GenRank : A R/Bioconductor package for prioritization of candidate genes

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dc.contributor.author Kanduri, C.
dc.contributor.author Järvelä, I.
dc.date.accessioned 2019-02-21T15:12:01Z
dc.date.available 2019-02-21T15:12:01Z
dc.date.issued 2017
dc.identifier.citation Kanduri , C & Järvelä , I 2017 , ' GenRank : A R/Bioconductor package for prioritization of candidate genes ' , F1000Research , vol. 6 , 463 . https://doi.org/10.12688/f1000research.11223.1
dc.identifier.other PURE: 122518062
dc.identifier.other PURE UUID: 133b5968-28e1-4117-a896-bd7a75c8296e
dc.identifier.other Bibtex: urn:d6d2035f7577654e12a3085cf9946bb1
dc.identifier.other Scopus: 85037692100
dc.identifier.other ORCID: /0000-0002-1770-6187/work/54486821
dc.identifier.uri http://hdl.handle.net/10138/299328
dc.description.abstract Modern high-throughput studies often yield long lists of genes, a fraction of which are of high relevance to the phenotype of interest. To prioritize the candidate genes of complex genetic traits, our R/Bioconductor package GenRank ranks genes based on convergent evidence obtained from multiple layers of independent evidence. We implemented three methods to rank genes that integrate gene-level data generated from multiple layers of evidence: (a) the convergent evidence (CE) method aggregates evidence based on a weighted vote counting method; (b) the rank product (RP) method performs a meta-analysis of microarray-based gene expression data, and (c) the traditional method combines p-values. The methods are implemented in R and are available as a package in the Bioconductor repository. (http://bioconductor.org/packages/GenRank/). © 2017 Kanduri C and Järvelä I. en
dc.format.extent 9
dc.language.iso eng
dc.relation.ispartof F1000Research
dc.rights.uri info:eu-repo/semantics/openAccess
dc.subject Article
dc.subject convergent evidence evidence
dc.subject data analysis software
dc.subject gene expression
dc.subject genetic trait
dc.subject genetic variation
dc.subject methodology
dc.subject rank product method
dc.subject statistical significance
dc.subject 3111 Biomedicine
dc.subject 1184 Genetics, developmental biology, physiology
dc.title GenRank : A R/Bioconductor package for prioritization of candidate genes en
dc.type Article
dc.contributor.organization Irma Järvelä / Principal Investigator
dc.contributor.organization Department of Medical and Clinical Genetics
dc.contributor.organization Medicum
dc.contributor.organization University of Helsinki
dc.description.reviewstatus Peer reviewed
dc.relation.doi https://doi.org/10.12688/f1000research.11223.1
dc.relation.issn 2046-1402
dc.rights.accesslevel openAccess
dc.type.version publishedVersion

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