KEGG Atlas mapping for global analysis of metabolic pathways.
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/.
Okuda
Shujiro
S
Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan.
Yamada
Takuji
T
Hamajima
Masami
M
Itoh
Masumi
M
Katayama
Toshiaki
T
Bork
Peer
P
Goto
Susumu
S
Kanehisa
Minoru
M
D003196:Computer Graphics; D016208:Databases, Factual; D023281:Genomics; D020407:Internet; D053858:Metabolic Networks and Pathways / Q000235:genetics; D012984:Software