Trips-Viz: A transcriptome browser for exploring Ribo-Seq data
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Published version
Date
2018-09-20
Authors
Kiniry, Stephen J.
O'Connor, Patrick B. F.
Michel, Audrey M.
Baranov, Pavel V.
Journal Title
Journal ISSN
Volume Title
Publisher
Cambridge University Press
Published Version
Abstract
Ribosome 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.
Description
Keywords
Ribosome profiling (Ribo-Seq) , Nuclease digestion , Genome , Transcriptome
Citation
Kiniry, 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/gky842