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Nucleic Acids Research Advance Access originally published online on May 13, 2008
Nucleic Acids Research 2008 36(Web Server issue):W423-W426; doi:10.1093/nar/gkn282
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Nucleic Acids Research, 2008, Vol. 36, No. suppl_2 W423-W426
© 2008 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Articles

KEGG Atlas mapping for global analysis of metabolic pathways

Shujiro Okuda1, Takuji Yamada2, Masami Hamajima1, Masumi Itoh1, Toshiaki Katayama3, Peer Bork2, Susumu Goto1 and Minoru Kanehisa1,3,*

1Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan, 2European Molecular Biology Laboratory, Meyerhofstrasse 1, 69012 Heidelberg, Germany and 3Human Genome Center, Institute of Medical Science, the University of Tokyo, 4-6-1 Shirokane-dai, Minato-ku, Tokyo 108-8639, Japan

*To whom correspondence should be addressed. Tel: +81 774 38 3270; Fax: +81 774 38 3269; Email: kanehisa{at}kuicr.kyoto-u.ac.jp

Received February 9, 2008. Revised April 3, 2008. Accepted April 26, 2008.

KEGG Atlas is a new graphical interface to the KEGG suite of databases, especially to the systems information in the PATHWAY and BRITE databases. It currently consists of a single global map and an associated viewer for metabolism, covering about 120 KEGG metabolic pathway maps and about 10 BRITE hierarchies. The viewer allows the user to navigate and zoom the global map under the Ajax technology. The mapping of high-throughput experimental data onto the global map is the main use of KEGG Atlas. In the global metabolism map, the node (circle) is a chemical compound and the edge (line) is a set of reactions linked to a set of KEGG Orthology (KO) entries for enzyme genes. Once gene identifiers in different organisms are converted to the K number identifiers in the KO system, corresponding line segments can be highlighted in the global map, allowing the user to view genome sequence data as organism-specific pathways, gene expression data as up- or down-regulated pathways, etc. Once chemical compounds are converted to the C number identifiers in KEGG, metabolomics data can also be displayed in the global map. KEGG Atlas is available at http://www.genome.jp/kegg/atlas/.


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