SimBoolNet

SimBoolNet is an open source Cytoscape plugin for simulating the dynamics of signaling transduction using Boolean networks. In a Boolean network, every node is assigned a state of ON/OFF, and the state of a node is determined by the states of its up‐stream neighboring nodes (i.e. nodes that are connected by an incoming edge). Given user‐specified levels of stimulation to a signaling network, SimBoolNet simulates the responses of the downstream molecules. The process can be visualized with an animation and the results recorded for further analysis. SimBoolNet is a useful tool for hypothesizing causal relation and crosstalk among signaling molecules.

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References in zbMATH (referenced in 2 articles )

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  1. Madrahimov, Alex; Helikar, Tomáš; Kowal, Bryan; Lu, Guoqing; Rogers, Jim: Dynamics of influenza virus and human host interactions during infection and replication cycle (2013)
  2. Zheng, Jie; Zhang, David; Przytycki, Pawel F.; Zielinski, Rafal; Capala, Jacek; Przytycka, Teresa M.: Simboolnet - a cytoscape plugin for dynamic simulation of signaling networks (2010) ioport