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

Last updated Mon Jul 13 00:00:18 2015