EGAN: exploratory gene association networks.
Exploratory Gene Association Networks (EGAN) is a Java desktop application that provides a point-and-click environment for contextual graph visualization of high-throughput assay results. By loading the entire network of genes, pathways, interactions, annotation terms and literature references directly into memory, EGAN allows a biologist to repeatedly query and interpret multiple experimental results without incurring additional delays for data download/integration. Other compelling features of EGAN include: support for diverse -omics technologies, a simple and interactive graph display, sortable/searchable data tables, links to external web resources including > or = 240 000 articles at PubMed, hypergeometric and GSEA-like enrichment statistics, pipeline-compatible automation via scripting and the ability to completely customize and/or supplement the network with new/proprietary data.


BACKGROUND
Runs on most operating systems via Java; downloadable from http://akt.ucsf.edu/EGAN/.


BACKGROUND
Supplementary data are available at Bioinformatics online.
Paquette
Jesse
J
Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco, CA 94143, USA. jesse.paquette@cc.ucsf.edu
Tokuyasu
Taku
T
D019295:Computational Biology / Q000379:methods*; D030541:Databases, Genetic; D053263:Gene Regulatory Networks / Q000235:genetics*; D012984:Software