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
Cellular component anatomy GO go.obo   [Tracker]
Zebrafish anatomy and development anatomy ZFA zfa.obo   [Tracker]
Xenopus anatomy and development anatomy XAO xenopus_anatomy.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 quality.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
Vertebrate Taxonomy Ontology VTO vto.owl   [Tracker]
Molecular Process Ontology MOP mop.obo   [Tracker]
Ontology of Vaccine Adverse Events OVAE ovae.owl   [Tracker]
Comparative Data Analysis Ontology CDAO cdao.owl
Variation Ontology VariO vario.obo
Physico-chemical methods and properties FIX fix.obo
Ontology for MIRNA Target Prediction OMIT OMIT.owl
Biological Collections Ontology BCO bco.owl   [Tracker]
Ontology of Genetic Susceptibility Factor OGSF ogsf.owl   [Tracker]
Population and Community Ontology PCO pco.owl   [Tracker]
Ontology for genetic interval OGI ogi.owl   [Tracker]
homology_ontology HOM hom.obo
The Drug-drug Interaction Ontology DINTO dinto.owl   [Tracker]
Mathematical modeling ontology MAMO mamo-xml.owl   [Tracker]
MIAPA Ontology MIAPA miapa.owl   [Tracker]
Physico-chemical process REX rex.obo
Geographical Entity Ontology GEO geo.owl   [Tracker]
The Ontology of Genes and Genomes OGG ogg.owl   [Tracker]
Software ontology SWO swo_merged.owl
Cell Line Ontology CLO clo.owl
Mental Functioning Ontology MF mf.owl   [Tracker]
Ontology for Parasite LifeCycle OPL opl.owl   [Tracker]
Name Reaction Ontology RXNO rxno.obo   [Tracker]
microRNA Ontology miRNAO mirnao.owl
Drosophila Phenotype Ontology FBcv dpo.owl
Epidemiology Ontology EPO epo.owl
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
C. elegans gross anatomy anatomy WBbt wbbt.obo   [Tracker]
Anatomical Entity Ontology anatomy AEO aeo.obo 2012/06/01
Medaka fish anatomy and development anatomy MFO medaka_ontology.obo 2005/11/08
Biological Spatial Ontology anatomy BSPO bspo.obo   [Tracker]
Mouse gross anatomy and development, abstract anatomy EMAPA EMAPA.obo
Foundational Model of Anatomy (subset) anatomy FMA fma.obo   [Tracker]
Platynereis stage ontology anatomy PD_ST Pdu_Stages.obo
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 ehdaa2.obo
Spider Ontology anatomy SPD spider_comparative_biology.obo   [Tracker] 2014/01/09
Dictyostelium discoideum anatomy anatomy DDANAT dicty_anatomy.obo   [Tracker] 2013/01/19
Uber anatomy ontology anatomy UBERON ext.owl   [Tracker]
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
Tick gross anatomy anatomy TADS tads.obo
Porifera Ontology anatomy PORO poro.owl   [Tracker]
Dictyostelium discoideum phenotype anatomy DDPHENO dicty_phenotypes.obo
Common Anatomy Reference Ontology anatomy CARO caro.obo   [Tracker] 2011/12/14
Drosophila development anatomy FBdv fly_development.obo   [Tracker] 2010/07/01
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
Uber anatomy ontology, basic version anatomy uberon-basic basic.obo
Mosquito gross anatomy anatomy TGMA tgma.obo
verteberate Homologous Organ Groups anatomy vHOG vHOG.obo
C. elegans development anatomy WBls worm_development.obo
Vertebrate Skeletal Anatomy Ontology anatomy VSAO vsao.obo   [Tracker]
Mouse adult gross anatomy anatomy MA ma.obo   [Tracker]
Drosophila gross anatomy anatomy FBbt fbbt.obo   [Tracker]
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
Cell type anatomy CL cl.owl   [Tracker]
Zebrafish developmental stages anatomy ZFS zfs.obo
Fungal gross anatomy anatomy FAO fungal_anatomy.obo 2014/02/07
Mouse gross anatomy and development, timed anatomy EMAP EMAP_combined.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]
Microarray experimental conditions experiments MO MGEDOntology.owl
Mass spectrometry experiments MS psi-ms.obo
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
Biological imaging methods experiments FBbi image.obo 2013/11/05
Beta Cell Genomics Ontology experiments BCGO bcgo.owl   [Tracker]
Evidence codes experiments ECO eco.obo
Protein-protein interaction experiments MI psi-mi25.obo
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
Symptom Ontology health SYMP gemina_symptom.obo
Influenza Ontology health FLU flu.owl   [Tracker]
Emotion Ontology health MFOEM mfoem.owl   [Tracker]
Vaccine ontology health VO vo   [Tracker]
Chemical Methods Ontology health CHMO chmo.owl   [Tracker]
Mouse pathology health MPATH mpath.obo
Malaria Ontology health IDOMAL idomal.obo
Informed Consent Ontology health ICO ico.owl   [Tracker]
Mental Disease Ontology health MFOMD mfomd.owl   [Tracker]
CranioMaxilloFacial ontology health CMF cmf.owl   [Tracker]
Human disease ontology health DOID doid.obo   [Tracker]
NCI Thesaurus health ncithesaurus EVS/
Pathogen transmission health TRANS transmission_process.obo   [Tracker]
Ontology for Biobanking health OBIB obib.owl   [Tracker]
The Drug Ontology health DRON dron.owl   [Tracker]
Adverse Event Reporting Ontology health AERO aero.owl
Infectious disease health IDO ido.owl   [Tracker]
Exposure ontology health ExO CTD_exposure_ontology.obo
Information Artifact Ontology information IAO iao.owl   [Tracker]
Lipid Ontology lipids LiPrO LipidOntology
Ontology for General Medical Science medicine OGMS ogms.owl   [Tracker]
Ontology of Medically Related Social Entities medicine OMRSE omrse.owl
RNA ontology molecular structure RNAO rnao.obo
NIF Cell neuroscience NIF_Cell NIF-Cell.owl
NIF Dysfunction neuroscience NIF_Dysfunction NIF-Dysfunction.owl
Ascomycete phenotype ontology phenotype APO ascomycete_phenotype.obo 2014/06/30
Plant Trait Ontology phenotype TO trait.obo?view=co   [Tracker]
Ontology of Biological Attributes phenotype OBA oba.owl
Fission Yeast Phenotype Ontology phenotype FYPO fypo.obo?format=raw   [Tracker]
Mammalian phenotype phenotype MP MPheno_OBO.ontology   [Tracker]
human phenotype ontology phenotype HP human-phenotype-ontology.obo   [Tracker]
Units of measurement phenotype UO unit.obo
C. elegans phenotype phenotype WBPhenotype wbphenotype.obo
Protein covalent bond proteins RESID RESIDUES.XML
Protein modification proteins MOD PSI-MOD.obo
Sample processing and separation techniques provenance SEP sep.obo
eagle-i resource ontology resources ERO ero.owl   [Tracker]
STATistics Ontology statistics STATO stato.owl   [Tracker]
Ontology of Biological and Clinical Statistics statistics OBCS obcs.owl   [Tracker]
Fly taxonomy taxonomy FBsp fly_taxonomy.obo   [Tracker] 2007/04/10
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
Teleost taxonomy taxonomy TTO teleost_taxonomy.obo   [Tracker] 2012/07/19
Taxonomic rank vocabulary taxonomy TAXRANK taxrank.obo
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 Fri Feb 20 00:00:33 2015