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Bioinformatics Advance Access originally published online on July 8, 2009
Bioinformatics 2009 25(18):2450-2451; doi:10.1093/bioinformatics/btp400
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© The Author 2009. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

ViTraM: visualization of transcriptional modules

Hong Sun 1, Karen Lemmens 2, Tim Van den Bulcke 1, Kristof Engelen 2, Bart De Moor 1 and Kathleen Marchal 2,*

1Department of Electrical Engineering, Katholieke Universiteit Leuven, Kasteelpark Arenberg 10 and 2Department of Microbial and Molecular Systems, Katholieke Universiteit Leuven, Kasteelpark Arenberg 20, 3001 Heverlee, Belgium

*To whom correspondence should be addressed.


  Abstract

Motivation: We developed ViTraM, a tool that allows visualizing overlapping transcriptional modules in an intuitive way. By visualizing not only the genes and the experiments in which the genes are co-expressed, but also additional properties of the modules such as the regulators and regulatory motifs that are responsible for the observed co-expression, ViTraM can assist in the biological analysis and interpretation of the output of module detection tools.

Availability: The ViTraM software is platform-independent. The software and supplementary material are available at: http://homes.esat.kuleuven.be/~kmarchal/ViTraM/Index.html

Contact: kathleen.marchal{at}biw.kuleuven.be

Associate Editor: Alfonso Valencia

Received on April 10, 2009; revised on June 4, 2009; accepted on June 25, 2009

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