Ontologies for GRN Modeling

Both GeneNet and PATIKA are composed of a server-side with a database and client-side. In addition to its database components, a PATIKA client-side editor software provides an integrated, multiuser environment for visualizing, entering, and manipulating networks of cellular events independent of an additional web-browser. 

Cytoscape and Pathway Assist are similar software tools for automated analysis, integration, and visualization of protein interaction maps. In these tools, automated methods for mining PubMed and other public literature databases are incorporated to facilitate the discovery of possible interactions or associations between genes or proteins. 

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