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KMID : 1132720070050030133
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Genomics & Informatics
2007 Volume.5 No. 3 p.133 ~ p.136
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GSnet: An Integrated Tool for Gene Set Analysis and Visualization
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Choi Yoon-Jeong
Woo Hyun-Goo
Yu Ung-Sik
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Abstract
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The Gene Set network viewer (GSnet) visualizes the functional enrichment of a given gene set with a protein interaction network and is implemented as a plug-in for the Cytoscape platform. The functional enrichment of a given gene set is calculated using a hypergeometric test based on the Gene Ontology annotation. The protein interaction network is estimated using public data. Set operations allow a complex protein interaction network to be decomposed into a functionally-enriched module of interest. GSnet provides a new framework for gene set analysis by integrating a priori knowledge of a biological network with functional enrichment analysis.
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KEYWORD
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microarray analysis, gene set analysis, proteinprotein interaction network, network visualization
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