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Resource:Cytoscape

Name: Resource:Cytoscape
Description: An open source bioinformatics software platform for visualizing molecular interaction networks and biological pathways and integrating these networks with annotations, gene expression profiles and other state data. Although Cytoscape was originally designed for biological research, now it is a general platform for complex network analysis and visualization. Additional features are available as plugins.

Cytoscape core distribution provides a basic set of features for data integration and visualization. Additional features are available as plugins. Plugins are available for network and molecular profiling analyses, new layouts, additional file format support, scripting, and connection with databases. Plugins may be developed by anyone using the Cytoscape open API based on Java technology and plugin community development is encouraged. Most of the plugins are freely available. Search for plugin's, scroll through the list or submit your plugin.

Cytoscape works as a web service client. This means Cytoscape can directly connect to the external public databases and imports network and annotation data. Currently, Pathway Commons, IntAct, BioMart, NCBI Entrez Gene, and PICR are supported. And we continue to develop new service clients for popular databases.
Other Name(s): Cytoscape: An Open Source Platform for Complex Network Analysis Visualization
Parent Organization: Institute for Systems Biology; Washington; USA, University of California at San Diego; California; USA
Supporting Agency: National Center for Research Resources, Resource:National Resource for Network Biology, National Institute of General Medical Sciences
Resource Type(s): Software resource, Software repository
Keywords: biological network visualization, systems biology
Grant: RR031228, GM070743
Abbreviation: Cytoscape
Resource: Resource
URL: http://cytoscape.org
PMID: PMID 21149340, 14597658
Id: nif-0000-30404
Link to OWL / RDF: Download this content as OWL/RDF

Categories related to Resource:Cytoscape

Resource:BiNGO: A Biological Networks Gene Ontology tool, Resource:BioGRID, Resource:ClueGO, Resource:DisGeNET, Resource:EGAN: Exploratory Gene Association Networks, Resource:GeneMANIA, Resource:MiMI Plugin for Cytoscape, Resource:Network-based Prediction of Human Tissue-specific Metabolism, Resource:PhosphoSitePlus: Protein Modification Site, Resource:PiNGO, Resource:RamiGO, Resource:ToDo, Resource:categoryCompare, Resource:iBIOFind

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Notes

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Contributors

Aarnaud, Ccdbuser, Memartone, Msmoot



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Facts about Resource:CytoscapeRDF feed
AbbrevCytoscape  +
CurationStatusuncurated  +
DefiningCitationhttp://cytoscape.org  +
DefinitionAn open source bioinformatics software pla An open source bioinformatics software platform for visualizing molecular interaction networks and biological pathways and integrating these networks with annotations, gene expression profiles and other state data. Although Cytoscape was originally designed for biological research, now it is a general platform for complex network analysis and visualization. Additional features are available as plugins.

Cytoscape core distribution provides a basic set of features for data integration and visualization. Additional features are available as plugins. Plugins are available for network and molecular profiling analyses, new layouts, additional file format support, scripting, and connection with databases. Plugins may be developed by anyone using the Cytoscape open API based on Java technology and plugin community development is encouraged. Most of the plugins are freely available. Search for plugin's, scroll through the list or submit your plugin.

Cytoscape works as a web service client. This means Cytoscape can directly connect to the external public databases and imports network and annotation data. Currently, Pathway Commons, IntAct, BioMart, NCBI Entrez Gene, and PICR are supported. And we continue to develop new service clients for popular databases.
new service clients for popular databases.
GrantCategory:RR031228   +, and Category:GM070743   +
Has default formThis property is a special property in this wiki.Resource  +
Has roleSoftware resource  +, and Software repository  +
Idnif-0000-30404  +
Is part ofInstitute for Systems Biology; Washington; USA  +, and University of California at San Diego; California; USA  +
KeywordsBiological network visualization  +, and Systems biology  +
LabelResource:Cytoscape  +
ModifiedDate16 January 2013  +
PMID21149340, 14597658  +
Page has default formThis property is a special property in this wiki.Resource  +
SuperCategoryResource  +
Supporting AgencyNational Center for Research Resources  +, Resource:National Resource for Network Biology  +, and National Institute of General Medical Sciences  +
SynonymCytoscape: An Open Source Platform for Complex Network Analysis Visualization  +