is a Data Source.
It is part of the BER collection.
The Kyoto Encyclopedia of Genes and Genomes (KEGG) is a database resource for understanding high-level functions and utilities of the biological system, such as the cell, the organism and the ecosystem, from molecular-level information, especially large-scale molecular datasets generated by genome sequencing and other high-throughput experimental technologies.
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infores:kegg
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| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| kegg.web | KEGG Web Interface | kegg | Graphical Interface | http | Web interface for browsing and search... |
| kegg.medicus | KEGG MEDICUS | medicus.html | Graphical Interface | http | Web interface for integrated drug and... |
| kegg.webapps | KEGG Web Apps | webapp | Graphical Interface | http | Interactive web applications for KEGG... |
| kegg.api | KEGG REST API | rest | Programming Interface | http | REST-style Application Programming In... |
| kegg.pathway | KEGG PATHWAY | pathway.html | Product | http | KEGG pathway maps representing molecu... |
| kegg.brite | KEGG BRITE | brite.html | Data Model | http | BRITE hierarchies and tables for func... |
| kegg.module | KEGG MODULE | module.html | Product | http | KEGG modules representing tighter fun... |
| kegg.orthology | KEGG ORTHOLOGY | ko.html | Product | http | KO (KEGG Orthology) groups representi... |
| kegg.genes | KEGG GENES | genes.html | Product | http | Gene catalogs of completely sequenced... |
| kegg.genome | KEGG GENOME | genome | Product | http | Collection of organisms with complete... |
| kegg.compound | KEGG COMPOUND | compound | Product | http | Collection of small molecules and bio... |
| kegg.glycan | KEGG GLYCAN | glycan | Product | http | Collection of glycans |
| kegg.reaction | KEGG REACTION | reaction | Product | http | Collection of biochemical reactions |
| kegg.disease | KEGG DISEASE | disease | Product | http | Collection of human diseases |
| kegg.drug | KEGG DRUG | drug | Product | http | Collection of drugs |
| kegg.pathway.kgml | KEGG Pathway KGML | xml | Data Model | xml | KEGG pathway maps in KGML (KEGG Marku... |
| kegg.mapper | KEGG Mapper | mapper | Process | http | Collection of tools for mapping molec... |
| kegg.syntax | KEGG Syntax | syntax | Process | http | Tools for analyzing conserved genes, ... |
| kegg.annotation | KEGG Annotation | annotation | Process | http | Tools for KO (KEGG Orthology) assignm... |
| kegg.blastkoala | BlastKOALA | blastkoala | Process | http | BLAST-based KO annotation and KEGG ma... |
| ID | Name | URL | Category | Format | Relation | Description |
|---|---|---|---|---|---|---|
| obo-db-ingest.rhea.sssom.tsv | rhea SSSOM | rhea.sssom.tsv (150.6 KB) | Mapping | sssom | had primary source | rhea SSSOM |
| obo-db-ingest.bigg.metabolite.sssom.tsv | bigg.metabolite SSSOM | bigg.metabolite.sssom.tsv (391.1 KB) | Mapping | sssom | had primary source | bigg.metabolite SSSOM |
| spoke.graph | SPOKE Graph | data-tools | Graph | http | had primary source | The SPOKE knowledge graph containing ... |
| rtx-kg2.graph.nodes | RTX-KG2.10.1c KGX JSONL Nodes | kg2c-2.10.1-v1.0-nodes.jsonl.gz (359.1 MB) | Graph | kgx-jsonl | had primary source | Nodes for KGX distribution of the RTX... |
| rtx-kg2.graph.edges | RTX-KG2.10.1c KGX JSONL Edges | kg2c-2.10.1-v1.0-edges.jsonl.gz (1.7 GB) | Graph | kgx-jsonl | had primary source | Edges for KGX distribution of the RTX... |
| rtx-kg2.neo4j | RTX-KG2 Neo4j | arax.ncats.io | Programming Interface | http | had primary source | Neo4j distribution of the RTX-KG2 as ... |
| ttd.kegg-pathways ⚠ | Target KEGG Pathways | P4-01-Target_KEGG_pathway.txt | Product | txt | had primary source | KEGG pathway data for all targets |
| kinace.portal | KiNet Web Portal | kinet.kinametrix.com | Graphical Interface | http | was derived from | Interactive Shiny web interface for e... |
| ibkh.graph | iBKH Knowledge Graph | ❔ | Graph | mixed | had primary source | The integrative Biomedical Knowledge ... |
| rampdb.database | RaMP-DB Integrated Database | rampdb.nih.gov | Product | mysql | had primary source | Multi-sourced relational database int... |
| unibiomap.links | UniBioMap Graph Links | unibiomap.links.csv (1.3 GB) | Graph | csv | had primary source | Core UniBioMap graph edges file. |
| unibiomap.auxs | UniBioMap Graph Auxiliaries | unibiomap.auxs.tsv (563.9 MB) | Graph | tsv | had primary source | Auxiliary UniBioMap graph annotations... |
| unibiomap.pred | UniBioMap Predicted Graph | unibiomap.pred.csv (2.3 GB) | Graph | csv | had primary source | Predicted UniBioMap graph edges with ... |
| unibiomap.pred.full | UniBioMap Predicted Graph (Full) | unibiomap.pred.full.csv (5.9 GB) | Graph | csv | had primary source | Full unfiltered UniBioMap predicted g... |
| string.protein.links | STRING Protein Links | protein.links.v12.0.txt.gz (128.7 GB) | Graph | txt | had primary source | protein network data (full network, s... |
| string.protein.links.detailed | STRING Protein Links Detailed | protein.links.detailed.v12.0.txt.gz (189.6 GB) | Graph | txt | had primary source | protein network data (full network, i... |
| string.protein.links.full | STRING Protein Links Full | protein.links.full.v12.0.txt.gz (199.6 GB) | Graph | txt | had primary source | protein network data (full network, i... |
| string.protein.physical.links | STRING Protein Physical Links | protein.physical.links.v12.0.txt.gz (11.1 GB) | Graph | txt | had primary source | protein network data (physical subnet... |
| string.protein.physical.links.detailed | STRING Protein Physical Links Detailed | protein.physical.links.detailed.v12.0.txt.gz (13.8 GB) | Graph | txt | had primary source | protein network data (physical subnet... |
| string.protein.physical.links.full | STRING Protein Physical Links Full | protein.physical.links.full.v12.0.txt.gz (14.5 GB) | Graph | txt | had primary source | protein network data (physical subnet... |
| string.cog.links | STRING COG Links | COG.links.v12.0.txt.gz (176.8 MB) | Graph | txt | had primary source | association scores between orthologou... |
| string.cog.links.detailed | STRING COG Links Detailed | COG.links.detailed.v12.0.txt.gz (238.7 MB) | Graph | txt | had primary source | association scores (incl. subscores p... |
| string.database | STRING Database Network Schema | network_schema.v12.0.sql.gz (262.2 GB) | Graph | postgres | had primary source | full database, part II: the networks ... |
| obo-db-ingest.kegg.genome.tsv | kegg.genome Nodes TSV | kegg.genome.tsv (183.5 KB) | Product | tsv | had primary source | kegg.genome Nodes TSV |
| cfde-gse.graph | CFDE-GSE Knowledge Graph | ❔ | Graph | neo4j | had primary source | Neo4j knowledge graph containing inte... |
| cfde-gse.genesets | CFDE Gene Set Collections | downloads | Product | txt | had primary source | Standardized gene set collections fro... |
| enrichr-kg.graph | Enrichr-KG Neo4j Database | enrichr-kg-042123.dump (498.0 MB) | Graph | neo4j | had primary source | Neo4j graph database integrating Enri... |
| lncrnalyzr.graph | lncRNAlyzr Knowledge Graph | lncRNAlyzr | Graph | neo4j | had primary source | Neo4j knowledge graph containing lncR... |
| humannet.network | HumanNet Network File | HumanNet-XC.tsv.gz (11.7 MB) | Graph | tsv | was derived from | HumanNet-XC v3 functional gene networ... |
| humannet.network.symbol | HumanNet Network File (Gene Symbols) | HumanNet-XC.symbol.tsv.gz (13.3 MB) | Graph | tsv | was derived from | HumanNet-XC v3 functional gene networ... |
| msigdb.downloads.human ⚠ | MSigDB Human Gene Sets Downloads | downloads.jsp#msigdb | Product | mixed | used | Downloadable gene set files in GMT, X... |
| msigdb.downloads.mouse ⚠ | MSigDB Mouse Gene Sets Downloads | downloads.jsp#msigdb | Product | mixed | used | Downloadable gene set files for mouse... |
| openpredict.api | OpenPredict API | docs | Programming Interface | http | used | TRAPI 1.4 API for predicted drug trea... |
| openpredict.predictions ⚠ | OpenPredict Prediction Data | docs | Product | mixed | used | Pre-computed prediction outputs expos... |
| pathwaycommons.biopax | Integrated BioPAX Model | pc-biopax.owl.gz (1.6 GB) | Product | biopax | was derived from | PC v14 integrated BioPAX Level 3 unif... |
| harmonizome.downloads | Harmonizome Downloads | download | Product | mixed | was derived from | Harmonizome 3.0 processed dataset dow... |
| harmonizome.kg-neo4j | Harmonizome Knowledge Graph Neo4j Database | harmonizome-kg.maayanlab.cloud | Graph | neo4j | was derived from | Neo4j knowledge graph serialization o... |
| pathwaycommons.downloads | Pathway Commons Data Downloads | v14 | Product | mixed | was derived from | Download directory for Pathway Common... |
| pathwaycommons.sif | SIF Network Format | pc-hgnc.sif.gz (9.4 MB) | Product | sif | was derived from | PC v14 Simple Interaction Format netw... |
| pathwaycommons.gmt | GMT Gene Set Format | pc-hgnc.gmt.gz (256.4 KB) | Product | tsv | was derived from | PC v14 Gene Matrix Transposed gene se... |
| pathwaycommons.txt | Extended SIF TXT Format | pc-hgnc.txt.gz (110.3 MB) | Product | txt | was derived from | PC v14 tab-delimited extended SIF nod... |
| cardiokg.neo4j | CardioKG Neo4j graph construction scripts | zenodo.16025953 | Graph | neo4j | used | Neo4j construction artifacts for Card... |
| foodb.web | FooDB Web Interface | foodb.ca | Graphical Interface | http | was informed by | Web interface that allows searching, ... |
| foodb.data.csv | FooDB CSV Data | foodb_2020_4_7_csv.tar.gz (952.1 MB) | Product | csv | was informed by | Complete FooDB database in CSV format |
| foodb.data.xml | FooDB XML Data | foodb_2020_4_7_xml.tar.gz (6.3 GB) | Product | xml | was informed by | Complete FooDB database in XML format |
| foodb.data.json | FooDB JSON Data | foodb_2020_04_07_json.zip (86.6 MB) | Product | json | was informed by | Complete FooDB database in JSON format |
| foodb.data.mysql | FooDB MySQL Dump | foodb_2020_4_7_mysql.tar.gz (172.5 MB) | Product | mysql | was informed by | Complete FooDB database as MySQL dump |
| skm.pss.live.sbgn | PSS Live Download (SBGN-ML) | sbgn (3.1 MB) | Graph | sbgnml | had primary source | Current PSS model in Systems Biology ... |
| skm.pss.live.sbml | PSS Live Download (SBML) | sbml (535.7 KB) | Graph | sbml | had primary source | Current PSS model in Systems Biology ... |
| skm.pss.live.dot | PSS Download (DOT, v1.0.0) | graphviz (396.5 KB) | Graph | dot | had primary source | PSS model (v1.0.0, October 2023) in D... |
| skm.pss.live.sif.original.graph | PSS Live Download, original (SIF/LGL) | sif-edges (157.9 KB) | Graph | sif | had primary source | Current PSS model in Simple Interacti... |
| skm.pss.live.sif.original.annotations | PSS Live Download, original (SIF/LGL), node annotations | sif-nodes (392.5 KB) | Graph | sif | had primary source | Current PSS model in Simple Interacti... |
| skm.pss.live.sif.projection.graph | PSS Live Download, projection (SIF/LGL) | rxn-edges (247.7 KB) | Graph | sif | had primary source | Current PSS model in Simple Interacti... |
| skm.pss.live.sif.projection.annotations | PSS Live Download, projection (SIF/LGL), node annotations | rxn-nodes (159.8 KB) | Graph | sif | had primary source | Current PSS model in Simple Interacti... |
| skm.pss.live.sif.dinar.graph | PSS Live Download, DiNAR (SIF/LGL) | dinar-edges (353.3 KB) | Graph | sif | had primary source | Current PSS model in Simple Interacti... |
| skm.pss.live.boolnet.graph | PSS Live Downloads (BoolNet) | boolnet (52.0 KB) | Graph | boolnet | had primary source | Current PSS model in Boolean network ... |
| skm.pss.live.boolnet.annotations | PSS Live Downloads (BoolNet), node annotations | boolnet-annot (69.3 KB) | Graph | boolnet | had primary source | Current PSS model in Boolean network ... |
| skm.ckn.v2.graph | CKN v2 (June 2023) | edges (2.6 MB) | Graph | sif | had primary source | Comprehensive Knowledge Network v2 in... |
| skm.ckn.v2.annotations | CKN v2 (June 2023), node annotations | nodes (865.0 KB) | Graph | sif | had primary source | Comprehensive Knowledge Network v2 in... |
| skm.ckn.v1.graph | CKN v1 (June 2018) | edges (311.2 KB) | Graph | sif | had primary source | Comprehensive Knowledge Network v1 in... |
| skm.ckn.v1.annotations | CKN v1 (June 2018), node annotations | nodes (685.9 KB) | Graph | sif | had primary source | Comprehensive Knowledge Network v1 in... |
| unibiomap.pathway_desc ⚠ | UniBioMap Pathway Descriptions | pathway_desc.json | Graph | json | had primary source | UniBioMap pathway entity descriptions. |
| spoke-okn.graph | SPOKE-OKN Graph | spoke.ucsf.edu | Graph | ttl | was influenced by | The SPOKE-OKN knowledge graph, an OKN... |
| pubchem.substances.asn | PubChem Substances ASN | ASN | Product | xml | had primary source | PubChem substance information in ASN.... |
| pubchem.substances.sdf | PubChem Substances SDF | SDF | Product | sdf | had primary source | PubChem substance information in SDF ... |
| micromap.api | MicroMap API | docs | Programming Interface | http | was derived from | REST API and MCP server over the prod... |
| ctd.chem_pathways_enriched | CTD Chemical-Pathway Enriched Associations | CTD_chem_pathways_enriched.tsv.gz (39.5 MB) | Product | tsv | was derived from | KEGG and Reactome pathways statistica... |
| ctd.genes_pathways | CTD Gene-Pathway Associations | CTD_genes_pathways.tsv.gz (1.0 MB) | Product | tsv | was derived from | Gene-pathway associations linking NCB... |
| ctd.diseases_pathways | CTD Disease-Pathway Associations | CTD_diseases_pathways.tsv.gz (6.1 MB) | Product | tsv | was derived from | Disease-pathway associations inferred... |
| ctd.pathways | CTD Pathway Vocabulary | CTD_pathways.tsv.gz (41.6 KB) | Product | tsv | was derived from | CTD's pathway vocabulary, a list of p... |
KEGG is a comprehensive resource for understanding high-level functions and utilities of biological systems. It integrates genomic, chemical, and systemic functional information to provide a computational representation of biological systems and their relationships to genetic diseases and drugs.
Key components of KEGG include:
KEGG is widely used for pathway mapping, functional annotation, and systems biology research.
Created: March 17, 2025 | Last modified: September 23, 2026