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Open Access Green as soon as Postprint is submitted to ZB.
RNASeqExpressionBrowser - a web interface to browse and visualize high-throughput expression data.
Bioinformatics 30, 2519-2520 (2014)
MOTIVATION: RNA-seq techniques generate massive amounts of expression data. Several pipelines (e.g. Tophat and Cufflinks) are broadly applied to analyse these data sets. However, accessing and handling the analytical output remains challenging for non-experts. RESULTS: We present the RNASeqExpressionBrowser, an open-source web interface that can be used to access the output from RNA-seq expression analysis packages in different ways as it allows browsing for genes by identifiers, annotations or sequence similarity. Gene expression information can be loaded as long as it is represented in a matrix like format. Additionally, data can be made available by setting up the tool on a public server. For demonstration purposes, we have set up a version providing expression information from the barley genome. AVAILABILITY: The source code and a show case are accessible at: http://mips.helmholtz-muenchen.de/plant/RNASeqExpressionBrowser/.
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Publication type
Article: Journal article
Document type
Scientific Article
Keywords
Rna-seq; Tophat; Gene
ISSN (print) / ISBN
1367-4803
e-ISSN
1367-4811
Journal
Bioinformatics
Quellenangaben
Volume: 30,
Issue: 17,
Pages: 2519-2520
Publisher
Oxford University Press
Publishing Place
Oxford
Non-patent literature
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Reviewing status
Peer reviewed