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Cytoscape 2.8: new features for data integration and network visualization.

Cytoscape is a popular bioinformatics package for biological network visualization and data integration. Version 2.8 introduces two powerful new features--Custom Node Graphics and Attribute Equations--which can be used jointly to greatly enhance Cytoscape's data integration and visualization capabilities. Custom Node Graphics allow an image to be projected onto a node, including images generated dynamically or at remote locations. Attribute Equations provide Cytoscape with spreadsheet-like functionality in which the value of an attribute is computed dynamically as a function of other attributes and network properties. AVAILABILITY AND IMPLEMENTATION: Cytoscape is a desktop Java application released under the Library Gnu Public License (LGPL). Binary install bundles and source code for Cytoscape 2.8 are available for download from

Pubmed ID: 21149340


  • Smoot ME
  • Ono K
  • Ruscheinski J
  • Wang PL
  • Ideker T


Bioinformatics (Oxford, England)

Publication Data

February 1, 2011

Associated Grants

  • Agency: NIGMS NIH HHS, Id: GM070743
  • Agency: NHGRI NIH HHS, Id: P01HG005062
  • Agency: NIMH NIH HHS, Id: P30 MH062261
  • Agency: NIGMS NIH HHS, Id: R01 GM070743

Mesh Terms

  • Computational Biology
  • Software
  • Statistics as Topic