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dc.contributor.authorManning, Alisa Ken_US
dc.contributor.authorNgwa, Julius Suhen_US
dc.contributor.authorHendricks, Audrey Een_US
dc.contributor.authorLiu, Ching-Tien_US
dc.contributor.authorJohnson, Andrew Den_US
dc.contributor.authorDupuis, Joséeen_US
dc.contributor.authorCupples, L Adrienneen_US
dc.date.accessioned2012-01-11T15:51:14Z
dc.date.available2012-01-11T15:51:14Z
dc.date.copyright2009en_US
dc.date.issued2009-12-15en_US
dc.identifier.citationManning, Alisa K, Julius Suh Ngwa, Audrey E Hendricks, Ching-Ti Liu, Andrew D Johnson, Josée Dupuis, L Adrienne Cupples. "Incorporating biological knowledge in the search for gene × gene interaction in genome-wide association studies" BMC Proceedings 3(Suppl 7):S81. (2009)en_US
dc.identifier.issn1753-6561en_US
dc.identifier.urihttp://hdl.handle.net/2144/3084
dc.description.abstractWe sought to find significant gene × gene interaction in a genome-wide association analysis of rheumatoid arthritis (RA) by performing pair-wise tests of interaction among collections of single-nucleotide polymorphisms (SNPs) obtained by one of two methods. The first method involved screening the results of the genome-wide association analysis for main effects p-values < 1 × 10-4. The second method used biological databases such as the Gene Ontology and Kyoto Encyclopedia of Genes and Genomes to define gene collections that each contained one of four genes with known associations with RA: PTPN22, STAT4, TRAF1, and C5. We used a permutation approach to determine whether any of these SNP sets had empirical enrichment of significant interaction effects. We found that the SNP set obtained by the first method was significantly enriched with significant interaction effects (empirical p = 0.003). Additionally, we found that the "protein complex assembly" collection of genes from the Gene Ontology collection containing the TRAF1 gene was significantly enriched with interaction effects with p-values < 1 × 10-8 (empirical p = 0.012).en_US
dc.description.sponsorshipNational Institutes of Health (National Institute of General Medical Sciences R01 GM031575); Boston University School of Medicine & Boston Medical Center (Robert Dawson Evans Endowment of the Department of Medicine)en_US
dc.language.isoenen_US
dc.publisherBioMed Centralen_US
dc.rightsCopyright 2009 Manning et al; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.en_US
dc.rights.urihttp://creativecommons.org/licenses/by/2.0en_US
dc.titleIncorporating Biological Knowledge in the Search for Gene × Gene Interaction in Genome-Wide Association Studiesen_US
dc.typearticleen_US
dc.identifier.pubmedid20018077en_US
dc.identifier.pmcid2795984en_US


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Copyright 2009 Manning et al; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Except where otherwise noted, this item's license is described as Copyright 2009 Manning et al; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.