Genes encoding critical transcriptional activators for murine neural tube development and human spina bifida: a case-control study

Lu, Wei; Guzman, Adrian R; Yang, Wei; Chapa, Claudia J; Shaw, Gary M; Greene, Robert M; Pisano, M Michele; Lammer, Edward J; Finnell, Richard H; Zhu, Huiping

doi:10.1186/1471-2350-11-141

Table 1 Characteristics of all genotyped SNPs

From: Genes encoding critical transcriptional activators for murine neural tube development and human spina bifida: a case-control study

Gene (Alias)	Marker	Chromosome	Chromosome position	RefSNP alleles	Call Rate (%)	MAF* (All subjects)	HWE P (controls)	MAF (White)	HWE** P (White controls)	MAF (Hispanic)	HWE P (Hispanic controls)
ALX1 (CART1)	rs11608773	12	84229006	A/G	100.0	0.229	0.435	0.274	0.478	0.217	0.391
	rs4761130	12	84226396	C/T	99.8	0.421	0.286	0.358	0.154	0.401	0.465
	rs7295242	12	84222948	A/G	100.0	0.161	0.781	0.074	0.557	0.159	0.358
CARM1	rs11667234	19	10880581	A/C	99.8	0.021	0.010	0.039	0.071	0.016	0.934
	rs11670365	19	10865833	C/T	100.0	0.056	0.918	0.084	0.754	0.045	0.702
	rs1529711	19	10884434	A/G	99.7	0.097	0.492	0.161	0.932	0.081	0.519
	rs1541596	19	10848013	A/G	99.5	0.475	0.326	0.497	0.969	0.408	0.957
	rs17616105	19	10883159	C/T	100.0	0.189	0.732	0.235	0.365	0.152	0.072
	rs7254708	19	10863579	A/G	100.0	0.071	0.043	0.123	0.116	0.059	0.441
CITED2	rs1131431	6	139735527	A/G	100.0	0.153	0.273	0.200	0.624	0.121	0.948
	rs7775752	6	139737486	A/G	45.1	0.007	0.957	0.009	0.913	0.006	1.000
CREBBP (CBP)	rs11076783	16	3722706	C/T	100.0	0.154	0.638	0.116	0.142	0.139	0.802
	rs11076785	16	3730187	G/T	46.6	0.457	0.638	0.401	0.185	0.457	0.463
	rs11076786	16	3751597	C/T	100.0	0.075	0.008	0.077	0.441	0.046	0.637
	rs129986	16	3744242	C/T	100.0	0.023	0.530	0.032	0.590	0.020	0.735
	rs130003	16	3768173	A/G	99.8	0.015	0.792	0.032	0.711	0.010	0.967
	rs130008	16	3721953	C/G	99.8	0.011	0.838	0.032	0.752	0.001	1.000
	rs17136507	16	3740546	C/T	100.0	0.178	0.536	0.110	0.229	0.227	0.449
	rs886528	16	3751557	C/T	99.7	0.383	0.590	0.390	0.986	0.368	0.839
	rs9392	16	3715170	A/G	99.8	0.189	0.566	0.223	0.625	0.138	0.700
EP300 (P300)	rs17002284	22	39826792	A/G	100.0	0.265	0.220	0.313	0.745	0.217	0.522
	rs17433014	22	39829768	A/G	99.8	0.018	0.769	0.029	0.793	0.019	0.834
	rs2230111	22	39851949	A/G	99.8	0.002	0.977	0.006	0.959	1.000	1.000
	rs4820428	22	39867535	A/G	100.0	0.446	0.006	0.329	0.822	0.419	0.667
	rs4820429	22	39868057	C/G	100.0	0.159	0.382	0.258	0.040	0.124	0.471
	rs4822006	22	39849308	C/T	100.0	0.247	0.844	0.355	0.587	0.185	0.740
	rs5758246	22	39871792	A/G	100.0	0.030	0.635	1.000	1.000	0.012	0.934
	rs9611502	22	39861182	C/T	100.0	0.014	0.838	0.019	0.918	0.013	0.867
TFAP2A (AP2)	rs10456013	6	10506548	G/T	100.0	0.032	0.592	0.048	0.670	0.026	0.735
	rs1621700	6	10528084	A/G	99.7	0.288	0.671	0.252	0.081	0.357	0.773
	rs303050	6	10511169	C/T	100.0	0.257	0.061	0.165	0.259	0.262	0.267
	rs303055	6	10527462	C/T	100.0	0.353	0.150	0.435	0.569	0.335	0.025
	rs303056	6	10528467	C/G	100.0	0.159	0.229	0.094	0.477	0.126	1.000
	rs3798691	6	10519381	C/G	100.0	0.112	0.021	0.042	0.011	0.134	0.111
	rs3798694	6	10516743	A/G	100.0	0.062	0.122	0.087	0.225	0.059	0.293
	rs533558	6	10503558	A/G	100.0	0.441	0.848	0.361	0.955	0.481	0.858
	rs537112	6	10503192	A/G	100.0	0.180	0.571	0.103	0.754	0.195	0.255

*MAF: minor allele frequency; **HWE: Hardy-Weinberg Disequilibrium

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