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KEGG Release Notes

See also GenomeNet release notes archive and past announcements

Current release

Release 79.0, July 1, 2016
  • As announced all non-main type reactant pairs have been suppressed in the KEGG RPAIR database.
  • Each KEGG RCLASS entry is now associated with a collection of reactant pair image files showing chemical transformation patterns.
  • The NCBI virus taxonomy is added in the Map Taxonomy tool, and also as the "Virus taxonomy" button in the KO page containing viral genes.
  • Pharmacologic class information represented by the KEGG DRUG database is included in KEGG DRUG and KEGG DGROUP entries.

Past releases

Release 78.2, June 1, 2016
  • Selected viral genome entries with relevance to diseases are added to the KEGG GENOME database. While T40000 represents viral taxonomy as a whole in the KEGG GENES database, additional T4 numbers (such as T40048) represent specific viral taxonomic categories that are linked from KEGG DISEASE entries.
Release 78.1, May 1, 2016 Release 78.0, April 1, 2016
  • The Join Brite Table tool is released in KEGG Mapper. It is a variant of the Join Brite tool, adding a user-defined column to a Brite table file.
  • KEGG ENZYME, which now contains manually identified sequence data for EC numbers, is linked from the top page.
  • The AMR gene collection, such as for beta-lactamases, is associated with FASTA sequence data files and phylogenetic tree files.
  • An updated tool of drug interaction checker is released in the Japanese version of KEGG MEDICUS.
Release 77.1, February 1, 2016
  • A new version of link and conv operations is released in KEGG API. In contrast to the previous version that depended on LinkDB at GenomeNet, the new version is more up-to-date and runs faster.
Release 77.0, January 1, 2016
  • The KEGG GENES addendum category has removed the restriction of complete genomes when defining KOs, which has enabled the KO database to incorporate all functionally characterized proteins. Currently there are three focused areas: proteins in the KEGG pathway maps that have not been linked to GENES, anitimicrobial resistance (AMR) genes and protein sequence data for Enzyme Nomenclature.
  • AMR genes are made available in the KEGG Pathogen page, while the effort to associate sequence data to Enzyme Nomenclature is described in the new KEGG Enzyme page.
Release 76.0, October 1, 2015
  • A new mapping operation, named "Join Brite Table", is introduced for combining a BRITE table file and a binary relation file, which effectively adds a column to the table. This is implemented together with "Join Brite" for a Brite hierarchy file in the Drug Classification.
  • Following the addition of plasmids, viruses and addendum categories in KEGG GENES, the main category of KEGG organisms is expanded. The restriction of completely sequenced genomes for prokaryotes has been removed to incorporate phylogenetically important genomes. A comparison of KEGG organisms and NCBI reference/representative genomes is shown here.
  • The NCBI-GI option was removed from the ID conversion interfaces in KEGG GENES, KEGG Mapper and KEGG API.
Release 75.1, September 1, 2015
  • NCBI GI links from KEGG GENES are being changed to ProteinID (INSDC protein accession) links because of the NCBI's announcement to eliminate GI's next year. NCBI GeneID links will remain available for eukaryotes, a small number of reference genomes in prokaryotes, viruses and plasmids, but not for most other prokaryotic genomes.
Release 75.0, July 1, 2015
  • KEGG GENES is a collection of complete genomes (each identified by the organism code or T number), but it also includes the Plasmids (pg or T20000) and Viruses (vg or T40000) categories introduced in Release 73.1 and now a new category named Addendum (ag or T10000) for a publication-based collection of functionally characterized genes.
  • Taxonomy mapping, such as from a KO page, has been changed from the KEGG taxonomy to the NCBI taxonomy, which now includes the pg, vg and ag categories identified by the NCBI taxonomy IDs.
Release 74.0, April 1, 2015
  • In addition to the existing BlastKOALA server, a new server called GhostKOALA has been released. The new server is suitable for annotating a large amount of metagenome sequence data.
  • A preliminary version of Pathogen Checker tool is released. It is a specialized version of BlastKOALA for inferring drug resistance and other phenotypic features from pathogen genomes.
  • The Module Table tool for examining taxonomic distribution of KEGG modules and KO entries has been upgraded to correctly include plasmid (pg) entries.
Release 73.1, February 1, 2015
  • The collections of viruses and plasmids from RefSeq are included in the KEGG GENES database with K number annotations.
  • The previous unannotated collection of viruses in KEGG VGENES and VGENOME has been discontinued.
Release 73.0, January 1, 2015
  • The KEGG Annotation page is upgraded and linked from the top page. It now contains a new tool, Module Table, for examining taxonomic distributions of KEGG modules and KO entries.
  • The KEGG DGROUP database is being associated, when possible, with structural information such as in DG01458.
Release 72.1, December 1, 2014 Release 72.0, October 1, 2014
  • BlastKOALA has been enhanced to allow examination of GFIT data (BLAST hits) for verification of automatically assigned K numbers.
  • An updated version of the KEGG/GenomeNet feedback form is available both at the kegg.jp site and the genome.jp site.
  • Reaction module data (html files) are included in the FTP distribution.
  • The color coding for the KEGG ORTHOLOGY background color is changed from #edddcd to #f2e9b6.
Release 71.1, September 1, 2014
  • BlastKOALA, a new service for genome/metagenome annotation, is released.
Release 71.0, July 1, 2014
  • A new database, KEGG DGROUP for drug groups, is released.
  • The search box found at the top of KEGG DISEASE and DRUG pages now returns a simultaneous search result against DISEASE, DGROUP, DRUG, ENVIRON, and COMPOUND.
  • The KEGG Annotation page is released. It contains KEGG taxonomy checker for checking the organism groups assigned to KEGG modules and KO groups, and KEGG annotation guide to help distinguish related modules and complexes.
  • Genus and species information of KEGG organisms is now clearly defined.
Release 70.1, June 1, 2014
  • RDF (Turtle and N-Triples) format is supported in link and conv operations of KEGG API.
  • KEGG GENES is generated from NCBI RefSeq now using assembly IDs rather than bioproject IDs.
Release 70.0, April 1, 2014
  • An updated version of Color Pathway WebGL (formerly, Color Pathway 3D) tool is available in KEGG Mapper. The KEGG Atlas cancer map viewer has also been updated.
  • The ddi (drug-drug interaction) search operation in KEGG MEDICUS API now accepts FDA's National Drug Codes (NDCs).
  • KEGG EGENES and EGENOME for EST datasets are discontinued.
Release 69.0, January 1, 2014
  • A new version of Map Taxonomy tool is introduced in KEGG Mapper. It enables to examine the organism groups assigned to a KEGG Orthology group (K number) or a KEGG module (M number).
  • The KEGG DISEASE, DRUG and ENVIRON databases are moved to the Health Information Category, and the changes are made in the ordering of KEGG databases (such as in KEGG2) and BRITE hierarchy files (such as in BRITE).
  • KEGG EGENES for EST datasets will be discontinued in the next release.
Release 68.1, December 1, 2013 Release 68.0, October 1, 2013
  • The completeness check mechanism has been introduced in the KEGG MODULE database, showing which organisms or organism groups have complete modules or incomplete but almost complete modules.
  • The KEGG Mapper tool Reconstruct Module also includes an option to select complete and incomplete modules.
  • The KEGG MODULE M number, especially for a signature module, may now be defined as a combination of both K numbers and other M numbers.
Release 67.1, August 1, 2013
  • The global maps (map numbers 01100s) and the overview maps (map numbers 01200s) of KEGG metabolic pathways contain manually entered coordinates for KEGG modules, and the overview maps contain those for reaction modules as well. The show_pathway routine now handles KEGG modules and reaction modules, such as for map01210.
Release 67.0, July 1, 2013
  • In the metabolism section of the KEGG PATHWAY database, the first category is now called "Global and overview maps" consisting of map numbers 01100s and 01200s, which are tightly integrated with KEGG modules and KEGG reaction modules. Note that the reaction module maps category is merged into this category.
  • A new version of KEGG Atlas is released to handle KEGG modules and reaction modules in these maps.
Release 66.1, May 1, 2013
  • The pathway map HTML pages are no longer statically generated. The URL such as /kegg/pathway/map/map00010.html will continue to be supported, but some old CGI programs that utilize static files do not work any longer. It is recommended to use "show_pathway" rather than "mark_pathway_www" for pathway map coloring (see KEGG WebLinks).
Release 66.0, April 1, 2013 Release 65.0, January 1, 2013 Release 64.0, October 1, 2012
  • A new dataset of KEGG reaction modules is released.
  • KEGG DRUG now contains an interface to check a given set of drugs (D numbers) for any interactions associated with contraindications and precautions as described in the drug labels.
  • In the Japanese version of KEGG MEDICUS, this search can be performed for individual products (rather than D numbers).
Release 63.0, July 1, 2012
  • The new REST-style version of KEGG API is released, together with an updated version of KEGG web links.
  • The KEGG organism code for the GENES database is no longer limited to three letters. Some may consist of four letters.
Release 62.0, April 1, 2012
  • New "Reconstruct Pathway/Brite/Module" tools are made available in KEGG Mapper helping genome and metagenome annotations.
  • Another mapping tool, "Color Pathway 3D", is linked directly to KEGG Atlas 3D viewer.
  • "KEGG MEDICUS My Medication List" is released (Japanese version only).
Release 61.1, February 1, 2012
  • The KEGG MEDICUS search now integrates FDA drug labels for both prescription and OTC drugs.
  • The search box in the KEGG top pages includes an option to select from KEGG search, DBGET search, and MEDICUS search.
  • A composite database named GENOMES is created consisting of GENOME for complete genomes in GENES and DGENES, EGENOME for EST datasets in EGENES, and MGENOME for environmental samples in MGENES.
Release 61.0, January 1, 2012
  • As of December 19, 2011 the KEGG database development was separated from the GenomeNet service. The KEGG team is responsible for the development of the 17 databses listed in the KEGG overview page. MGENES and EGENES as well as MGENOME and EGENOME are GenomeNet extensions of KEGG.
  • KEGG MEDICUS allows an intergrated search against KEGG PATHWAY, KEGG DISEASE, and KEGG DRUG.
  • The Japanese version of KEGG MEDICUS allows an intergrated search with package insert information of all prescription drugs and OTC drugs marketed in Japan.
  • The 3D map viewer linked from the new portal KEGG Cancer is integrated in KEGG Atlas.
Release 60.0, October 1, 2011
  • KEGG Mapper now includes mapping tools for KEGG MODULE in addition to KEGG PATHWAY and KEGG BRITE.
  • A preliminary version of 3D map viewer is released and linked from the KEGG MEDICUS page.
Release 59.0, July 1, 2011
  • KEGG FTP subscription is introduced.
  • The Color Pathway tool of KEGG Mapper now accepts numerical data, which can be displayed by gradation and optionally by 3D representation as well.
Release 58.1, June 1, 2011
  • An enhanced version of KEGG Mapper is released.
Release 58.0, April 1, 2011
  • KEGG pathway maps indicating disease genes and drug targets are now treated as a special class of organism specific pathways with the organism code "hsadd".
  • This extension is also applied to organism specific BRITE hierarchies.
  • In a similar way, extended versions of ATC and other drug classification systems with target and metabolizing enzyme information are made available.
Release 57.0, January 1, 2011
  • An enhanced version of KEGG MODULE is released containing computationally generated module maps, allowing KEGG module mapping similar to KEGG pathway mapping.
  • KEGG MEDICUS contains a collection of human pathway maps with known disease genes and drug targets marked in different colors, which can be used in the "Search Pathway" tool of KEGG Mapper.
Release 56.1, December 1, 2010
  • Newly developed xenobiotics degradation pathway maps have been released.
Release 56.0, October 1, 2010
  • KEGG MEDICUS is introduced as an interface to KEGG pathway maps containing disease genes and drug targets.
  • Disease/drug mapping and user data mapping links are added to KEGG pathway maps.
  • KEGG pathway mapping capabilities are enhanced for the display of combined pathways, for example, for human and gut microbiome.
Release 55.1, September 1, 2010
  • Tab-delimited fields are better handled in the BRITE functional hierarchy files, including the JOIN operation of a BRITE file and a binary relation file.
  • The collection of KEGG PATHWAY and BRITE mapping tools is now called KEGG Mapper.
Release 55.0, July 1, 2010
  • A new database of reaction class, KEGG RCLASS, is released for the grouping of similar reactions on the KEGG pathway maps, based on the RDM patterns of main reactant pairs.
  • A drug extension (or extra) database, KEGG EDRUG, is released containing crude drugs and other plant natural products, distinguishing from the collection of approved drugs in KEGG DRUG.
  • KEGG PLANT is discontinued and merged into KEGG EDRUG.
  • An updated version of KEGG Atlas now handles the global maps with layer information such as pathway modules.
  • An updated version of show_organism interface now handles dynamically generated maps for DGENES/EGENES/MGENES in a similar way as those for GENES.
Release 54.1, May 1, 2010
  • The KGML+ (KGML+SVG) file for the global metabolism map (map01100) is released at the ftp site.
Release 54.0, Apirl 1, 2010
  • KEGG GENOME now contains metagenomes for environmental samples, together with the gene catalog KEGG MGENES.
  • Multiple strains may be combined to define a pangenome; more generally an organism group may be defined as any combination of KEGG organisms.
  • Organism-specific pathway maps for draft genomes (DGENES), EST datasets (EGENES), and metagenomes (MGENES) are dynamically generated (no static maps are available at the ftp site).
  • Combined pathway maps may also be generated dynamically for pangenomes and organism groups based on the curated KO assignment for GENES.
  • Metabolic pathway map categories have been changed. "Biosynthesis of Polyketides and Terpenoids" and "Biosynthesis of Secondary Metabolites" are reclassified into "Biosynthesis of Polyketides and Terpenoids" and "Biosynthesis of Other Secondary Metabolites".
Release 53.0, January 1, 2010
  • KEGG DISEASE database is available for download at the FTP site.
  • The KEGG Orthology system now contains the categories of both KEGG pathway maps and BRITE functional hierarchies.
  • Each KEGG entry is now displayed together with "All links" information, which is obtained from the GenomeNet LinkDB database.
Release 52.1, December 1, 2009
  • New tools are available for mapping against BRITE hierarchies and KEGG taxonomy trees.
Release 52.0, October 1, 2009
  • A new pathway search facility is introduced enabling keyword search against pathway title, description, free text in the map, etc.
  • The XML files for the KEGG pathway maps are made available at the FTP site in both the original KGML format and the converted BioPAX level 2 format.
  • KEGG OC (Ortholog Clusters) is made available at the FTP site, containing orotholog clusters computationally generated from the KEGG SSDB database.
Release 51.0, July 1, 2009
  • The image maps of KEGG PATHWAY have been changed from GIF to PNG.
  • A search box is introduced to each pathway map, where pop-up texts on top of the pathway objects are searchable.
  • The pathway search and mapping tools now include the global metabolism map as well.
  • KEGG DRUG is moved from the LIGAND category to the new MEDICUS category.
  • The read-only version of KEGG annotation tools, KOALA and GFIT, can now be viewed from the KO and GENES entry pages.
Release 50.2, April 24, 2009
  • Global metabolism map is implemented with the traditional image map viewer.
Release 50.1, April 10, 2009
  • A new tool to generate a taxonomy tree from a set of NCBI taxonomy IDs is released.
  • REST based URLs for retrieving KEGG entries and pathway maps are made available at the kegg.jp site.
Release 50.0, April 1, 2009
  • All the KEGG pathway maps have been redrawn with the KegSketch tool to generate KGML+ (KGML+SVG) files.
  • KEGG Atlas is completely redesigned and now based on the KGML+ files.
  • The traditional pathway map viewer using GIF image files is upgraded with the zooming capability.
Release 49.0, January 1, 2009
  • KEGG PLANT is released as a new resource for plant genomes, secondary metabolism, and natural products.
  • The KEGG ORTHOLOGY (KO) system is explained in a new page together with the KEGG annotation procedure.
  • An interface to process KEGG object identifiers is added at the top of the main pages.
Release 48.0, October 1, 2008
  • The KEGG PATHWAY database now contains, in addition to the graphical pathway maps, text-based pathway entries for description of biological processes shown in the pathway map, lists of genes and molecules that constitute the pathway, and associated reference information.
Release 47.1, September 1, 2008
  • KEGG DGENES is merged into KEGG GENES.
Release 47.0, July 1, 2008
  • A new version of KEGG Atlas viewer is released using the <canvas> element.
  • Subcategorization of KEGG DRUG entries is introduced distinguishing mixtures, crude drugs, and TCM (Traditional Chinese Medicine) formulas.
Release 46.0, April 1, 2008
  • The KEGG Atlas cancer map is released combining 14 existing cancer pathway maps.
  • The new GECS (gene expression to chemical structure) software is released, currently, for prediction of N-glycan structures from microarray gene expression profiles.
Release 45.0, January 1, 2008
  • The global map of KEGG metabolic pathways is released as the first component of KEGG Atlas.
  • Smaller units of existing KEGG pathways are now stored in the KEGG MODULE database, which also contains other functional units of pathways and complexes.
  • The KEGG DISEASE database is released containing gene/molecule lists for selected diseases.
  • A new page, KEGG COMPOUND, is prepared for pathway-based reorganization of biochemical compounds.
Release 44.0, October 1, 2007
  • KEGG EGENES, which is constructed from massive EST libraries, now incorporates singletons as well as contigs.
  • The Organism subfield is introduced in KEGG ENZYME for the organism information manually taken from the original references.
  • The Structure field is introduced in KEGG GENES containing cross-reference links from GENES to PDB refined by the corresponding organism information.
Release 43.0, July 1, 2007
  • Java Web Start is introduced for launching KegTools: BRITE to KegHier, COMPOUND/GLYCAN to KegDraw, and EXPRESSION to KegArray.
  • Peptide entries in the COMPOUND database now contain the SEQUENCE field, similar to PK/NRP entries.
Release 42.0, April 1, 2007
  • New version of the hierarchical text file viewer "get_htext" is released.
  • PK/NRP entries are added to the COMPOUND database with the new SEQUENCE field.
  • Server-side viewer is discontinued for the EXPRESSION database, which is now linked to KegArray.
  • New directory organization of the FTP site.
Release 41.1, February 1, 2007
  • New search box is introduced in the KEGG top page.
Release 41.0, January 1, 2007
  • The entire text of all BRITE files can now be searched with keywords.
Release 40.0, October 1, 2006
  • Reactions subcategory in the BRITE database.
  • RPAIR database updated to reflect most of the KEGG reactions.
Release 39.0, July 1, 2006
  • The Japanese language interface to the KEGG system is released.
  • KEGG update notes in RSS feeds.
Release 38.1, June 1, 2006
  • The mapping to BRITE hierarchies is implemented as an operation to combine two files: a binary relation file and a hierarchical text file.
  • Ortholog group tables to be discontinued.
  • KEGG pathway modules released.
  • New top page for KEGG SSDB.
Release 38.0, April 1, 2006
  • DBGET implementation of KEGG BRITE.
  • Standalone java application KegHier for accessing and handling BRITE files.
Release 37.0, January 4, 2006
  • Automatic conversion of outside database identifiers is implemented. Gene/protein identifiers such as in NCBI RefSeq (Entrez Gene) and UniProt can now be directly used in KEGG GENES.
Release 36.1, December 1, 2005
  • A new category of the KEGG PATHWAY database "Drug Development" is made available. It is a collection of KEGG DRUG structure maps illustrating our knowledge on drug development.
  • Manually drawn glycan structures are included in the Glycan section of the KEGG PATHWAY database to supplement computationally generated Composite Structure Map (CSM).
Release 36.0, October 1, 2005
  • The LIGAND relational database (primary) version of KEGG DRUG is made available in addition to the DBGET (secondary) version.
  • The KEGG REACTION data is enhanced with the introduction of the categorization of chemical structure transformation patterns, called RDM patterns, in the RPAIR database.
  • A new interface is introduced to DRUG, GLYCAN, REACTION, EXPRESSION, and Auto Annotation (KAAS).
Release 35.0, July 1, 2005
  • KEGG automatic annotation server, named KAAS, is released to assist annotation (KO assignment) and KEGG pathway mapping of newly determined genomes.
  • Cross-reference lists are made available for conversion of IDs between KEGG and outside databases.
  • KEGG DRUG is introduced separating from KEGG COMPOUND to accumulate chemical structures, therapeutic categories, targets, and other information of drugs.
Release 34.0, April 1, 2005
  • Different entry points are prepared for accessing KEGG, called Generalized KEGG, Specialized KEGG, and Personalized KEGG in the KEGG2 (table of contents) page.
  • One feature of Specialized KEGG is an organism-specific view of KEGG.
  • Another feature is customization of KEGG organism menu used to display pathway maps, etc. Cookie must be enabled to make this feature to work.
  • By making use of the LinkDB resource in GenomeNet, KEGG pathways are linked to many different outside databases, such as NCBI Entrez and UniProt.
  • Automatic annotation and pathway mapping of draft genomes (DGENES) and EST consensus contigs (EGENES) are released, which significantly increased the number of KEGG Organisms.
  • KEGG BRITE is officially introduced as the fourth component of KEGG, providing among others classifications of drugs and compounds.
  • KegDraw for drowing chemical compound and glycan structures is released.
Release 33.0, January 4, 2005
  • A new glycomics resource "KEGG GLYCAN Composite Structure Map" is released. Genes in the genome or the transcriptome can be mapped on a composite structure generated from the GLYCAN database so that organism-specific or expressed glycan structures can be viewed and examined.
  • A high-level KEGG pathway map is introduced for an overview of biosynthetic pathways. Such high-level maps will be used in the future for computational inference in the BRITE database.
  • A therapeutic category of drugs in the COMPOUND database is released based on the Japanese Pharmacopoeia.
  • A preliminary version of EGENES, a collection of plant EST contigs, is released. Currently it contains no annotation, but in a future release KEGG pathways will be generated by automatic KO assignments.
Release 32.0, October 1, 2004
  • The Oracle version of the LIGAND database is released replacing the ISIS version.
  • New in-house programs SIMCOMP and SUBCOMP can now be used for searching similar compound structures against the COMPOUND or REACTION database.
  • Another new program e-zyme has been developed to predict reactions between given compound pairs with assignments of possible EC numbers.
  • The RPAIR database is released as part of LIGAND, containing the reactant pairs that constitute enzymatic reactions with information about atomic alignments.
Release 31.0, July 5, 2004
  • The DBGET entries of the KEGG databases are shown in a nicer view with buttons to link other KEGG resources and help messages.
  • The GFIT tables that have been used for genome annotations are incorporated into the SSDB database (Oracle), which makes the gene cluster search much faster than before.
Release 30.0, April 1, 2004
  • KGML v0.4 contains a major restructuring of elements.
  • A preliminary version of KegArray, a Java application for microarray data analysis, is released for Mac OS X.
  • The KEGG pathways are linked again to human diseases genes in the OMIM database.
Release 29.0, January 1, 2004
  • New user interfaces are introduced to reflect the basic structure of KEGG. Conceputually, KEGG consists of three graph objects called the protein network (PATHWAY database), the gene universe (GENES/SSDB database), and the chemical universe (LIGAND database).
  • The Java applet version of KEGG genome map browser is discontinued. It is replaced by a new version using dynamically generated image maps.
  • The Java applet version of KEGG expression browser will also be discontinued.
  • The automatic generation of ortholog group tables incorporates coloring of gene clusters.
Release 28.0, October 1, 2003
  • KGML v0.3 comes with part of KEGG regulatory pathways.
Release 27.0, July 1, 2003
  • The GLYCAN database is released as a new effort to collect complex carbohydrate structures. GLYCAN is part of the DBGET system and the structure search is available together with the Java-based input tool.
  • CarbBank is also implemented in the DBGET system.
Release 26.0, April 1, 2003
  • The first release of KEGG API is made avilable. It is a SOAP interface suitable for automating access to and use of KEGG.
  • KGML (KEGG Markup Language) v0.2 is available with reaction data in metabolic pathways.
  • The results of computationally generated ortholog and paralog groups in SSDB can now be viewed by the adjacency matrix viewer.
Release 25.0, January 1, 2003
  • An XML version of the KEGG metabolic pathways is made available in the KGML (KEGG Markup Language) v0.1.
  • KO (KEGG Orthology) is officially released in the following: KO database in DBGET, KO entries linked to SSDB clustering, and 'all organisms' pathways linked to KO.
  • The reference metabolic pathways are now of two types: those linked to enzymes (EC numbers) and those linked to KEGG reactions (R numbers).
Release 24.0, October 7, 2002
  • The GENES and SSDB databases are operational on Oracle.
  • SSDB now contains TIGRFAMs in addition to Pfam and Prosite.
Release 23.0, July 1, 2002
  • REACTION database is made available in DBGET.
Release 22.0, April 1, 2002
  • The fifth top category of "Human Diseases" is introduced in the hierarchy of KEGG pathways.
  • The top category of "Cellular Processes" is also being reorganized.
  • The hierarchy of KEGG pathways is now called KO (KEGG Orthology). The KO identifiers will be introduced shortly.
Release 21.0, January 25, 2002
  • Automatic generation of ortholog group tables using the "select organism" option.
Release 20.1, December 10, 2001
  • The Chemscape version of the LIGAND database is released, enabling substructure searches against COMPOUND and REACTION databases.
Release 20.0, October 16, 2001
  • The Java-based dendrogram viewer is implemented in both the Expression database and the SSDB database.
Release 19.0, July 16, 2001
  • The KEGG Expression Database contains an increasig amount of microarray gene expression profile data for Synechocystis PCC6803 and Bacillus subtilis, together with an enhanced version of KEGG expression browser.
  • The initial phase of SSEARCH computation for all pairwise genome comparisons has been completed in the SSDB Database. The result of cluster analysis can now be examined with a Java dendrogram viewer.
Release 18.0, April 16, 2001
  • A new database named SSDB is implemented. It contains similarity scores of all gene pairs in the GENES database computed by SSEARCH at the amino acid sequence level. It also contains the information about best hits and double-best hits when two genomes are compared.
Release 17.0, January 1, 2001
  • A hierarchy of organism groups in the KEGG menu page and associated DBGET search.
  • A hierarchy of genes in the list of ortholog identifiers, which is used for automatic matching of genes in the genome and gene products in the pathway.
  • The database name GENOMES is changed to GENOME, which now represents both the information about individual organisms and the collection of Java genome maps.
Release 16.0, October 14, 2000
  • The cell lineage of H.roretzi is now represented by a graphical image map, which is linked to actual pictures of early-stage embryo.
  • Different types of analysis tools for microarray expression data are being integrated into a single interface of KEGG expression database.
Release 15.0, July 11, 2000
  • The gene catalog search is incorporated in the DBGET/LinkDB system as the hfind mode.
  • A new version of expression browser is implemented.
  • The MOTIF search can now be automatically invoked from any GENES database entry.
  • The KEGG metabolic pathway section now includes pathways of the University of Minnesota Biocatalysis/Biodegradation Database (UM-BBD).
Release 14.0, April 6, 2000
  • The ortholog IDs are introduced as an extension of the EC numbers for matching the pathway information with the genomic information, such as for automatic generation of organism-specific pathways.
  • As a result of this extension, KEGG metabolic pathways may now contain gene names.
  • The get_htext program to handle hierarchical text data, such as gene catalogs, has been upgraded. It now runs ten times faster and supports more options.
Release 13.0, January 1, 2000
  • Introduced the GENOMES database for a collection of completely sequenced genomes.
  • Enhancements of the expression map browsers including the new tool.
Release 12.0, October 15, 1999
  • A new type of hierarchical text data is introduced for browsing cell lineage maps.
  • FASTA search against GENES database can now be performed both at the amino acid and nucleotide sequence levels.
Release 11.1, September 1, 1999
  • A preliminary version of expression map browser is made available for analyzing microarray gene expression data.
  • The table of contents page is reorganized.
  • The regulatory pathways page is reorganized.
Release 11.0, July 1, 1999
  • In the ortholog group tables, the column-wise extraction of gene definitions is now possible in addition to the row-wise extraction.
  • An entry in the GENES database can now be retrieved in the DBGET/LinkDB system either by the gene accession (such as b1882 or YAL041W) or by the primary gene name (such as cheY or CDC24).
Release 10.0, April 1, 1999
  • A new version of genome map browser has been implemented. The browser now has two windows: an HTML window and a Java window. The HTML window contains the overall map in Java, which integrates both linear and circular chromosomes, and also incorporates plasmids and extra chromosomal elements. The Java window is an enlarged window around the position specified in the overall map, which now displays five lines by default.
Release 9.0, January 4, 1999
  • It has become possible to color genome maps and ortholog group tables, in addition to pathway maps, for distinguishing different groups of genes such as in the gene expression profile experiments.
Release 8.0, October 1, 1998
  • An effort to classify chemical compounds is initated.
  • The objects in the KEGG pathways can now be marked by any combination of colors, which should be useful in coloring genes according to the expression profiles obtained by microarray or DNA chip experiments.
Release 7.1, July 21, 1998
  • The KEGG mirror server package has been released.
  • The genome map browser has a new interface that runs much faster than the previous version.
Release 7.0, July 1, 1998
  • A new capability to compare two genome maps has been implemented. It is a 'dot matrix' of similar genes that can be used to identify clusters of genes that share sequence similarities.
  • The GENES amino acid sequences and the whole GENOME nucleotide sequences can now be searched by both FASTA and BLAST either from the KEGG table of contents page or the KEGG tools page.
Release 6.1, May 11, 1998
  • A new category of ortholog/paralog group tables is added to the KEGG pathway section.
  • A prediction tool is made available for gene function assignment by searching sequence similarities and by making use of the information of a functional unit in the ortholog/paralog tables.
  • Started providing a suite of genome map comparison tools, including the search for homologous gene clusters.
Release 6.0, April 3, 1998
  • Genome map search - A new capability to search genome maps for gene positions is released.
  • Pathway map search - The capabilities to search pathway maps for enzymes, compounds, and genes are combined in a single user interface under the WWW version, which is now consistent with the e-mail version.
  • In the result of path computation program PathComp, the user can now examine a series of compound structures to select plausible pathways.
Release 5.0, January 23, 1998
  • Started organizing molecular assemblies which are tentatively classified under the regulatory pathway section.
  • Started organizing different types of molecular catalogs, especially for human proteins.
Release 4.1, December 9, 1997
  • The compound data has been fully integrated. A circle on the pathway diagram is now a clickable and searchable object.
  • All image maps are now handled at client side, which enables easy recognition of clickable area by the cursor.
  • The gene catalog for each organism now contains the classification of regulatory pathways.
  • The pathway search routines by EC numbers, compound numbers, and gene names can now be used as an e-mail server. The address is: pathway@genome.ad.jp.
Release 4.0, October 3, 1997
  • A set of gene names of a given organism can be used as a query to search matching names on the KEGG pathways.
  • A set of amino acid sequences can be used as a query to search similar sequences on the KEGG pathways, which will be especially useful in pathway reconstruction.
Release 3.1, July 30, 1997
  • KEGG Release 3.1 contains a new collection of regulatory pathways, in addition to the previous collection of metabolic pathways.
  • The KEGG TOC page is non-framed.
CD Release 3.0, July 4, 1997
  • This is the first official CD printing. The previous ones were made in-house.
Release 2.1, May 1, 1997
CD Release 2.1, May 1, 1997
  • The KEGG TOC page is framed.
  • New Java launchers are installed.
Release 2.0, April 1, 1997
CD Release 2.0, April 3, 1997
  • The Internet version relies less on Java making it more widely available.
  • The CD version experiments a number of advanced features of Java and Javascript which may only be appreicated by Netscape 3.01 or later.
FTP Release, January 18, 1997
  • The weekly updated CD version of KEGG may be downloaded by anonymous FTP.
Release 1.1, December 13, 1996
CD Release 1.1, December 27, 1996
  • The Java option of KEGG is now fully implemented.
Release 1.0, October 24, 1996
  • The first official release of KEGG contains five organisms, Haemophilus, Mycoplasma, Methanococcus, Synechocystis, and Yeast.
  • A new program, ec_point, is released for searching enzymes on the metabolic pathways.
  • Genome browsers, ZoomDial for circular genomes and ZoomLine for linear genomes, are released.
Release 0.3, May 14, 1996
  • The clickable chromosome maps are available for accessing GDB and OMIM data.
  • The enzyme classification according to PROSITE patterns is added.
  • The metabolic pathway data are being verified with different sources and modified accordingly.
Release 0.2, March 21, 1996
  • The pathway data for most of the known metabolic pathways have been entered and properly classified. They may now be accessed through a clickable diagram.
  • The genes tables are available for 13 species and human disease genes.
  • It is now possible to identify enzymes that appear in OMIM, PDB, and PIR databases. Click the title box in each pathway diagram.
  • To assist enzyme search against the pathway diagrams, a new window is added for EC number search.
Release 0.1, December 1, 1995
  • A bare backbone of KEGG is available consisting of gene classification tables for selected organisms, three types of enzyme classification tables, and a selected number of metabolic pathway diagrams.
  • The basic capabilities of hierarchical text handling and graphics diagram handling are available.
  • The search capabilities include key word search on a hierarchical text and enzyme (boxed object) search on pathway diagrams.
  • A repertoire of enzyme genes in each category may be identified on the corresponding pathway diagram. Click the link marked MAP in the gene classification table.
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