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Cytoscape
Open source bioinformatics software platform for visualizing molecular interaction networks and biological pathways...
visualize visualizer visualize molecule interaction network visualizer gene visualization
NetAtlas
NetAtlas - A Cytoscape plugin that uses tissue gene expression data to filter cellular signaling network....
plug-in plugin cytoscape plugin filter cellular signal identify tissue network
EPE
A nice tool and framework that allows the drawing and manipulation of Biological Networks...
draw Biology cytoscape Edinburgh Pathway Editor cytoscape notation
CySBML
Cytoscape plugin that lets you import and work with SBML files...