title: digeR: a graphical user interface R package for analyzing 2D-DIGE data.
abstract: 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.
  
  
  BACKGROUND
  digeR package is freely available from the CRAN: http://cran.r-project.org/web/packages/digeR/index.html.
authors.affiliation: UCD School of Medicine and Medical Science, UCD Conway Institute of Biomolecular and Biomolecular Research and UCD School of Mathematical Sciences, University College Dublin, Dublin 4, Dublin, Ireland.
authors.forename: Yue
authors.initials: Y
authors.lastname: Fan
authors.forename: T Brendan
authors.initials: TB
authors.lastname: Murphy
authors.forename: R William G
authors.initials: RW
authors.lastname: Watson
mesh_terms: D003196:Computer Graphics; D015180:Electrophoresis, Gel, Two-Dimensional / Q000379:methods*; D040901:Proteomics / Q000379:methods; D012984:Software; D014584:User-Computer Interface