KEGG : Kyoto Encyclopedia of Genes and Genomes

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A grand challenge in the post-genomic era is a complete computer representation of the cell, the organism, and the biosphere, which will enable computational prediction of higher-level complexity of cellular processes and organism behaviors from genomic and molecular information. Towards this end we have been developing a bioinformatics resource named KEGG as part of the research projects of the Kanehisa Laboratories in the Bioinformatics Center ... more

Also known as:

  • Kyoto Encyclopedia of Genes and Genomes.,
  • Kyoto Encyclopedia of Genes and Genomes,
  • KEGG: Kyoto Encyclopedia of Genes and Genomes

Public

SPARQL point:

  • http://kegg.bio2rdf.org/sparql

SPARQL port number:

  • 8,905

Number of namespaces:

  • 6

Reserved namespace:

  • kegg

Description:

  • A large database of metabolic pathways from multiple organisms. Reference pathways are available that describe a general pathway, which is then projected onto a genome based on the presence of pathway enzymes in that genome. KEGG is actually composed of a number of databases: PATHWAY, GENES and LIGAND. Some information on molecular complexes and signaling pathways is present, although mainly in diagram form.
  • KEGG (Kyoto Encyclopedia of Genes and Genomes) is the primary database resource of the Japanese GenomeNet service (a href=http:www.genome.ad.jphttp:www.genome.ad.jpa) for understanding higher order functional meanings and utilities of the cell or the organism from its genome information. KEGG consists of the PATHWAY database for the computerized knowledge on molecular interaction networks such as pathways and complexes, the GENES database for the information about genes and proteins generated by genome sequencing projects, and the LIGAND database for the information about chemical compounds and chemical reactions that are relevant to cellular processes. In addition to these three main databases, limited amounts of experimental data for microarray gene expression profiles and yeast two-hybrid systems are stored in the EXPRESSION and BRITE databases, respectively. Furthermore, a new database named SSDB is made available for exploring the universe of all protein coding genes in the complete genomes and for identifying functional links and ortholog groups. The data objects in the KEGG databases are all represented as graphs and various computational methods are developed to detect graph features that can be related to biological functions. For example, the correlated clusters are graph similarities which can be used to predict a set of genes coding for a pathway or a complex, as summarized in the ortholog group tables, and the cliques in the SSDB graph are used to annotate genes. The KEGG databases are daily updated and made freely available (a href=http:www.genome.ad.jpkegghttp:www.genome.ad.jpkegga).

Provider homepage:

  • http://www.genome.ad.jp/kegg/

URL pattern:

  • http://www.genome.jp/dbget-bin/www_bget?%s

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