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Global adaptive rank truncated product method for gene-set analysis in association studies

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dc.contributor Universitat de Vic. Escola Politècnica Superior
dc.contributor Universitat de Vic. Grup de Recerca en Bioinformàtica i Estadística Mèdica
dc.contributor.author Vilor Tejedor, Natàlia
dc.contributor.author Calle, M. Luz
dc.date.accessioned 2014-09-16T18:19:03Z
dc.date.available 2014-09-16T18:19:03Z
dc.date.created 2014
dc.date.issued 2014
dc.identifier.citation Vilor-Tejedor, N., & Calle Rosingana, M. L. (2014). Global adaptive rank truncated product method for gene-set analysis in association studies. Biometrical Journal, 56(4), 901-911.10.1002/bimj.201300192 ca_ES
dc.identifier.issn 0323-3847
dc.identifier.uri http://hdl.handle.net/10854/3262
dc.description.abstract Gene set analysis (GSA) aims to assess the overall association of a set of genetic variants with a phenotype and has the potential to detect subtle effects of variants in a gene or a pathway that might be missed when assessed individually. We present a new implementation of the Adaptive Rank Truncated Product method (ARTP) for analyzing the association of a set of Single Nucleotide Polymorphisms (SNPs) in a gene or pathway. The new implementation, referred to as globalARTP, improves the original one by allowing the different SNPs in the set to have different modes of inheritance. We perform a simulation study for exploring the power of the proposed methodology in a set of scenarios with different numbers of causal SNPs with different effect sizes. Moreover, we show the advantage of using the gene set approach in the context of an Alzheimer’s disease case-control study where we explore the endocytosis pathway. The new method is implemented in the R function globalARTP of the globalGSA package available at http://cran.r-project.org. en
dc.description.sponsorship This research was partially supported by grant MTM2012-38067-C02-02 from the Ministerio de Economia e Innovacion (Spain), grant 2009SGR-581 from Generalitat de Catalunya and Beca UNNIM en Ciencies de la Salut 2011.
dc.format application/pdf
dc.format.extent 11 p. ca_ES
dc.language.iso eng ca_ES
dc.publisher Wiley ca_ES
dc.relation AGAUR/2009-2014/2009SGR-581
dc.relation Ministerio de Ciencia e Innovación (España)
dc.relation Generalitat de Catalunya. Agència de Gestió d'Ajuts Universitaris i de Recerca
dc.rights Tots els drets reservats
dc.rights (c) Blackwell Wiley [The definitive version is available at www3.interscience.wiley.com] ca_ES
dc.subject.other Alzheimer, Malaltia d' ca_ES
dc.title Global adaptive rank truncated product method for gene-set analysis in association studies en
dc.type info:eu-repo/semantics/article ca_ES
dc.identifier.doi https://doi.org/10.1002/bimj.201300192
dc.relation.publisherversion http://onlinelibrary.wiley.com/doi/10.1002/bimj.201300192/abstract
dc.rights.accesRights info:eu-repo/semantics/closedAccess ca_ES
dc.type.version info:eu-repo/publishedVersion ca_ES
dc.indexacio Indexat a WOS/JCR
dc.indexacio Indexat a SCOPUS ca_ES

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