title: Visualizing networks.
abstract: An interrelated set of genes or proteins can be represented effectively as a network that describes physical interactions, regulatory relationships, or metabolic pathways. Visualizing a network can be a helpful method to extract biological meaning and to generate testable hypotheses about large-scale biological data. This chapter describes some potential rationales for visualizing networks of microarray and other data types, which can be integrated and filtered to show potentially significant relationships. It also presents a practical introduction to Osprey and Cytoscape, two software platforms that are powerful tools for visualizing, integrating, and manipulating networks.
authors.affiliation: Bioinformatics and Research Computing, Whitehead Institute for Biomedical Research, Cambridge, MA, USA.
authors.forename: George W
authors.initials: GW
authors.lastname: Bell
authors.forename: Fran
authors.initials: F
authors.lastname: Lewitter
mesh_terms: D000818:Animals; D023281:Genomics / Q000379:methods*; D006801:Humans; D008488:Medical Illustration; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods; D012984:Software