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dc.contributor.authorGraffelman, Jan
dc.contributor.authorSánchez, Milagros
dc.contributor.authorCook, Samantha
dc.contributor.authorMoreno, Victor
dc.contributor.otherUniversitat Politècnica de Catalunya. Departament d'Estadística i Investigació Operativa
dc.date.accessioned2014-01-17T12:14:15Z
dc.date.available2014-01-17T12:14:15Z
dc.date.created2013-12-31
dc.date.issued2013-12-31
dc.identifier.citationGraffelman, J. [et al.]. Statistical inference for Hardy-Weinberg proportions in the presence of missing genotype information. "PLoS One", 31 Desembre 2013, vol. 8, núm. 12, p. 1-11.
dc.identifier.issn1932-6203
dc.identifier.urihttp://hdl.handle.net/2117/21263
dc.description.abstractIn genetic association studies, tests for Hardy-Weinberg proportions are often employed as a quality control checking procedure. Missing genotypes are typically discarded prior to testing. In this paper we show that inference for Hardy- Weinberg proportions can be biased when missing values are discarded. We propose to use multiple imputation of missing values in order to improve inference for Hardy-Weinberg proportions. For imputation we employ a multinomial logit model that uses information from allele intensities and/or neighbouring markers. Analysis of an empirical data set of single nucleotide polymorphisms possibly related to colon cancer reveals that missing genotypes are not missing completely at random. Deviation from Hardy-Weinberg proportions is mostly due to a lack of heterozygotes. Inbreeding coefficients estimated by multiple imputation of the missings are typically lowered with respect to inbreeding coefficients estimated by discarding the missings. Accounting for missings by multiple imputation qualitatively changed the results of 10 to 17% of the statistical tests performed. Estimates of inbreeding coefficients obtained by multiple imputation showed high correlation with estimates obtained by single imputation using an external reference panel. Our conclusion is that imputation of missing data leads to improved statistical inference for Hardy-Weinberg proportions
dc.format.extent11 p.
dc.language.isoeng
dc.rightsAttribution-NonCommercial-NoDerivs 3.0 Spain
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/3.0/es/
dc.subjectÀrees temàtiques de la UPC::Matemàtiques i estadística
dc.subject.lcshGenetics
dc.subject.lcshStatistics
dc.titleStatistical inference for Hardy-Weinberg proportions in the presence of missing genotype information
dc.typeArticle
dc.subject.lemacEstadística matemàtica
dc.subject.lemacGenètica
dc.contributor.groupUniversitat Politècnica de Catalunya. LIAM - Laboratori de Modelització i Anàlisi de la Informació
dc.identifier.doi10.1371/journal.pone.0083316
dc.relation.publisherversionhttp://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0083316
dc.rights.accessOpen Access
drac.iddocument12955079
dc.description.versionPostprint (published version)
upcommons.citation.authorGraffelman, J.; Sánchez, M.; Cook, S.; Moreno, V.
upcommons.citation.publishedtrue
upcommons.citation.publicationNamePLoS One
upcommons.citation.volume8
upcommons.citation.number12
upcommons.citation.startingPage1
upcommons.citation.endingPage11
dc.identifier.pmid24391752


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Except where otherwise noted, content on this work is licensed under a Creative Commons license: Attribution-NonCommercial-NoDerivs 3.0 Spain