Journal article
Evidence of gene-environment interaction for two genes on chromosome 4 and environmental tobacco smoke in controlling the risk of nonsyndromic cleft palate
T Wu, H Schwender, I Ruczinski, JC Murray, ML Marazita, RG Munger, JB Hetmanski, MM Parker, P Wang, T Murray, M Taub, S Li, RJ Redett, MD Fallin, KY Liang, YH Wu-Chou, SS Chong, V Yeow, X Ye, H Wang Show all
Plos One | PUBLIC LIBRARY SCIENCE | Published : 2014
Abstract
Nonsyndromic cleft palate (CP) is one of the most common human birth defects and both genetic and environmental risk factors contribute to its etiology. We conducted a genome-wide association study (GWAS) using 550 CP case-parent trios ascertained in an international consortium. Stratified analysis among trios with different ancestries was performed to test for GxE interactions with common maternal exposures using conditional logistic regression models. While no single nucleotide polymorphism (SNP) achieved genome-wide significance when considered alone, markers in SLC2A9 and the neighboring WDR1 on chromosome 4p16.1 gave suggestive evidence of gene-environment interaction with environmental..
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Awarded by National Institutes of Health
Funding Acknowledgements
Funding to support data collection, genotyping and analysis came from several sources, some to individual investigators (R01-DE-014581, R01-DE-016148, P50-DE-016215, R21-DE-016930, R01-DE-09886, R37-DE-08559, U01-DE-020057, R37-DE-0-8559, U01-DE-020057, R01-DE-012472, R01-DE-0106877) and some to the cleft consortium itself (U01-DE-018993). This project was part of the Gene, Environment Association Studies (GENEVA) Consortium funded by the National Human Genome Research Institute (NHGRI) to enhance communication and collaboration among researchers conducting genome-wide studies of complex diseases. The authors' group benefited greatly from the work and efforts of the entire consortium, especially the Coordinating Center (directed by B. Weir and C. Laurie of the University of Washington; U01-HG004446) in data cleaning and preparation for submission to the Database for Genotypes and Phenotypes (dbGaP). The authors also acknowledge the leadership of T. Manolio of NHGRI and E. Harris of National Institute of Dental and Craniofacial Research (NIDCR). Genotyping services were provided by the Center for Inherited Disease Research (CIDR). The International Cleft Consortium including genotyping and analysis was supported by the National Institute for Dental and Craniofacial Research through U01-DE-018993; "International Consortium to Identify Genes & Interactions Controlling Oral Clefts", 2007-2009; TH Beaty, PI. TW was supported by the International Collaborative Genetics Research Training Program (ICGRTP), NIH D43 TW06176 and 81102178 from National Natural Science of China. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.