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Beyond Bioinformatics |
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Title |
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GS2PATH: A web-based integrated analysis tool for finding functional relationships using gene ontology and biochemical pathway data
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| Authors |
Jin Ok Yang1, Charny Park1, Byungwook Lee1, Sangsoo Kim2, Jong Bhak1, *, Hyun Goo Woo3
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Affiliation |
1Korean BioInformation Center, KRIBB, Daejeon 305-806, Korea; 2Department of Bioinformatics, Soongsil University, Seoul, Korea; 3Laboratory of Experimental Carcinogenesis, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, Maryland, USA
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jong@kribb.re.kr; * Corresponding author
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Article Type |
Web Server
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Date |
received November 30, 2007; revised December 07, 2007; accepted December 30, 2007; published online December 30, 2007 |
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Abstract |
GS2PATH is a Web-based pipeline tool to permit functional enrichment of a given gene set from prior knowledge databases, including gene ontology (GO) database and biological pathway databases. The tool also provides an estimation of gene set enrichment, in GO terms, from the databases of the KEGG and BioCarta pathways, which may allow users to compute and compare functional over-representations. This is especially useful in the perspective of biological pathways such as metabolic, signal transduction, genetic information processing, environmental information processing, cellular process, disease, and drug development. It provides relevant images of biochemical pathways with highlighting of the gene set by customized colors, which can directly assist in the visualization of functional alteration.
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| Availability |
The GS2PATH system is freely available at http://array.kobic.re.kr:8080/arrayport/gs2path/. |
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Keywords |
gene set enrichment test; gene ontology; pathways; integrated search
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Citation |
Yang et al., Bioinformation 2(5): 194-196 (2007)
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Edited by |
T. Nandi, H. Tan, T. W. Tan & S. Ranganathan |
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ISSN |
0973-2063
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Publisher |
Biomedical Informatics Publishing Group
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Copyright |
Publisher
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Copyright Transfer Agreement |
The authors of published articles in Bioinformation automatically transfer the copyright to the publisher upon formal acceptance. However, the authors reserve right to use the information contained in the article for non commercial purposes.
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License |
This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited.
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