Journal Article

digeR: a graphical user interface R package for analyzing 2D-DIGE data

Yue Fan, T. Brendan Murphy and R. William G. Watson

in Bioinformatics

Volume 25, issue 22, pages 3033-3034
Published in print November 2009 | ISSN: 1367-4803
Published online August 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp514
digeR: a graphical user interface R package for analyzing 2D-DIGE data

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Summary: 2D Difference In-Gel Electrophoresis (2D-DIGE) or 2D gel technology is being used as a routine proteomics technique for biomarker discovery. Analyzing such high-dimensional data requires multivariate analysis techniques to be applied. In addition, protein post-translational modification (PTM) information from the 2D gel data is usually overlooked. We report on an R package, digeR, with an easy to use graphical user interface for analyzing 2D-DIGE (2D gel) data. It provides a tool for visually looking for potential PTM changes from different biological states and support biomarker discovery through multivariate analysis techniques.

Availability: digeR package is freely available from the CRAN: http://cran.r-project.org/web/packages/digeR/index.html.

Contact: yue.fan@ucd.ie

Supplementary information: Supplementary data are available at Bioinformatics online.

Journal Article.  1127 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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