KEGG
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| Content | |
| Description | The KEGG resource for deciphering the genome. |
| Contact | |
| Research center | Kyoto University |
| Primary citation | Kanehisa & al. (2004)[1] |
| Access | |
| Website | www.genome.ad.jp/kegg/ |
| Tools | |
| Miscellaneous | |
KEGG (Kyoto Encyclopedia of Genes and Genomes) is a collection of online databases dealing with genomes, enzymatic pathways, and biological chemicals. The PATHWAY database records networks of molecular interactions in the cells, and variants of them specific to particular organisms. Since July 2011, KEGG switched to a subscription model, and access via FTP is no longer free.
Contents |
[edit] Introduction
The KEGG, the Kyoto Encyclopedia of Genes and Genomes, was initiated by the Japanese human genome programme[vague] in 1995.[2] According to the developers they consider KEGG to be a "computer representation" of the biological system.[3] The KEGG database can be utilized for modeling and simulation, browsing and retrieval of data. It is a part of the systems biology approach.
KEGG maintains five main databases:[1]
- KEGG Atlas
- KEGG Pathway
- KEGG Genes
- KEGG Ligand
- KEGG BRITE
[edit] Databases
KEGG connects known information on molecular interaction networks, such as pathways and complexes (the "Pathway" database), information about genes and proteins generated by genome projects (including the gene database) and information about biochemical compounds and reactions (including compound and reaction databases). These databases are different networks, known as the "protein network", and the "chemical universe" respectively. There are efforts in progress to add to the knowledge of KEGG, including information regarding ortholog clusters in the KO (KEGG Orthology) database.[1]
KEGG Pathways:
- Metabolism
- Genetic Information Processing
- Environmental Information Processing
- Cellular Processes
- Human Diseases
- Drug development
Ligand Database:
- Compound
- Drug
- Glycan
- Reaction
- RPAIR (Reactant pair alignments)
- Enzyme
[edit] See also
- Comparative Toxicogenomics Database - CTD integrates KEGG pathways with toxicogenomic and disease data
- ConsensusPathDB, a molecular functional interaction database, integrating information from KEGG
- Uniprot
- Gene ontology
- PubMed
[edit] References
- ^ a b c Kanehisa M, Goto S, Kawashima S, Okuno Y, Hattori M (2004). "The KEGG resource for deciphering the genome". Nucleic Acids Res 32 (Database issue): D277–80. doi:10.1093/nar/gkh063. PMC 308797. PMID 14681412.
- ^ Kanehisa M (1997). "A database for post-genome analysis". Trends Genet 13 (9): 375–6. doi:10.1016/S0168-9525(97)01223-7. PMID 9287494.
- ^ Kanehisa M, Goto S, Hattori M, Aoki-Kinoshita KF, Itoh M, Kawashima S, et al. (2006). "From genomics to chemical genomics: new developments in KEGG". Nucleic Acids Res 34 (Database issue): D354–7. doi:10.1093/nar/gkj102. PMC 1347464. PMID 16381885.
[edit] External links
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