Trips-Viz: A transcriptome browser for exploring Ribo-Seq data

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dc.contributor.authorKiniry, Stephen J.
dc.contributor.authorO'Connor, Patrick B. F.
dc.contributor.authorMichel, Audrey M.
dc.contributor.authorBaranov, Pavel V.
dc.contributor.funderIrish Research Councilen
dc.contributor.funderScience Foundation Irelanden
dc.contributor.funderHealth Research Boarden
dc.contributor.funderWellcome Trusten
dc.date.accessioned2019-10-01T05:14:39Z
dc.date.available2019-10-01T05:14:39Z
dc.date.issued2018-09-20
dc.description.abstractRibosome profiling (Ribo-Seq) is a technique that allows for the isolation and sequencing of mRNA fragments protected from nuclease digestion by actively translating ribosomes. Mapping these ribosome footprints to a genome or transcriptome generates quantitative information on translated regions. To provide access to publicly available ribosome profiling data in the context of transcriptomes we developed Trips-Viz (transcriptome-wide information on protein synthesis-visualized). Trips-Viz provides a large range of graphical tools for exploring global properties of translatomes and of individual transcripts. It enables analysis of aligned footprints to evaluate datasets quality, differential gene expression detection, visual identification of upstream ORFs and alternative proteoforms. Trips-Viz is available at https://trips.ucc.ie.en
dc.description.sponsorship210692/Z/18/Zen
dc.description.statusPeer revieweden
dc.description.versionPublished Versionen
dc.format.mimetypeapplication/pdfen
dc.identifier.citationKiniry, S.J., O’Connor, P.B.F., Michel, A.M. and Baranov, P.V., 2018. Trips-Viz: a transcriptome browser for exploring Ribo-Seq data. Nucleic acids research, 47(D1), (6pp). DOI:10.1093/nar/gky842en
dc.identifier.doi10.1093/nar/gky842en
dc.identifier.eissn1362-4962
dc.identifier.endpageD852en
dc.identifier.issn0305-1048
dc.identifier.issuedD1en
dc.identifier.journaltitleNucleic Acids Researchen
dc.identifier.startpageD847en
dc.identifier.urihttps://hdl.handle.net/10468/8648
dc.identifier.volume47en
dc.language.isoenen
dc.publisherCambridge University Pressen
dc.relation.urihttps://academic.oup.com/nar/article/47/D1/D847/5103946
dc.rights© The Author(s) 2018. Published by Oxford University Press on behalf of Nucleic Acids Researchen
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/en
dc.subjectRibosome profiling (Ribo-Seq)en
dc.subjectNuclease digestionen
dc.subjectGenomeen
dc.subjectTranscriptomeen
dc.titleTrips-Viz: A transcriptome browser for exploring Ribo-Seq dataen
dc.typeArticle (peer-reviewed)en
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