is a Ontology.
It is part of these collections: OBO Foundry, BER
An ontology representation of the NCBI organismal taxonomy
| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| ncbitaxon.owl | Main release | ncbitaxon.owl (1.8 GB) | Ontology | owl | Main release |
| ncbitaxon.obo | OBO Format version of Main release | ncbitaxon.obo (624.2 MB) | Ontology | obo | OBO Format version of Main release |
| ncbitaxon.json | OBOGraphs JSON version of Main release | ncbitaxon.json | Ontology | json | OBOGraphs JSON version of Main release |
| ncbitaxon.subsets.taxslim.owl | taxslim | taxslim.owl (38.0 MB) | Ontology | owl | taxslim |
| ncbitaxon.subsets.taxslim-disjoint-over-in-taxon.owl | taxslim disjointness axioms | taxslim-disjoint-over-in-taxon.owl (71.9 MB) | Ontology | owl | taxslim disjointness axioms |
| ID | Name | URL | Category | Format | Relation | Description |
|---|---|---|---|---|---|---|
| kg-microbe.graph.raw | KG-Microbe KGX Graph - Raw | latest | Graph | kgx | had primary source | Raw source files for all KG-Microbe f... |
| kg-microbe.graph.core | KG-Microbe KGX Graph - Core | latest | Graph | kgx | had primary source | The core KG KG-Microbe-Core with onto... |
| kg-microbe.graph.biomedical | KG-Microbe KGX Graph - Biomedical | latest | Graph | kgx | had primary source | Core plus human biomedical data (onto... |
| kg-microbe.graph.function | KG-Microbe KGX Graph - Function | latest | Graph | kgx | had primary source | Core plus Uniprot genome annotations |
| kg-microbe.graph.biomedical-function | KG-Microbe KGX Graph - Biomedical-Function | KGMicrobe-biomedical-function-20250222.tar.gz (4.3 GB) | Graph | kgx | had primary source | Biomedical plus Uniprot genome annota... |
| spoke.graph | SPOKE Graph | data-tools | Graph | http | had primary source | The SPOKE knowledge graph containing ... |
| mechreponet.kg | MechRepoNet Knowledge Graph | publication | Product | mixed | had primary source | The MechRepoNet knowledge graph in it... |
| microbiomekg.api | MicrobiomeKG Plover TRAPI API | mbkp | Programming Interface | http | had primary source | Plover-hosted TRAPI web API for query... |
| 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 ... |
| chr.model.owl | Monochrom Ontology OWL release | chr.owl (100.0 KB) | Ontology | owl | had primary source | OWL release of Monochrom Ontology |
| efo.owl | EFO OWL | efo.owl (229.5 MB) | Ontology | owl | had primary source | The latest release of EFO in OWL format |
| efo.obo | EFO OBO | efo.obo (61.1 MB) | Ontology | obo | had primary source | The latest release of EFO in OBO format |
| drugmechdb.graph | DrugMechDB Graph Dataset | zenodo.8139357 | Graph | mixed | had primary source | Curated mechanistic drug–disease path... |
| orkg.dump | ORKG RDF Dump | rdf-export-orkg.nt (613.1 MB) | Graph | ntriples | had primary source | RDF dump of the Open Research Knowled... |
| entrez.eutils | Entrez E-utilities | NBK25501 | Programming Interface | json | was informed by | E-utilities API for programmatic acce... |
| mediadive.portal | MediaDive Web Portal | mediadive.dsmz.de | Graphical Interface | http | used | MediaDive web portal for browsing, se... |
| mediadive.rest_api | MediaDive REST API | index.html | Programming Interface | http | used | MediaDive REST API documentation for ... |
| mediadive.sparql | MediaDive SPARQL Endpoint | mediadive | Programming Interface | http | used | MediaDive SPARQL endpoint for queryin... |
| metabokg.graph ⚠ | MetaboKG RDF Graph | MetaBoKG | Graph | mixed | used | RDF knowledge graph materialized by t... |
| metabokg.schema | MetaBoKG RDF Schema | Schema | Data Model | ttl | was informed by | Turtle schema files defining MetaBoKG... |
| 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 |
| biobtree.api | BioBTree REST API | api | Programming Interface | http | had primary source | REST API for searching identifiers an... |
| biobtree.graph.human-subgraph | BioBTree Knowledge Graph - Human Subgraph (KGX) | 20816742 | Graph | kgx | had primary source | Human-scoped, Neo4j-ready subgraph of... |
| eco-kg.graph | eco-KG Graph | eco-kg | Graph | kgx | had primary source | Knowledge graph containing plant trai... |
| np-kg.graph.tsv | NP-KG TSV | NP-KG_v3.0.0.tsv?download=1 (1.0 GB) | Graph | tsv | had primary source | Merged KG with ontology-grounded KG a... |
| np-kg.graph.networkx | NP-KG gpickle | NP-KG_v3.0.0.gpickle?download=1 (892.7 MB) | Graph | mixed | had primary source | Merged KG with ontology-grounded KG a... |
| sri-reference-kg.graph | SRI-Reference KG (KGX distribution) | monarch-kg.tar.gz (219.4 MB) | Graph | kgx | had primary source | KGX distribution of the SRI-Reference KG |
| spoke-okn.graph | SPOKE-OKN Graph | spoke.ucsf.edu | Graph | ttl | was influenced by | The SPOKE-OKN knowledge graph, an OKN... |
| micromap.api | MicroMap API | docs | Programming Interface | http | was derived from | REST API and MCP server over the prod... |
| ctd.chem_gene_ixns | CTD Chemical-Gene Interactions | CTD_chem_gene_ixns.tsv.gz (41.1 MB) | Product | tsv | was derived from | Curated chemical-gene and chemical-pr... |
| babel.compendia | Babel Compendia | compendia | Product | json | had primary source | Babel compendia, one file per Biolink... |
| agro.owl | AgrO | agro.owl (452.7 KB) | Ontology | owl | had primary source | Contains all AgrO terms and links to ... |
| chiro.owl | chiro.owl | chiro.owl (6.9 KB) | Ontology | owl | had primary source | CHEBI Integrated Role Ontology in OWL... |
| chiro.obo | chiro.obo | chiro.obo (3.3 KB) | Ontology | obo | had primary source | CHEBI Integrated Role Ontology in OBO... |
| cl.owl | Main CL OWL edition | cl.owl (62.8 MB) | Ontology | owl | had primary source | Complete ontology, plus inter-ontolog... |
| cl.obo | CL obo format edition | cl.obo (16.5 MB) | Ontology | obo | had primary source | Complete ontology, plus inter-ontolog... |
| cl.json | CL OBOGraph-JSON format edition | cl.json (38.0 MB) | Ontology | json | had primary source | Complete ontology, plus inter-ontolog... |
| cl.cl-basic.owl | Basic CL | cl-basic.owl (9.1 MB) | Ontology | owl | had primary source | Basic version, no inter-ontology axioms |
| cl.cl-basic.obo | Basic CL (OBO version) | cl-basic.obo (3.2 MB) | Ontology | obo | had primary source | Basic version, no inter-ontology axioms |
| cl.cl-basic.json | Basic CL (OBOGraph-JSON version) | cl-basic.json (5.8 MB) | Ontology | json | had primary source | Basic version, no inter-ontology axioms |
| clo.owl | clo.owl | clo.owl (2.0 MB) | Ontology | owl | had primary source | Cell Line Ontology in OWL format |
| ecto.owl | ecto.owl | ecto.owl (2.2 MB) | Ontology | owl | had primary source | Environmental conditions, treatments ... |
| ecto.obo | ecto.obo | ecto.obo (1.4 MB) | Ontology | obo | had primary source | Environmental conditions, treatments ... |
| ecto.json | ecto.json | ecto.json (1.6 MB) | Ontology | json | had primary source | Environmental conditions, treatments ... |
| envo.owl | main ENVO OWL release | envo.owl (800.7 KB) | Ontology | owl | had primary source | main ENVO OWL release |
| envo.json | ENVO in obographs JSON format | envo.json (638.3 KB) | Ontology | json | had primary source | ENVO in obographs JSON format |
| envo.obo | ENVO in OBO Format. May be lossy | envo.obo (581.3 KB) | Ontology | obo | had primary source | ENVO in OBO Format. May be lossy |
| envo.subsets.envo-basic.obo | OBO-Basic edition of ENVO | envo-basic.obo (412.6 KB) | Ontology | obo | had primary source | OBO-Basic edition of ENVO |
| envo.subsets.envoEmpo.owl | Earth Microbiome Project subset | envoEmpo.owl (18.6 KB) | Ontology | owl | had primary source | Earth Microbiome Project subset |
| envo.subsets.EnvO-Lite-GSC.obo | GSC Lite subset of ENVO | EnvO-Lite-GSC.obo (12.6 KB) | Ontology | obo | had primary source | GSC Lite subset of ENVO |
| foodon.owl | FoodOn ontology with import file references and over 9,000 food products | foodon.owl (2.7 MB) | Ontology | owl | had primary source | FoodOn ontology with import file refe... |
| gallont.owl | gallont.owl | gallont.owl (89.4 KB) | Ontology | owl | had primary source | Plant Gall Ontology in OWL format |
| gallont.obo | gallont.obo | gallont.obo (59.2 KB) | Ontology | obo | had primary source | Plant Gall Ontology in OBO format |
| genepio.owl | genepio.owl | genepio.owl (715.7 KB) | Ontology | owl | had primary source | Genomic Epidemiology Ontology in OWL ... |
| go.owl | GO (OWL edition) | go.owl (123.7 MB) | Ontology | owl | had primary source | The main ontology in OWL. This is sel... |
| go.obo | GO (OBO Format edition) | go.obo (34.9 MB) | Ontology | obo | had primary source | Equivalent to go.owl, in obo format |
| go.json | GO (JSON edition) | go.json | Ontology | json | had primary source | Equivalent to go.owl, in obograph jso... |
| go.extensions.go-plus.owl | GO-Plus | go-plus.owl (225.5 MB) | Ontology | owl | had primary source | The main ontology plus axioms connect... |
| go.extensions.go-plus.json | GO-Plus | go-plus.json | Ontology | json | had primary source | As go-plus.owl, in obographs json format |
| go.go-basic.obo | GO-Basic, Filtered, for use with legacy tools | go-basic.obo (30.6 MB) | Ontology | obo | had primary source | Basic version of the GO, filtered suc... |
| go.go-basic.json | GO-Basic, Filtered, for use with legacy tools (JSON) | go-basic.json | Ontology | json | had primary source | As go-basic.obo, in json format |
| go.snapshot.go.owl | GO (OWL edition), daily snapshot release | go.owl (123.9 MB) | Ontology | owl | had primary source | Equivalent to go.owl, but released da... |
| go.snapshot.go.obo | GO (OBO Format edition), daily snapshot release | go.obo (35.0 MB) | Ontology | obo | had primary source | Equivalent to go.owl, but released da... |
| go.extensions.go-taxon-groupings.owl | GO Taxon Groupings | go-taxon-groupings.owl | Ontology | owl | had primary source | Classes added to ncbitaxon for groupi... |
| hso.owl | hso.owl | hso.owl (135.0 KB) | Ontology | owl | had primary source | Health Surveillance Ontology in OWL f... |
| mco.owl | mco.owl | mco.owl (754.0 KB) | Ontology | owl | had primary source | Microbial Conditions Ontology in OWL ... |
| mco.obo | mco.obo | mco.obo (400.2 KB) | Ontology | obo | had primary source | Microbial Conditions Ontology in OBO ... |
| ons.owl | ONS latest release | ons.owl (210.5 KB) | Ontology | owl | had primary source | ONS latest release |
| pcl.owl | pcl.owl | pcl.owl (159.8 MB) | Ontology | owl | had primary source | Provisional Cell Ontology in OWL format |
| pcl.obo | pcl.obo | pcl.obo (38.0 MB) | Ontology | obo | had primary source | Provisional Cell Ontology in OBO format |
| pco.owl | pco.owl | pco.owl (60.8 KB) | Ontology | owl | had primary source | Population and Community Ontology in ... |
| uberon.owl | Uberon | uberon.owl (94.0 MB) | Ontology | owl | had primary source | core ontology |
| uberon.uberon-basic.obo | Uberon basic | uberon-basic.obo (11.6 MB) | Ontology | obo | had primary source | Uberon edition that excludes external... |
| uberon.collected-metazoan.owl | Uberon collected metazoan ontology | collected-metazoan.owl (271.7 MB) | Ontology | owl | had primary source | Uberon plus all metazoan ontologies |
| uberon.composite-metazoan.owl | Uberon composite metazoan ontology | composite-metazoan.owl (247.8 MB) | Ontology | owl | had primary source | Uberon and all metazoan ontologies wi... |
| uberon.composite-vertebrate.owl | Uberon composite vertebrate ontology | composite-vertebrate.owl (121.0 MB) | Ontology | owl | had primary source | Uberon composite vertebrate ontology |
| vbo.owl | vbo.owl | vbo.owl (2.0 MB) | Ontology | owl | had primary source | Vertebrate Breed Ontology in OWL format |
| vbo.obo | vbo.obo | vbo.obo (967.4 KB) | Ontology | obo | had primary source | Vertebrate Breed Ontology in OBO format |
| vbo.json | vbo.json | vbo.json (1.1 MB) | Ontology | json | had primary source | Vertebrate Breed Ontology in JSON format |
| tagger.dictionary | Tagger Dictionary | tagger_dictionary.tar.gz (370.7 MB) | Product | tsv | was derived from | Reduced tagger dictionary used by the... |
| tagger.full-dictionary | Tagger Full Dictionary | full_dictionary.tar.gz (3.5 GB) | Product | tsv | was derived from | Combined full dictionary (entities an... |
An ontology representation of the NCBI organismal taxonomy
Main release
URL: http://purl.obolibrary.org/obo/ncbitaxon.owl
Format: owl
OBO Format version of Main release
URL: http://purl.obolibrary.org/obo/ncbitaxon.obo
Format: obo
OBOGraphs JSON version of Main release
URL: http://purl.obolibrary.org/obo/ncbitaxon.json
Format: json
taxslim
URL: http://purl.obolibrary.org/obo/ncbitaxon/subsets/taxslim.owl
Format: owl
taxslim disjointness axioms
URL: http://purl.obolibrary.org/obo/ncbitaxon/subsets/taxslim-disjoint-over-in-taxon.owl
Format: owl
Domains: biological systems
This resource was automatically synchronized from the OBO Foundry registry.
Created: May 28, 2025 | Last modified: September 23, 2026