eUTOPIA : solUTion for Omics data PreprocessIng and Analysis

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dc.contributor University of Helsinki, Faculty of Medicine and Health Technology, Tampere University en
dc.contributor University of Helsinki, Institute of Biotechnology en
dc.contributor University of Helsinki, Department of Bacteriology and Immunology en
dc.contributor University of Helsinki, University of Eastern Finland, Institute of Biomedicine en
dc.contributor University of Helsinki, Institute of Biotechnology en
dc.contributor.author Marwah, Veer Singh
dc.contributor.author Scala, Giovanni
dc.contributor.author Kinaret, Pia Anneli Sofia
dc.contributor.author Serra, Angela
dc.contributor.author Alenius, Harri
dc.contributor.author Fortino, Vittorio
dc.contributor.author Greco, Dario
dc.date.accessioned 2019-08-29T12:36:01Z
dc.date.available 2019-08-29T12:36:01Z
dc.date.issued 2019-01-29
dc.identifier.citation Marwah , V S , Scala , G , Kinaret , P A S , Serra , A , Alenius , H , Fortino , V & Greco , D 2019 , ' eUTOPIA : solUTion for Omics data PreprocessIng and Analysis ' , Source Code for Biology and Medicine , vol. 14 , 1 . https://doi.org/10.1186/s13029-019-0071-7 en
dc.identifier.issn 1751-0473
dc.identifier.other PURE: 126369254
dc.identifier.other PURE UUID: 5f8fafc8-e309-4aa2-a5a4-565ec5385c5d
dc.identifier.other RIS: urn:89A83796E093DF40CDBFD036FB97E273
dc.identifier.other RIS: Marwah2019
dc.identifier.other WOS: 000457229300001
dc.identifier.other ORCID: /0000-0001-9195-9003/work/61109360
dc.identifier.other ORCID: /0000-0002-3312-5331/work/61111029
dc.identifier.uri http://hdl.handle.net/10138/305066
dc.description.abstract BackgroundApplication of microarrays in omics technologies enables quantification of many biomolecules simultaneously. It is widely applied to observe the positive or negative effect on biomolecule activity in perturbed versus the steady state by quantitative comparison. Community resources, such as Bioconductor and CRAN, host tools based on R language that have become standard for high-throughput analytics. However, application of these tools is technically challenging for generic users and require specific computational skills. There is a need for intuitive and easy-to-use platform to process omics data, visualize, and interpret results.ResultsWe propose an integrated software solution, eUTOPIA, that implements a set of essential processing steps as a guided workflow presented to the user as an R Shiny application.ConclusionseUTOPIA allows researchers to perform preprocessing and analysis of microarray data via a simple and intuitive graphical interface while using state of the art methods. en
dc.format.extent 12
dc.language.iso eng
dc.relation.ispartof Source Code for Biology and Medicine
dc.rights en
dc.subject 1182 Biochemistry, cell and molecular biology en
dc.subject 113 Computer and information sciences en
dc.subject Transcriptomics analysis en
dc.subject Microarray en
dc.subject Gene expression en
dc.subject R shiny en
dc.subject PACKAGE en
dc.title eUTOPIA : solUTion for Omics data PreprocessIng and Analysis en
dc.type Article
dc.description.version Peer reviewed
dc.identifier.doi https://doi.org/10.1186/s13029-019-0071-7
dc.type.uri info:eu-repo/semantics/other
dc.type.uri info:eu-repo/semantics/publishedVersion
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