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  1. KEGG Pathway (View Publication)
    Full Name of the Resource : Metabolic and regulatory pathways in complete genomes
    Resource Category : Databases -> Metabolic and Signaling Pathways -> Metabolic Pathways

    Brief Description : KEGG (Kyoto Encyclopedia of Genes and Genomes) is the primary database resource of the Japanese GenomeNet service (http://www.genome.ad.jp/) 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 (http://www.genome.ad.jp/kegg/).

    Institute/s :
    Bioinformatics Center, Institute for Chemical Research, Kyoto University,
    Address of Institute/s :
    Kyoto University, Uji, Kyoto 611-0011, Japan

    Country : Japan

    Associated Institutes :

    • Human Genome Center, Institute of Medical Science, University of Tokyo, Minato-ku, Tokyo 108-8639, Japan
    • Institute for Bioinformatics Research and Development, Japan Science and Technology Agency, Chiyoda-ku, Tokyo 102-8666, Japan

    Associated Country : Japan


    Authors/Contributors : Minoru Kanehisa
    Contact Email : kanehisa@kuicr.kyoto-u.ac.jp
    Year : 2010
    Language : English

    Keywords : Algorithms; Computational Biology / *methods; Computer Graphics; Databases, Factual; *Databases, Genetic; Escherichia coli / genetics; Genome; Genomics / methods; Humans; Internet; *Protein Interaction Mapping; Proteomics / methods; Software; *User-Computer Interface