The OBO Foundry is a collaborative experiment involving developers of science-based ontologies who are establishing a set of principles for ontology development with the goal of creating a suite of orthogonal interoperable reference ontologies in the biomedical domain. The groups developing ontologies who have expressed an interest in this goal are listed below, followed by other relevant efforts in this domain.

In addition to a listing of OBO ontologies, this site also provides a statement of the OBO Foundry principles, discussion fora, technical infrastructure, and other services to facilitate ontology development. We welcome feedback and encourage participation.

Click any column header to sort the table by that column. The paw prints link to the term request trackers for the listed ontologies.

OBO Foundry ontologies
Title Domain Prefix File Last changed
Molecular function biological function GO go.obo   [Tracker]
Plant Ontology anatomy and development PO plant_ontology.obo?view=co   [Tracker]
Ontology for biomedical investigations experiments OBI obi.owl   [Tracker]
Cellular component anatomy GO go.obo   [Tracker]
PRotein Ontology (PRO) proteins PR pro.obo   [Tracker]
Biological process biological process GO go.obo   [Tracker]
Phenotypic quality phenotype PATO pato.obo   [Tracker]
Chemical entities of biological interest biochemistry CHEBI chebi.obo   [Tracker]
Xenopus anatomy and development anatomy XAO xenopus_anatomy.obo   [Tracker]
Zebrafish anatomy and development anatomy ZFA zfa.obo   [Tracker]
OBO Foundry candidate ontologies and other ontologies of interest
Title Domain Prefix File Last changed
Mass spectrometry experiments MS psi-ms.obo
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 ehdaa2.obo
eagle-i resource ontology resources ERO ero.owl   [Tracker]
Sequence types and features biological sequence SO so-xp.obo?format=raw   [Tracker]
Systems Biology biochemistry SBO SBO_OBO.obo   [Tracker]
Physico-chemical methods and properties FIX fix.obo
The Drug-drug Interaction Ontology DINTO dinto.owl   [Tracker]
Mouse gross anatomy and development, abstract anatomy EMAPA EMAPA.obo
Vertebrate Skeletal Anatomy Ontology anatomy VSAO vsao.obo   [Tracker]
Ontology for Biobanking health OBIB obib.owl   [Tracker]
Infectious disease health IDO ido.owl   [Tracker]
Ontology for Parasite LifeCycle OPL opl.owl   [Tracker]
Mosquito gross anatomy anatomy TGMA tgma.obo
Physico-chemical process REX rex.obo
Evidence codes experiments ECO eco.obo
Ontology for General Medical Science medicine OGMS ogms.owl   [Tracker]
Lipid Ontology lipids LiPrO LipidOntology
Plant Environmental Conditions environment EO environment_ontology.obo
Pathway ontology biological process PW pathway.obo
Drosophila Phenotype Ontology FBcv dpo.owl
Protein-protein interaction experiments MI psi-mi25.obo
Platynereis stage ontology anatomy PD_ST Pdu_Stages.obo
Emotion Ontology health MFOEM mfoem.owl   [Tracker]
Ontology of Adverse Events adverse events, health OAE oae.owl
Uber anatomy ontology anatomy UBERON ext.owl   [Tracker]
NCI Thesaurus health ncithesaurus EVS/
Epidemiology Ontology EPO epo.owl
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
Beta Cell Genomics Ontology experiments BCGO bcgo.owl   [Tracker]
The Drug Ontology health DRON dron.owl   [Tracker]
Protein modification proteins MOD PSI-MOD.obo
C. elegans phenotype phenotype WBPhenotype wbphenotype.obo
Mental Disease Ontology health MFOMD mfomd.owl   [Tracker]
Mammalian phenotype phenotype MP MPheno_OBO.ontology   [Tracker]
Mathematical modeling ontology MAMO mamo-xml.owl   [Tracker]
Mental Functioning Ontology MF mf.owl   [Tracker]
Drosophila gross anatomy anatomy FBbt fbbt.obo   [Tracker]
Ontology of Biological and Clinical Statistics statistics OBCS obcs.owl   [Tracker]
homology_ontology HOM hom.obo
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
Microarray experimental conditions experiments MO MGEDOntology.owl
Chemical Methods Ontology health CHMO chmo.owl   [Tracker]
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
Cell type anatomy CL cl.owl   [Tracker]
STATistics Ontology statistics STATO stato.owl   [Tracker]
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
Information Artifact Ontology information IAO iao.owl   [Tracker]
human phenotype ontology phenotype HP human-phenotype-ontology.obo   [Tracker]
Biological Spatial Ontology anatomy BSPO bspo.obo   [Tracker]
Porifera Ontology anatomy PORO poro.owl   [Tracker]
Protein covalent bond proteins RESID RESIDUES.XML
Ontology for MIRNA Target Prediction OMIT OMIT.owl
Basic Formal Ontology upper BFO 1.1
Ontology for genetic interval OGI ogi.owl   [Tracker]
Influenza Ontology health FLU flu.owl   [Tracker]
Neuro Behavior Ontology behavior NBO behavior.owl   [Tracker]
Variation Ontology VariO vario.obo
Informed Consent Ontology health ICO ico.owl   [Tracker]
Cell Line Ontology CLO clo.owl
Mouse gross anatomy and development, timed anatomy EMAP EMAP_combined.obo
Population and Community Ontology PCO pco.owl   [Tracker]
Fission Yeast Phenotype Ontology phenotype FYPO fypo.obo?format=raw   [Tracker]
Symptom Ontology health SYMP gemina_symptom.obo
Taxonomic rank vocabulary taxonomy TAXRANK taxrank.obo
Biological Collections Ontology BCO bco.owl   [Tracker]
Environment Ontology environment ENVO envo-basic.obo   [Tracker]
Vaccine ontology health VO vo   [Tracker]
Chemical Information Ontology biochemistry CHEMINF cheminf.owl
The Ontology of Genes and Genomes OGG ogg.owl   [Tracker]
Human disease ontology health DOID doid.obo   [Tracker]
Molecular Process Ontology MOP mop.obo   [Tracker]
Adverse Event Reporting Ontology health AERO aero.owl
Ontology of Genetic Susceptibility Factor OGSF ogsf.owl   [Tracker]
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
Foundational Model of Anatomy (subset) anatomy FMA fma.obo   [Tracker]
Mouse pathology health MPATH mpath.obo
C. elegans development anatomy WBls worm_development.obo
Dictyostelium discoideum phenotype anatomy DDPHENO dicty_phenotypes.obo
NIF Cell neuroscience NIF_Cell NIF-Cell.owl
Name Reaction Ontology RXNO rxno.obo   [Tracker]
Mouse adult gross anatomy anatomy MA ma.obo   [Tracker]
Vertebrate Taxonomy Ontology VTO vto.owl   [Tracker]
Units of measurement phenotype UO unit.obo
Malaria Ontology health IDOMAL idomal.obo
NIF Dysfunction neuroscience NIF_Dysfunction NIF-Dysfunction.owl
Mosquito insecticide resistance environment MIRO miro.obo
Sample processing and separation techniques provenance SEP sep.obo
Ontology of Biological Attributes phenotype OBA oba.owl
Ctenophore Ontology anatomy CTENO cteno.owl
Tick gross anatomy anatomy TADS tads.obo
C. elegans gross anatomy anatomy WBbt wbbt.obo   [Tracker]
verteberate Homologous Organ Groups anatomy vHOG vHOG.obo
Geographical Entity Ontology GEO geo.owl   [Tracker]
Exposure ontology health ExO CTD_exposure_ontology.obo
Plant Trait Ontology phenotype TO trait.obo?view=co   [Tracker]
Zebrafish developmental stages anatomy ZFS zfs.obo
Kinetic Simulation Algorithm Ontology algorithms KISAO KISAO   [Tracker]
Comparative Data Analysis Ontology CDAO cdao.owl
microRNA Ontology miRNAO mirnao.owl
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
RNA ontology molecular structure RNAO rnao.obo
Software ontology SWO swo_merged.owl
Relation ontology all RO ro.owl
Ontology of Vaccine Adverse Events OVAE ovae.owl   [Tracker]
MIAPA Ontology MIAPA miapa.owl   [Tracker]
CranioMaxilloFacial ontology health CMF cmf.owl   [Tracker]
Ontology of Medically Related Social Entities medicine OMRSE omrse.owl
Pathogen transmission health TRANS transmission_process.obo   [Tracker]
Uber anatomy ontology, basic version anatomy uberon-basic basic.obo
Medaka fish anatomy and development anatomy MFO medaka_ontology.obo 2005/11/08
Fly taxonomy taxonomy FBsp fly_taxonomy.obo   [Tracker] 2007/04/10
OBO relationship types (legacy) all OBO_REL ro.obo   [Tracker] 2010/06/07
Drosophila development anatomy FBdv fly_development.obo   [Tracker] 2010/07/01
Common Anatomy Reference Ontology anatomy CARO caro.obo   [Tracker] 2011/12/14
Anatomical Entity Ontology anatomy AEO aeo.obo 2012/06/01
Teleost taxonomy taxonomy TTO teleost_taxonomy.obo   [Tracker] 2012/07/19
Dictyostelium discoideum anatomy anatomy DDANAT dicty_anatomy.obo   [Tracker] 2013/01/19
Biological imaging methods experiments FBbi image.obo 2013/11/05
Spider Ontology anatomy SPD spider_comparative_biology.obo   [Tracker] 2014/01/09
Fungal gross anatomy anatomy FAO fungal_anatomy.obo 2014/02/07
Ascomycete phenotype ontology phenotype APO ascomycete_phenotype.obo 2014/06/30
Mappings between, logical definitions for, bridging, and relations for combining, ontologies
Title Domain Prefix File Last changed
Gazetteer GAZ gaz.owl   [Tracker]

Last updated Wed Mar 25 00:00:15 2015