Orthoscape: a cytoscape application for grouping and visualization KEGG based gene networks by taxonomy and homology principles

摘要

BackgroundThere are many available software tools for visualization and analysis of biological networks. Among them, Cytoscape () is one of the most comprehensive packages, with many plugins and applications which extends its functionality by providing analysis of protein-protein interaction, gene regulatory and gene co-expression networks, metabolic, signaling, neural as well as ecological-type networks including food webs, communities networks etc. Nevertheless, only three plugins tagged ‘network evolution’ found in Cytoscape official app store and in literature. We have developed a new Cytoscape 3.0 application Orthoscape aimed to facilitate evolutionary analysis of gene networks and visualize the results.