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Bioinformatics 2006 22(17):2178-2179; doi:10.1093/bioinformatics/btl356
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© The Author 2006. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

GenePro: a cytoscape plug-in for advanced visualization and analysis of interaction networks

James Vlasblom 1, Samuel Wu 1, Shuye Pu 1,*, Mark Superina 1, Gina Liu 1, Chris Orsi 1 and Shoshana J. Wodak 1,2,3,*

1 Structural Biology and Biochemistry Program, The Hospital for Sick Children 555 University Avenue, Toronto, Ontario M5G 1X8, Canada
2 Department of Biochemistry, University of Toronto Toronto, Ontario, Canada
3 Department of Medical Genetics and Microbiology, University of Toronto Toronto, Ontario, Canada

*To whom correspondence should be addressed.

Motivation: Analyzing the networks of interactions between genes and proteins has become a central theme in systems biology. Versatile software tools for interactively displaying and analyzing these networks are therefore very much in demand. The public-domain open software environment Cytoscape has been developed with the goal of facilitating the design and development of such software tools by the scientific community.

Results: We present GenePro, a plugin to Cytoscape featuring a set of versatile tools that greatly facilitates the visualization and analysis of protein networks derived from high-throughput interactions data and the validation of various methods for parsing these networks into meaningful functional modules.

Availability: The GenePro plugin is available at the website http://genepro.ccb.sickkids.ca

contact: shuyepu{at}sickkids.ca

Received on April 7, 2006; revised on June 9, 2006; accepted on June 23, 2006

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