UNIT 1.12 Using the KEGG Database Resource

  1. Kiyoko F. Aoki,
  2. Minoru Kanehisa

Published Online: 1 OCT 2005

DOI: 10.1002/0471250953.bi0112s11

Current Protocols in Bioinformatics

Current Protocols in Bioinformatics

How to Cite

Aoki, K. F. and Kanehisa, M. 2005. Using the KEGG Database Resource. Current Protocols in Bioinformatics. 11:1.12:1.12.1–1.12.54.

Author Information

  1. Bioinformatics Center, Kyoto University, Japan

Publication History

  1. Published Online: 1 OCT 2005
  2. Published Print: SEP 2005

This is not the most recent version of the article. View current version (1 JUN 2012)


KEGG (Kyoto Encyclopedia of Genes and Genomes) is a bioinformatics resource for understanding the functions and utilities of cells and organisms from both high-level and genomic perspectives. It is a self-sufficient, integrated resource consisting of genomic, chemical, and network information, with cross-references to numerous outside databases, containing a complete set of building blocks (genes and molecules) and wiring diagrams (interaction networks) to represent cellular functions. This unit describes protocols for using KEGG, KEGG PATHWAY, KEGG GENES, KEGG SSDB, KEGG EXPRESSION, and KEGG LIGAND. Protocols are also described for how to color maps, compare chemical compounds and glycan chains, analyze Ortholog Clusters, and visualize and analyze microarray data, among other procedures. All of these many protocols enable the user to take advantage of the full breadth of the functionality provided by KEGG.


  • Pathway analysis;
  • ortholog cluster;
  • gene cluster;
  • chemical network analysis;
  • gene expression analysis