On the equivalence of methods for population stratification and their application in genetic association studies

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dc.contributor.authorDuarte, Nubia Esteban
dc.contributor.authorGiolo, Suely Ruiz
dc.contributor.authorAndrade, Mariza de
dc.contributor.authorSoler, Júlia Pavan Pavan
dc.creatorDuarte, Nubia Esteban
dc.creatorGiolo, Suely Ruiz
dc.creatorAndrade, Mariza de
dc.creatorSoler, Júlia Pavan Pavan
dc.date2015-12-29
dc.date.accessioned2017-08-01T20:09:54Z
dc.date.available2017-08-01T20:09:54Z
dc.date.issued2017-08-01
dc.descriptionPopulation-based association studies with unrelated individuals have been used in the mapping of genes involved in the regulation of complex diseases. However, when subjects are from dierent ethnic ancestries, these studies may yield spurious associations due to population stratication, with an excess of false positive or negative results. Principal components analysis based either on genotype values from known genetic markers (columns of the matrix) or on individuals (rows of the matrix) are the most common approaches used for correction of the confounding effect due the population stratication in genetic association studies. In this paper, results from the singular value decomposition theory of matrices are used to show the analytical equivalence between these approaches, focusing mainly in their relevant role in population stratication analysis. It is also shown the importance of using the biplot as a visualization tool not only to explain the joint information of samples and genetic markers but also to detect informative markers. Although both procedures can be used to correct for population stratication, principal components analysis based on samples is more computationally feasible due to the large number of genetic markers (n << p problem). As an application, it is used genotype data from four HapMap populations.
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dc.identifier.citationDUARTE, N. E. et al. On the equivalence of methods for population stratification and their application in genetic association studies. Revista Brasileira de Biometria, Lavras, v. 33, n. 4, p.494-507, dez. 2015.
dc.identifier.urihttps://repositorio.ufla.br/handle/1/13980
dc.publisherUniversidade Federal de Lavras
dc.relationhttp://www.biometria.ufla.br/index.php/BBJ/article/view/29/17
dc.rightsAttribution 4.0 International*
dc.rightsAttribution 4.0 International
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/*
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.sourceRevista Brasileira de Biometria; Vol 33 No 4 (2015); 494-507
dc.source1983-0823
dc.subjectPrincipal components
dc.subjectSingular value decomposition
dc.subjectDuality in genetic matrix
dc.subjectComponentes principais - Análise
dc.subjectMarcadores genéticos
dc.subjectDecomposição em valores singulares
dc.subjectDualidade da matriz genética
dc.titleOn the equivalence of methods for population stratification and their application in genetic association studies
dc.title.alternativeSobre a equivalência de métodos para populações estratificadas e sua aplicação em estudos de associação genética
dc.typeinfo:eu-repo/semantics/article
dc.typeinfo:eu-repo/semantics/publishedVersion
dc.typePeer-reviewed Article

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Revista Brasileira de Biometria