Journal Article

SimBoolNet—a Cytoscape plugin for dynamic simulation of signaling networks

Jie Zheng, David Zhang, Pawel F. Przytycki, Rafal Zielinski, Jacek Capala and Teresa M. Przytycka

in Bioinformatics

Volume 26, issue 1, pages 141-142
Published in print January 2010 | ISSN: 1367-4803
Published online November 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp617

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Summary: SimBoolNet is an open source Cytoscape plugin that simulates the dynamics of signaling transduction using Boolean networks. Given a user-specified level of stimulation to signal receptors, SimBoolNet simulates the response of downstream molecules and visualizes with animation and records the dynamic changes of the network. It can be used to generate hypotheses and facilitate experimental studies about causal relations and crosstalk among cellular signaling pathways.

Availability: SimBoolNet package (with manual) is freely available at http://www.ncbi.nlm.nih.gov/CBBresearch/Przytycka/SimBoolNet

Contact: przytyck@ncbi.nlm.nih.gov; zhengj@ncbi.nlm.nih.gov

Journal Article.  1174 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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