Journal Article

EGAN: exploratory gene association networks

Jesse Paquette and Taku Tokuyasu

in Bioinformatics

Volume 26, issue 2, pages 285-286
Published in print January 2010 | ISSN: 1367-4803
Published online November 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp656
EGAN: exploratory gene association networks

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Summary: 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 ≥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.

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

Contact: jesse.paquette@cc.ucsf.edu

Supplementary information: Supplementary data are available at Bioinformatics online.

Journal Article.  1544 words. 

Subjects: Bioinformatics and Computational Biology

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