	0.0000000173	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg05697274	chr1:230415377	1	230415377	GALNT2	Island	-0.026	0.0046	0.0000000175	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10253847	chr6:28227085	6	28227085	NKAPL	Island	0.0132	0.0024	0.0000000385	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18096987	chr3:11623873	3	11623873	VGLL4	Open sea	-0.018	0.0033	0.000000041	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03144619	chr1:230415668	1	230415668	GALNT2	Island	-0.0356	0.0065	0.0000000424	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10312186	chr6:170403583	6	170403583	-	South shore	-0.026	0.0047	0.000000044	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15522425	chr1:2792637	1	2792637	-	Open sea	0.015	0.0027	0.0000000445	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07104557	chr7:1036653	7	1036653	C7orf50	North shelf	-0.0144	0.0026	0.0000000457	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg24250902	chr1:230415547	1	230415547	GALNT2	Island	-0.0322	0.0059	0.000000047	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08097581	chr19:15528589	19	15528589	AKAP8L	North shore	-0.011	0.002	0.0000000515	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07104557	chr7:1036653	7	1036653	C7orf50	North shelf	-0.014	0.0026	0.0000000521	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03453449	chr12:95945120	12	95945120	USP44	South shelf	0.0191	0.0035	0.0000000521	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15578140	chr7:147718109	7	147718109	MIR548F3;CNTNAP2	Open sea	0.014	0.0026	0.0000000556	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg23335299	chr15:90291756	15	90291756	-	North shore	0.025	0.0046	0.0000000558	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg20244340	chr20:19193989	20	19193989	SLC24A3	South shore	-0.017	0.0031	0.0000000633	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04459939	chr15:90291141	15	90291141	-	North shelf	0.024	0.0044	0.0000000691	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08097581	chr19:15528589	19	15528589	AKAP8L	North shore	-0.011	0.002	0.0000000752	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18694169	chr6:28227079	6	28227079	NKAPL	Island	0.019	0.0036	0.0000000962	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25632883	chr12:109250438	12	109250438	SSH1	North shore	-0.0405	0.0076	0.000000101	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg00589617	chr1:230415343	1	230415343	GALNT2	Island	-0.029	0.0055	0.000000107	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04598670	chr7:68697651	7	68697651	-	Open sea	-0.021	0.004	0.000000107	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg05697274	chr1:230415377	1	230415377	GALNT2	Island	-0.0253	0.0048	0.000000116	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg23916896	chr5:368804	5	368804	AHRR	North shore	-0.0212	0.004	0.000000117	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg24591105	chr1:230415225	1	230415225	GALNT2	North shore	-0.024	0.0045	0.000000126	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04098479	chr4:1994849	4	1994849	WHSC2	Island	0.004	8e-04	0.000000129	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg09368188	chr1:245330018	1	245330018	KIF26B	Open sea	0.0274	0.0052	0.00000013	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03453449	chr12:95945120	12	95945120	USP44	South shelf	0.018	0.0034	0.000000131	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04291079	chr14:101294430	14	101294430	MEG3	Island	0.0139	0.0026	0.000000141	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg17924476	chr5:323794	5	323794	AHRR	South shore	0.0192	0.0036	0.000000143	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg09368188	chr1:245330018	1	245330018	KIF26B	Open sea	0.026	0.005	0.000000154	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04291079	chr14:101294430	14	101294430	MEG3	Island	0.013	0.0025	0.000000167	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg05568941	chr17:38517913	17	38517913	GJD3	North shore	0.015	0.0029	0.000000178	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04478905	chr21:37915091	21	37915091	CLDN14	Open sea	-0.016	0.0031	0.000000196	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03796381	chr15:36650033	15	36650033	-	Open sea	0.0136	0.0026	0.000000211	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg11813497	chr10:14372879	10	14372879	FRMD4A	Open sea	0.04	0.01	0.000000217	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15522425	chr1:2792637	1	2792637	-	Open sea	0.014	0.0027	0.000000236	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25415695	chr5:134828036	5	134828036	-	South shore	0.0148	0.0029	0.000000275	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11641006	chr2:235213874	2	235213874	-	Open sea	0.0172	0.0034	0.000000339	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg16449012	chr4:17781880	4	17781880	FAM184B	North shore	0.0133	0.0026	0.000000372	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18621256	chr10:119221444	10	119221444	-	Open sea	-0.014	0.0028	0.000000395	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26652413	chr19:17007057	19	17007057	CPAMD8	North shore	0.0119	0.0023	0.000000402	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12806681	chr5:368394	5	368394	AHRR	North shore	-0.0084	0.0017	0.000000428	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18694169	chr6:28227079	6	28227079	NKAPL	Island	0.0188	0.0037	0.000000479	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26954197	chr5:436816	5	436816	AHRR	Open sea	0.007	0.0014	0.00000048	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26889659	chr6:684090	6	684090	EXOC2	Open sea	-0.0506	0.0101	0.000000486	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03991871	chr5:368447	5	368447	AHRR	North shore	-0.009	0.0018	0.000000501	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26954197	chr5:436816	5	436816	AHRR	Open sea	0.0072	0.0014	0.000000528	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg19631472	chr11:18415641	11	18415641	LDHA	North shore	-0.012	0.0024	0.000000528	-	24906187_maternal_smoking_during_pregnancy_model_1
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg19089201	chr7:45002287	7	45002287	MYO1G	Island	0.04	0.01	0.000000569	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg02010738	chr19:2095466	19	2095466	C19orf36;MOBKL2A	Island	-0.0221	0.0044	0.000000576	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15836046	chr1:2767242	1	2767242	-	Open sea	0.0064	0.0013	0.000000586	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10312186	chr6:170403583	6	170403583	-	South shore	-0.0245	0.0049	0.000000596	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg06949812	chr17:38517993	17	38517993	GJD3	North shore	0.0154	0.0031	0.00000062	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg16459265	chr7:45025080	7	45025080	C7orf40;SNORA9	North shore	-0.01	0.002	0.000000622	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg23849826	chr15:39872186	15	39872186	THBS1	North shore	0.0103	0.0021	0.000000628	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26119806	chr2:18061572	2	18061572	KCNS3	South shore	-0.017	0.0034	0.000000656	-	24906187_maternal_smoking_during_pregnancy_model_1
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Replication SEED	Table S1	DNA methylation	Maternal smoking during pregnancy	Sex, ancestry, autism spectrum disorder, maternal age, maternal education and cell counts	Beta values	-	Illumina HumanMethylation450	Whole blood	-	528	1	5	Both	European,East Asian,African,Admixed,Other	cg05549655	chr15:75019143	15	75019143	CYP1A1	Island	0.05	0.0101	0.00000069	-	27171005_maternal_smoking_during_pregnancy_replication_seed
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03177666	chr16:54365103	16	54365103	-	Open sea	0.017	0.0034	0.000000708	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg17852385	chr15:75019188	15	75019188	CYP1A1	Island	0.023	0.0046	0.000000721	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12443001	chr1:2467281	1	2467281	-	South shore	0.0115	0.0023	0.000000733	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25632883	chr12:109250438	12	109250438	SSH1	North shore	-0.036	0.0073	0.000000761	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg23458168	chr19:30864867	19	30864867	ZNF536	North shore	0.0319	0.0065	0.000000764	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg20643029	chr21:37915044	21	37915044	CLDN14	Open sea	-0.013	0.0026	0.00000077	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg16517298	chr1:230413174	1	230413174	GALNT2	North shelf	-0.0261	0.0053	0.000000786	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg00794911	chr6:166260532	6	166260532	-	Open sea	-0.01	0.002	0.00000081	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg17442776	chr1:147718540	1	147718540	-	Island	0.0104	0.0021	0.000000825	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg02892925	chr8:60032926	8	60032926	TOX	South shore	0.02	0.0041	0.000000848	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg09523275	chr6:28227093	6	28227093	NKAPL	Island	0.018	0.0037	0.000000879	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08626436	chr10:88555339	10	88555339	BMPR1A	Open sea	0.0347	0.0071	0.000000902	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg01825213	chr9:98979965	9	98979965	-	North shore	0.0222	0.0045	0.000000927	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg17924476	chr5:323794	5	323794	AHRR	South shore	0.017	0.0035	0.000000938	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg19631472	chr11:18415641	11	18415641	LDHA	North shore	-0.0119	0.0024	0.00000101	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15836046	chr1:2767242	1	2767242	-	Open sea	0.006	0.0012	0.00000103	-	24906187_maternal_smoking_during_pregnancy_model_1
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Replication SEED	Table S1	DNA methylation	Maternal smoking during pregnancy	Sex, ancestry, autism spectrum disorder, maternal age, maternal education and cell counts	Beta values	-	Illumina HumanMethylation450	Whole blood	-	528	1	5	Both	European,East Asian,African,Admixed,Other	cg04180046	chr7:45002736	7	45002736	MYO1G	Island	0.06	0.0123	0.0000011	-	27171005_maternal_smoking_during_pregnancy_replication_seed
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg14086013	chr6:41604740	6	41604740	MDFI	Island	0.0141	0.0029	0.00000113	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg06415891	chr1:2467096	1	2467096	-	Island	0.0208	0.0043	0.00000114	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12426652	chr21:37915056	21	37915056	CLDN14	Open sea	-0.009	0.0019	0.00000118	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26516004	chr15:75019376	15	75019376	CYP1A1	South shore	0.008	0.0016	0.0000012	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg20816361	chr1:2467100	1	2467100	-	Island	0.0175	0.0036	0.00000124	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26516004	chr15:75019376	15	75019376	CYP1A1	South shore	0.0083	0.0017	0.00000129	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg00589617	chr1:230415343	1	230415343	GALNT2	Island	-0.0279	0.0058	0.00000138	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26827653	chr11:125366540	11	125366540	FEZ1	South shore	0.0147	0.003	0.00000142	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03177666	chr16:54365103	16	54365103	-	Open sea	0.0172	0.0036	0.00000145	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08142858	chr1:2718742	1	2718742	-	South shore	0.0092	0.0019	0.00000147	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg27181554	chr16:1992734	16	1992734	SEPX1	Island	-0.02	-	0.00000149	-	27171005_maternal_smoking_during_pregnancy_discovery
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg21376136	chr2:152830572	2	152830572	CACNB4	Open sea	0.05	0.01	0.00000152	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04640109	chr8:106330173	8	106330173	ZFPM2	North shore	0.0116	0.0024	0.00000155	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08626436	chr10:88555339	10	88555339	BMPR1A	Open sea	0.032	0.0067	0.00000157	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10078511	chr15:39872032	15	39872032	THBS1	North shore	0.014	0.0029	0.00000157	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg00433296	chr8:22223852	8	22223852	SLC39A14	North shore	0.0117	0.0024	0.00000159	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18753646	chr4:187219538	4	187219538	-	Island	-0.022	0.0046	0.0000016	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07211044	chr8:60032983	8	60032983	TOX	South shore	0.023	0.0048	0.00000165	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13784312	chr9:134609065	9	134609065	RAPGEF1	Open sea	-0.0184	0.0038	0.00000166	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg23664708	chr17:80196903	17	80196903	SLC16A3	South shore	-0.017	0.0036	0.0000017	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18675097	chr6:28227127	6	28227127	NKAPL	Island	0.028	0.0059	0.00000171	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg09743950	chr16:31341875	16	31341875	ITGAM	North shore	-0.016	0.0033	0.00000171	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg20244340	chr20:19193989	20	19193989	SLC24A3	South shore	-0.0156	0.0033	0.00000171	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04098479	chr4:1994849	4	1994849	WHSC2	Island	0.0033	7e-04	0.00000175	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg24591105	chr1:230415225	1	230415225	GALNT2	North shore	-0.0227	0.0048	0.0000018	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26652413	chr19:17007057	19	17007057	CPAMD8	North shore	0.011	0.0023	0.00000194	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg09488203	chr10:95327884	10	95327884	GPR120	South shore	0.0099	0.0021	0.00000237	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18722086	chr3:113380072	3	113380072	KIAA2018	Open sea	0.006	0.0013	0.0000024	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg01825213	chr9:98979965	9	98979965	-	North shore	0.02	0.0042	0.00000241	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25383593	chr5:134827820	5	134827820	-	South shore	0.012	0.0026	0.00000256	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg06813382	chr10:81967195	10	81967195	-	Island	0.0187	0.004	0.00000256	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg20816361	chr1:2467100	1	2467100	-	Island	0.016	0.0034	0.0000026	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10078511	chr15:39872032	15	39872032	THBS1	North shore	0.013	0.0028	0.00000261	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg06813382	chr10:81967195	10	81967195	-	Island	0.018	0.0038	0.00000262	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg06415891	chr1:2467096	1	2467096	-	Island	0.019	0.0041	0.00000274	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg17852385	chr15:75019188	15	75019188	CYP1A1	Island	0.0228	0.0049	0.00000275	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg23664708	chr17:80196903	17	80196903	SLC16A3	South shore	-0.0165	0.0035	0.00000311	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg17442776	chr1:147718540	1	147718540	-	Island	0.009	0.0019	0.00000314	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18675097	chr6:28227127	6	28227127	NKAPL	Island	0.0277	0.0059	0.00000315	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08026735	chr2:98703888	2	98703888	VWA3B	Island	0.012	0.0026	0.00000316	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg23849826	chr15:39872186	15	39872186	THBS1	North shore	0.009	0.0019	0.00000316	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13928411	chr16:22103791	16	22103791	VWA3A	Open sea	0.0098	0.0021	0.00000322	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg09523275	chr6:28227093	6	28227093	NKAPL	Island	0.0175	0.0038	0.00000347	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11625488	chr6:170403557	6	170403557	-	South shore	-0.022	0.0048	0.0000037	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10841124	chr5:433274	5	433274	AHRR	Open sea	0.004	9e-04	0.00000379	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12937151	chr15:87758226	15	87758226	-	Open sea	-0.028	0.0061	0.00000389	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg16547579	chr20:4954333	20	4954333	SLC23A2	Open sea	-0.016	0.0035	0.00000394	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11096905	chr17:63535567	17	63535567	AXIN2	South shore	-0.016	0.0035	0.00000415	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg24698536	chr12:109250515	12	109250515	SSH1	North shore	-0.026	0.0057	0.00000422	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11868728	chr20:22568116	20	22568116	-	South shore	0.0094	0.002	0.00000427	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25122233	chr12:54412506	12	54412506	HOXC4;HOXC5;HOXC6	North shore	0.0225	0.0049	0.00000443	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg24239148	chr10:63422841	10	63422841	C10orf107	Island	0.007	0.0015	0.00000469	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03991871	chr5:368447	5	368447	AHRR	North shore	-0.009	0.002	0.00000506	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10673740	chr10:121411826	10	121411826	BAG3	Island	0.019	0.0042	0.00000508	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22057874	chr2:179184866	2	179184866	OSBPL6	Open sea	0.013	0.0029	0.00000525	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04640109	chr8:106330173	8	106330173	ZFPM2	North shore	0.011	0.0024	0.00000543	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03354508	chr6:147769498	6	147769498	-	Open sea	0.0116	0.0026	0.00000546	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07249149	chr7:1035363	7	1035363	-	Open sea	-0.0141	0.0031	0.00000561	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10841124	chr5:433274	5	433274	AHRR	Open sea	0.0043	9e-04	0.00000567	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg20274009	chr20:32450846	20	32450846	-	South shore	0.0073	0.0016	0.00000567	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18621256	chr10:119221444	10	119221444	-	Open sea	-0.0132	0.0029	0.00000578	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12492906	chr12:109250545	12	109250545	SSH1	North shore	-0.02	0.0044	0.00000587	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11641006	chr2:235213874	2	235213874	-	Open sea	0.016	0.0035	0.00000592	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11868728	chr20:22568116	20	22568116	-	South shore	0.009	0.002	0.00000603	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg16517298	chr1:230413174	1	230413174	GALNT2	North shelf	-0.027	0.006	0.00000609	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg05593775	chr10:102778743	10	102778743	PDZD7	Island	0.016	0.0035	0.00000618	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15893360	chr12:120700361	12	120700361	PXN	North shelf	-0.0139	0.0031	0.00000618	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18753646	chr4:187219538	4	187219538	-	Island	-0.0211	0.0047	0.00000627	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07448928	chr5:427755	5	427755	AHRR	Open sea	0.0081	0.0018	0.00000681	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03354508	chr6:147769498	6	147769498	-	Open sea	0.011	0.0024	0.00000685	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg24173182	chr17:1961286	17	1961286	HIC1	Island	0.022	0.0049	0.00000686	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13784312	chr9:134609065	9	134609065	RAPGEF1	Open sea	-0.016	0.0036	0.00000722	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26554302	chr15:22467326	15	22467326	-	Open sea	0.014	0.0031	0.00000727	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22043296	chr11:1892139	11	1892139	LSP1	Island	-0.012	0.0027	0.00000742	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04800195	chr5:180287904	5	180287904	ZFP62	Island	0.003	7e-04	0.00000756	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07249149	chr7:1035363	7	1035363	-	Open sea	-0.013	0.0029	0.00000762	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15963463	chr1:25253237	1	25253237	RUNX3	North shelf	-0.011	0.0025	0.00000769	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg14086013	chr6:41604740	6	41604740	MDFI	Island	0.012	0.0027	0.00000774	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg02010738	chr19:2095466	19	2095466	C19orf36;MOBKL2A	Island	-0.02	0.0045	0.00000813	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11625488	chr6:170403557	6	170403557	-	South shore	-0.0229	0.0051	0.00000824	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22171758	chr12:54146133	12	54146133	-	South shore	0.0131	0.0029	0.00000825	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12492906	chr12:109250545	12	109250545	SSH1	North shore	-0.0199	0.0045	0.00000829	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26804595	chr16:749581	16	749581	FBXL16	North shore	-0.0102	0.0023	0.00000851	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08026735	chr2:98703888	2	98703888	VWA3B	Island	0.0117	0.0026	0.00000856	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18794473	chr8:77617694	8	77617694	ZFHX4	Open sea	0.004	9e-04	0.00000861	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26804595	chr16:749581	16	749581	FBXL16	North shore	-0.01	0.0022	0.00000861	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg14027333	chr6:32116317	6	32116317	PRRT1	North shore	-0.005	0.0011	0.00000876	-	24906187_maternal_smoking_during_pregnancy_model_1
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg23222488	chr5:176755393	5	176755393	-	North shelf	0.05	0.01	0.00000902	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg02356218	chr11:124352048	11	124352048	-	Open sea	-0.014	0.0032	0.00000903	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg14349977	chr4:187219430	4	187219430	-	Island	-0.022	0.005	0.00000909	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg05593775	chr10:102778743	10	102778743	PDZD7	Island	0.0171	0.0039	0.00000934	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg09063262	chr11:85358506	11	85358506	TMEM126A	North shore	-0.022	0.005	0.00000937	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26441486	chr22:50317300	22	50317300	CRELD2	South shore	-0.018	0.0041	0.00000938	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg00029284	chr12:111731203	12	111731203	CUX2	Open sea	-0.009	0.002	0.00000962	-	24906187_maternal_smoking_during_pregnancy_model_1
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Replication SEED	Table S1	DNA methylation	Maternal smoking during pregnancy	Sex, ancestry, autism spectrum disorder, maternal age, maternal education and cell counts	Beta values	-	Illumina HumanMethylation450	Whole blood	-	528	1	5	Both	European,East Asian,African,Admixed,Other	cg12803068	chr7:45002919	7	45002919	MYO1G	South shore	0.07	0.0158	0.0000097	-	27171005_maternal_smoking_during_pregnancy_replication_seed
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08755703	chr16:54394989	16	54394989	-	Open sea	0.0181	0.0041	0.00000989	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg03480605	chr7:151038446	7	151038446	NUB1	North shore	0.04	0.01	0.00000995	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg02404974	chr6:41376295	6	41376295	-	North shore	0.0159	0.0036	0.0000109	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12160087	chr12:120531986	12	120531986	CCDC64	North shelf	-0.01	0.0023	0.0000114	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg19727396	chr1:230415185	1	230415185	GALNT2	North shore	-0.018	0.0041	0.0000115	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg24698536	chr12:109250515	12	109250515	SSH1	North shore	-0.0257	0.0059	0.0000116	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg06949812	chr17:38517993	17	38517993	GJD3	North shore	0.013	0.003	0.000012	-	24906187_maternal_smoking_during_pregnancy_model_1
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg17745339	chr5:176755199	5	176755199	-	North shelf	0.05	0.01	0.0000121	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04598670	chr7:68697651	7	68697651	-	Open sea	-0.0183	0.0042	0.0000123	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22043296	chr11:1892139	11	1892139	LSP1	Island	-0.0107	0.0025	0.0000128	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26103179	chr12:119591664	12	119591664	SRRM4	North shore	-0.015	0.0034	0.0000132	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg09488203	chr10:95327884	10	95327884	GPR120	South shore	0.009	0.0021	0.0000133	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13928411	chr16:22103791	16	22103791	VWA3A	Open sea	0.009	0.0021	0.0000135	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg16231923	chr15:73923634	15	73923634	NPTN	North shore	0.02	0.0046	0.0000136	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08698721	chr14:101294147	14	101294147	MEG3	Island	0.013	0.003	0.0000137	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg20274009	chr20:32450846	20	32450846	-	South shore	0.007	0.0016	0.0000137	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22877366	chr1:12107668	1	12107668	-	Open sea	-0.02	0.0046	0.000014	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg24239148	chr10:63422841	10	63422841	C10orf107	Island	0.0072	0.0017	0.000014	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg16449012	chr4:17781880	4	17781880	FAM184B	North shore	0.011	0.0025	0.0000142	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg00433296	chr8:22223852	8	22223852	SLC39A14	North shore	0.01	0.0023	0.0000143	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg05656688	chr1:25254088	1	25254088	RUNX3	North shore	-0.014	0.0032	0.0000144	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg05656688	chr1:25254088	1	25254088	RUNX3	North shore	-0.0134	0.0031	0.0000148	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08142858	chr1:2718742	1	2718742	-	South shore	0.008	0.0018	0.0000149	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25383593	chr5:134827820	5	134827820	-	South shore	0.0113	0.0026	0.0000151	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25415695	chr5:134828036	5	134828036	-	South shore	0.012	0.0028	0.0000161	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg25122233	chr12:54412506	12	54412506	HOXC4;HOXC5;HOXC6	North shore	0.02	0.0046	0.0000161	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18828927	chr6:29275263	6	29275263	OR14J1	Open sea	0.008	0.0019	0.0000162	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08698721	chr14:101294147	14	101294147	MEG3	Island	0.013	0.003	0.0000166	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12443001	chr1:2467281	1	2467281	-	South shore	0.01	0.0023	0.0000167	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07448928	chr5:427755	5	427755	AHRR	Open sea	0.007	0.0016	0.0000167	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22879098	chr5:672845	5	672845	TPPP	Open sea	-0.03	0.007	0.0000167	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg23458168	chr19:30864867	19	30864867	ZNF536	North shore	0.029	0.0068	0.0000176	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg02892925	chr8:60032926	8	60032926	TOX	South shore	0.0189	0.0044	0.0000178	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg00173010	chr7:6487342	7	6487342	DAGLB	Island	-	-	0.0000181	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13547053	chr2:179184864	2	179184864	OSBPL6	Open sea	0.01	0.0023	0.0000183	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg17345450	chr6:166259938	6	166259938	-	Open sea	-0.011	0.0026	0.0000183	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg23928512	chr17:79970192	17	79970192	ASPSCR1	South shelf	-0.011	0.0026	0.0000183	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04807108	chr15:78697933	15	78697933	-	Open sea	0.0228	0.0053	0.0000191	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07553761	chr3:160167977	3	160167977	TRIM59	Island	0.004	9e-04	0.0000194	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13459104	chr9:98849721	9	98849721	-	Open sea	0.003	7e-04	0.0000195	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15893360	chr12:120700361	12	120700361	PXN	North shelf	-0.013	0.003	0.0000196	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg02404974	chr6:41376295	6	41376295	-	North shore	0.015	0.0035	0.0000199	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04807108	chr15:78697933	15	78697933	-	Open sea	0.022	0.0052	0.0000201	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22171758	chr12:54146133	12	54146133	-	South shore	0.012	0.0028	0.0000202	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03486379	chr10:34391256	10	34391256	-	Open sea	0.009	0.0021	0.0000203	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg20174893	chr7:97600926	7	97600926	MGC72080	North shore	-0.011	0.0026	0.0000205	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg19675142	chr1:116107015	1	116107015	-	Open sea	0.013	0.0031	0.0000208	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07464358	chr7:100952364	7	100952364	-	Open sea	0.008	0.0019	0.0000208	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg08755703	chr16:54394989	16	54394989	-	Open sea	0.017	0.004	0.0000212	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg20174893	chr7:97600926	7	97600926	MGC72080	North shore	-0.01	0.0024	0.0000216	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10788371	chr11:76381040	11	76381040	LRRC32	North shore	-0.01	0.0024	0.000022	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg06509837	chr19:610955	19	610955	HCN2	North shore	-0.026	0.0061	0.0000222	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18209323	chr7:92672878	7	92672878	-	Island	0.016	0.0038	0.0000223	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11064524	chr8:118875129	8	118875129	EXT1	Open sea	-0.011	0.0026	0.0000233	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03687532	chr16:54228358	16	54228358	-	Island	0.012	0.0028	0.0000241	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26580869	chr19:611506	19	611506	HCN2	Island	-0.019	0.0045	0.0000241	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg16944958	chr6:170403962	6	170403962	-	South shore	-0.012	0.0028	0.0000244	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13455434	chr8:30243930	8	30243930	RBPMS	South shore	0.026	0.0062	0.0000244	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07553761	chr3:160167977	3	160167977	TRIM59	Island	0.0043	0.001	0.0000249	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26827653	chr11:125366540	11	125366540	FEZ1	South shore	0.012	0.0028	0.000025	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg00794911	chr6:166260532	6	166260532	-	Open sea	-0.0092	0.0022	0.0000254	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg10427827	chr12:132929654	12	132929654	-	North shore	0.01	-	0.0000254	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 1	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg19563365	chr11:86508399	11	86508399	-	North shelf	0.007	0.0017	0.0000256	-	24906187_maternal_smoking_during_pregnancy_model_1
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg16231923	chr15:73923634	15	73923634	NPTN	North shore	0.02	0.0048	0.0000258	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg14027333	chr6:32116317	6	32116317	PRRT1	North shore	-0.0047	0.0011	0.0000278	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg04478905	chr21:37915091	21	37915091	CLDN14	Open sea	-0.0131	0.0031	0.0000286	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg19563365	chr11:86508399	11	86508399	-	North shelf	0.007	0.0017	0.0000289	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg25959131	chr3:50855436	3	50855436	DOCK3	Open sea	0.04	0.01	0.0000295	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07211044	chr8:60032983	8	60032983	TOX	South shore	0.0212	0.0051	0.0000303	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg15507334	chr10:14372913	10	14372913	FRMD4A	Open sea	0.04	0.01	0.0000307	-	27171005_maternal_smoking_during_pregnancy_discovery
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Replication SEED	Table S1	DNA methylation	Maternal smoking during pregnancy	Sex, ancestry, autism spectrum disorder, maternal age, maternal education and cell counts	Beta values	-	Illumina HumanMethylation450	Whole blood	-	528	1	5	Both	European,East Asian,African,Admixed,Other	cg19089201	chr7:45002287	7	45002287	MYO1G	Island	0.02	0.0048	0.000031	-	27171005_maternal_smoking_during_pregnancy_replication_seed
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg11025974	chr2:152830521	2	152830521	CACNB4	Open sea	0.03	0.01	0.0000317	-	27171005_maternal_smoking_during_pregnancy_discovery
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Replication SEED	Table S1	DNA methylation	Maternal smoking during pregnancy	Sex, ancestry, autism spectrum disorder, maternal age, maternal education and cell counts	Beta values	-	Illumina HumanMethylation450	Whole blood	-	528	1	5	Both	European,East Asian,African,Admixed,Other	cg11924019	chr15:75019283	15	75019283	CYP1A1	Island	0.05	0.012	0.000032	-	27171005_maternal_smoking_during_pregnancy_replication_seed
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg26624744	chr5:156692507	5	156692507	CYFIP2	North shore	-0.02	0.01	0.0000334	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg20643029	chr21:37915044	21	37915044	CLDN14	Open sea	-0.0111	0.0027	0.0000339	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg19727396	chr1:230415185	1	230415185	GALNT2	North shore	-0.0172	0.0042	0.0000358	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg03287111	chr2:121625634	2	121625634	GLI2	South shore	0.04	0.01	0.0000359	-	27171005_maternal_smoking_during_pregnancy_discovery
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg15775217	chr12:104676774	12	104676774	TXNRD1	North shelf	0.18	0.04	0.0000374	-	27171005_maternal_smoking_during_pregnancy_discovery
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg04180046	chr7:45002736	7	45002736	MYO1G	Island	0.05	0.01	0.0000382	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg16944958	chr6:170403962	6	170403962	-	South shore	-0.0122	0.003	0.0000385	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26103179	chr12:119591664	12	119591664	SRRM4	North shore	-0.0147	0.0036	0.0000396	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22057874	chr2:179184866	2	179184866	OSBPL6	Open sea	0.0103	0.0025	0.0000413	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12937151	chr15:87758226	15	87758226	-	Open sea	-0.0259	0.0063	0.0000446	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg25292698	chr18:3247809	18	3247809	MYL12A	Island	-0.01	-	0.0000448	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg16459265	chr7:45025080	7	45025080	C7orf40;SNORA9	North shore	-0.0081	0.002	0.0000453	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26580869	chr19:611506	19	611506	HCN2	Island	-0.0172	0.0042	0.0000457	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26119806	chr2:18061572	2	18061572	KCNS3	South shore	-0.0149	0.0037	0.0000477	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg11096905	chr17:63535567	17	63535567	AXIN2	South shore	-0.0142	0.0035	0.0000486	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg14362178	chr2:79007750	2	79007750	-	Open sea	-0.07	0.02	0.000049	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg03687532	chr16:54228358	16	54228358	-	Island	0.0117	0.0029	0.0000494	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg05655457	chr11:58127944	11	58127944	OR5B17	Open sea	-0.04	0.01	0.0000533	-	27171005_maternal_smoking_during_pregnancy_discovery
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg08237309	chr16:2146423	16	2146423	PKD1	North shelf	-	-	0.0000553	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg07464358	chr7:100952364	7	100952364	-	Open sea	0.0073	0.0018	0.0000579	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg21428148	chr18:9102454	18	9102454	NDUFV2	Island	-	-	0.0000581	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg15963463	chr1:25253237	1	25253237	RUNX3	North shelf	-0.0101	0.0025	0.0000595	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10673740	chr10:121411826	10	121411826	BAG3	Island	0.0171	0.0043	0.0000598	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg12426652	chr21:37915056	21	37915056	CLDN14	Open sea	-0.0077	0.0019	0.0000604	-	24906187_maternal_smoking_during_pregnancy_model_2
Rzehak P	-	27171005	2016-05-12	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Discovery	Table 1	DNA methylation	Maternal smoking during pregnancy	Age, sex, study centre, maternal education, parental smoking, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Peripheral blood	-	366	1	5.5	Both	European	cg18882449	chr10:104885122	10	104885122	NT5C2	Open sea	0.05	0.01	0.0000617	-	27171005_maternal_smoking_during_pregnancy_discovery
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18209323	chr7:92672878	7	92672878	-	Island	0.0151	0.0038	0.0000637	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18794473	chr8:77617694	8	77617694	ZFHX4	Open sea	0.0039	0.001	0.000064	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26441486	chr22:50317300	22	50317300	CRELD2	South shore	-0.0161	0.004	0.0000649	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg02356218	chr11:124352048	11	124352048	-	Open sea	-0.0126	0.0032	0.0000651	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg26554302	chr15:22467326	15	22467326	-	Open sea	0.0126	0.0032	0.0000699	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg16547579	chr20:4954333	20	4954333	SLC23A2	Open sea	-0.0124	0.0031	0.0000735	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg22879098	chr5:672845	5	672845	TPPP	Open sea	-0.029	0.0073	0.0000775	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg14349977	chr4:187219430	4	187219430	-	Island	-0.0209	0.0053	0.0000778	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg19675142	chr1:116107015	1	116107015	-	Open sea	0.0127	0.0032	0.0000815	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg18722086	chr3:113380072	3	113380072	KIAA2018	Open sea	0.0047	0.0012	0.0000836	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg13459104	chr9:98849721	9	98849721	-	Open sea	0.003	8e-04	0.0000934	-	24906187_maternal_smoking_during_pregnancy_model_2
Markunas CA	-	24906187	2014-10-01	Maternal smoking during pregnancy	EFO_0006527, EFO_0005671, EFO_0004318, EFO_0002950	Model 2	Table S2	DNA methylation	Maternal smoking during pregnancy	Offspring sex, offspring cleft status, birth weight, maternal age, maternal alcohol consumption, maternal education, maternal folic acid, supplement use, cell counts and technical covariates	Beta values	-	Illumina HumanMethylation450	Whole blood	-	889	1	0	Both	European	cg10788371	chr11:76381040	11	76381040	LRRC32	North shore	-0.009	0.0023	0.0000955	-	24906187_maternal_smoking_during_pregnancy_model_2