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README for the "brite" subdirectory
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KEGG BRITE is a collection of BRITE hierarchy files, called htext
(hierarchical text) files, together with auxiliary collections of BRITE
table files and binary relation files. The htext files represent hierachical
classifications of KEGG objects, including genes and proteins, metabolites,
drugs, diseases and organisms. Each file contains "A", "B", "C", etc.
at the first column to indicate the hierarchy level, such as: 

    A Metabolism
    B   Carbohydrate Metabolism
    C     00010 Glycolysis / Gluconeogenesis [PATH:ko00010]
    D       K00844  HK; hexokinase [EC:2.7.1.1]
    D       K12407  GCK; glucokinase [EC:2.7.1.2]
    D       K00845  glk; glucokinase [EC:2.7.1.2]
    D       ......

Each BRITE hierarchy file (with extension .keg) is identified by the
combination of two- to four-letter prefix and five-digit number,
such as ko00001. The prefix has the following meaning:

    br - Non-gene/protein hierarchy
    jp - Non-gene/protein hierarchy in Japanese
    ko - Reference gene/protein hierarchy (KO)
    org - Organism-specific gene/protein hierarchy

where "org" is the three- or four-letter organism code.

The "ko" hierarchy files are manually created for the functional
classifications of genes and proteins using the K numbers (KO identifiers).
Organism-specific hierarchy files are then computationally generated by
converting K numbers to gene identifiers in each organism.

The "br" hierarchy files are manually created for the functional
classifications of chemical compounds, reactions, drugs, diseases,
organisms, etc. using the KEGG object identifiers other than the K numbers. 

The following tarballs are created in this directory for the BRITE
hierarchy files (with extension .keg) grouped by the prefix code:

    br.tar.gz
    jp.tar.gz
    ko.tar.gz
    organisms/org.tar.gz

and the following tarball contains the BRITE binary relation files
(with extension .xl):

    xl.tar.gz

The following tarballs contain the BRITE table files (with extension .html)
grouped by the prefix code.

    table_br.tar.gz
    table_jp.tar.gz

In addition, this directory contains the following files:

    brite.list           List of currently available BRITE hierarchy files
    brite_jp.list        List of currently available BRITE hierarchy files
                         in Japanese
    brite_table.list     List of currently available BRITE table files
    brite_table_jp.list  List of currently available BRITE table files
                         in Japanese
    links.tar.gz         ID mapping files of BRITE hierarchy to/from other
                         KEGG DBs
    brite.gz             BRITE flat file containing ID, name, references, etc.


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Updated: October 24, 2024

(c) Kanehisa Laboratories