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Bioinformatics Advance Access published online on October 10, 2006
Bioinformatics, doi:10.1093/bioinformatics/btl487
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© The Author (2006). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org
Received March 29, 2006
Revised September 5, 2006
Accepted September 15, 2006

Applications note

Integration of gel-based proteome data with pProRep

Kris Laukens 1 *, Rune Matthiesen 2, Filip Lemière 3, Eddy Esmans 3, Harry Van Onckelen 1, Ole Nørregaard Jensen 2, and Erwin Witters 1

1 Laboratory of Plant Physiology and Plant Biochemistry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium; CEPROMA, Center for Proteome Analysis and Mass Spectrometry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium
2 Department of Biochemistry & Molecular Biology, University of Southern Denmark, Odense, Denmark
3 Laboratory of Plant Physiology and Plant Biochemistry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium

* To whom correspondence should be addressed.
Kris Laukens, E-mail: kris.laukens{at}ua.ac.be


  Abstract

Summary: pProRep is a web application integrating electrophoretic and mass spectral data from proteome analyses into a relational database. The graphical web-interface allows users to upload, analyse and share experimental proteome data. It offers researchers the possibility to query all previously analysed datasets and can visualise selected features, such as the presence of a certain set of ions in a protein mass spectrum, on the level of the two-dimensional gel.

Availability: The pProRep package and instructions for its use can be downloaded from http://www.ptools.ua.ac.be/pProRep. The application requires a webserver that runs PHP 5 (http://www.php.net) and MySQL. Some (non-essential) extensions need additional freely available libraries: details are described in the installation instructions.

Associate Editor: Chris Stoeckert
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