Cytoscape is an open source software platform for visualizing complex networks and integrating these with any type of attribute data. A lot of Apps are available for various kinds of problem domains, including bioinformatics, social network analysis, and semantic web. Learn more...
Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D, Amin N, Schwikowski B, Ideker T.
Genome Research 2003 Nov; 13(11):2498-504
For automation usage and implementation leveraging CyREST, Commands or our R and Python libraries, please cite:
Otasek, et al., Cytoscape Automation: empowering workflow-based network analysis Genome Biology, 20:185 (2019)
[Abstract] [PDF] [PubMed entry]
Other articles and papers about Cytoscape are available here.
Cytoscape supports many use cases in molecular and systems biology, genomics, and proteomics:
Let us know if you've published using Cytoscape and we will feature your publication here!
Cytoscape project is supported by: