NetDS: a Cytoscape plugin to analyze the robustness of dynamics and feedforward/feedback loop structures of biological networks

NeMo: Network Module identification in Cytoscape

(2010) Corban G Rivera et al.   BMC BIOINFORMATICS

PerturbationAnalyzer: a tool for investigating the effects of concentration perturbation on protein interaction networks

(2009) F. Li et al.   BIOINFORMATICS

SimBoolNet--a Cytoscape plugin for dynamic simulation of signaling networks

(2009) J. Zheng et al.   BIOINFORMATICS

Coherent coupling of feedback loops: a design principle of cell signaling networks

(2008) Yung-Keun Kwon et al.   BIOINFORMATICS

A feed-forward loop guarantees robust behavior in Escherichia coli carbohydrate uptake

(2008) A. Kremling et al.   BIOINFORMATICS

Quantitative analysis of robustness and fragility in biological networks based on feedback dynamics

(2008) Yung-Keun Kwon et al.   BIOINFORMATICS