WebGestalt: an integrated system for exploring gene sets in various biological contexts

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ID: 291375
2005
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Abstract
High-throughput technologies have led to the rapid generation of large-scale datasets about genes and gene products. These technologies have also shifted our research focus from 'single genes' to 'gene sets'. We have developed a web-based integrated data mining system, WebGestalt (http://genereg.ornl.gov/webgestalt/), to help biologists in exploring large sets of genes. WebGestalt is composed of four modules: gene set management, information retrieval, organization/visualization, and statistics. The management module uploads, saves, retrieves and deletes gene sets, as well as performs Boolean operations to generate the unions, intersections or differences between different gene sets. The information retrieval module currently retrieves information for up to 20 attributes for all genes in a gene set. The organization/visualization module organizes and visualizes gene sets in various biological contexts, including Gene Ontology, tissue expression pattern, chromosome distribution, metabolic and signaling pathways, protein domain information and publications. The statistics module recommends and performs statistical tests to suggest biological areas that are important to a gene set and warrant further investigation. In order to demonstrate the use of WebGestalt, we have generated 48 gene sets with genes over-represented in various human tissue types. Exploration of all the 48 gene sets using WebGestalt is available for the public at http://genereg.ornl.gov/webgestalt/wg_enrich.php.
Reference Key
openalex_W1980548655 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Bing Zhang, Stefan Kirov, Jay Snoddy
Journal Nucleic Acids Research
Year 2005
DOI
10.1093/nar/gki475
URL
https://academic.oup.com/nar/article-pdf/33/suppl_2/W741/7623568/gki475.pdf
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