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

TitleGenePro: a Cytoscape plug-in for advanced visualization and analysis of interaction networks.
Publication TypeJournal Article
Year of Publication2006
AuthorsVlasblom, J., Wu S., Pu S., Superina M., Liu G., Orsi C., and Wodak S. J.
JournalBioinformatics
Volume22
Issue17
Pagination2178-9
Date Published2006 Sep 1
ISSN1367-4811
KeywordsAlgorithms, Computer Graphics, Computer Simulation, Computing Methodologies, Gene Expression Profiling, Models, Biological, Oligonucleotide Array Sequence Analysis, Protein Interaction Mapping, Proteome, Signal Transduction, Software, User-Computer Interface
Abstract

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.

DOI10.1093/bioinformatics/btl356
Alternate JournalBioinformatics
PubMed ID16921162