Identifying gene interaction networks.
In this chapter, we introduce interaction networks by describing how they are generated, where they are stored, and how they are shared. We focus on publicly available interaction networks and describe a simple way of utilizing these resources. As a case study, we used Cytoscape, an open source and easy-to-use network visualization and analysis tool to first gather and visualize a small network. We have analyzed this network's topological features and have looked at functional enrichment of the network nodes by integrating the gene ontology database. The methods described are applicable to larger networks that can be collected from various resources.
Center for Proteomics and Bioinformatics, Case Comprehensive Cancer Center, Case Western Reserve University School of Medicine, Cleveland, OH, USA. gurkan@case.edu
Gurkan
G
Bebek
D030541:Databases, Genetic; D053263:Gene Regulatory Networks; D006801:Humans; D060066:Protein Interaction Maps; D012984:Software