A survey of current software for network analysis in molecular biology.
Software for network motifs and modules is briefly reviewed, along with programs for network comparison. The three major software packages for network analysis, CYTOSCAPE, INGENUITY and PATHWAY STUDIO, and their associated databases, are compared in detail. A comparative test evaluated how these software packages perform the search for key terms and the creation of network from those terms and from experimental expression data.
Thomas
Sterling
S
Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond, 23284-2030, USA.
Bonchev
Danail
D
D019295:Computational Biology / Q000379:methods*; D003625:Data Collection; D053263:Gene Regulatory Networks / Q000235:genetics*; D008967:Molecular Biology / Q000379:methods*; D012984:Software