Global adaptive rank truncated product method for gene-set analysis in association studies
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- dc.contributor.author Vilor Tejedor, Natàlia, 1988-ca
- dc.contributor.author Calle, M. Luzca
- dc.date.accessioned 2017-01-04T08:27:34Z
- dc.date.available 2017-01-04T08:27:34Z
- dc.date.issued 2014ca
- 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.
- dc.description.sponsorship This research was partially supported by grant MTM2012-38067-C02-02 from the Ministerio/nde Economía e Innovación (Spain), grant 2009SGR-581 from Generalitat de Catalunya and Beca UNNIM en Ciències de la Salut 2011
- dc.format.mimetype application/pdfca
- dc.identifier.citation Vilor-Tejedor N, Calle ML. Global adaptive rank truncated product method for gene-set analysis in association studies. Biom J. 2014 Sep;56(5):901-11. DOI: 10.1002/bimj.201300192ca
- dc.identifier.doi http://dx.doi.org/10.1002/bimj.201300192
- dc.identifier.issn 0323-3847ca
- dc.identifier.uri http://hdl.handle.net/10230/27848
- dc.language.iso engca
- dc.publisher Wiley-VCH Verlagca
- dc.relation.ispartof Biometrical Journal. 2014 Sep;56(5):901-11
- dc.rights © 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim. Global adaptive rank truncated product method for gene-set analysis in association studies. Vilor-Tejedor N, Calle ML. Biometrical Journal ; 56(5)ca
- dc.rights.accessRights info:eu-repo/semantics/openAccessca
- dc.subject.other Genètica
- dc.subject.other Alzheimer, Malaltia d'
- dc.title Global adaptive rank truncated product method for gene-set analysis in association studiesca
- dc.type info:eu-repo/semantics/articleca
- dc.type.version info:eu-repo/semantics/acceptedVersionca