NDEx

NDEx (the Network Data Exchange) is an open source software platform where scientists and organizations can share, store, manipulate and publish biological network knowledge. Users can capitalize on the free Public NDEx Server while companies and organizations can decide to install their own NDEx Server application locally. The NDEx Public Server allows anonymous searches but recommemded users create a free account to access advanced features and get 10 GB of free cloud storage for their network models! NDEx is integrated with the Cytoscape desktop application and developed in close collaboration with other tools & resources in the Cytoscape Ecosystem.

Documentation

• NDEx Public Server
• User manuals, tutorials and other technical documentation
• Pillich et al. NDEx: Accessing Network Models and Streamlining Network Biology Workflows. Curr Protoc. 2021 Sep;1(9):e258.

Developer Resources

• Disclaimer, License and Code Repository
• NDEx REST API

How to cite

• Pillich et al. NDEx: Accessing Network Models and Streamlining Network Biology Workflows. Curr Protoc. 2021 Sep;1(9):e258.
• Pratt et al. NDEx 2.0: A Clearinghouse for Research on Cancer Pathways. Cancer Res. Nov 1;77(21):e58-e61 (2017).
• Pillich et al. NDEx: A Community Resource for Sharing and Publishing of Biological Networks. Methods Mol Biol, 1558: 271-301 (2017).
• Pratt et al. NDEx, the Network Data Exchange. Cell Systems (2015).

Image Gallery

NDEx Overview Video