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
Software ontology SWO swo_merged.owl
Biological Collections Ontology BCO bco.owl   [Tracker]
Population and Community Ontology PCO pco.owl   [Tracker]
microRNA Ontology miRNAO mirnao.owl
Cell Line Ontology CLO clo.owl
Geographical Entity Ontology GEO geo.owl   [Tracker]
Ontology for Parasite LifeCycle OPL opl.owl   [Tracker]
The Drug-drug Interaction Ontology DINTO dinto.owl   [Tracker]
homology_ontology HOM hom.obo
Variation Ontology VariO vario.obo
Comparative Data Analysis Ontology CDAO cdao.owl
The Ontology of Genes and Genomes OGG ogg.owl   [Tracker]
Ontology of Vaccine Adverse Events OVAE ovae.owl   [Tracker]
Ontology for MIRNA Target Prediction OMIT OMIT.owl
Ontology for genetic interval OGI ogi.owl   [Tracker]
Vertebrate Taxonomy Ontology VTO vto.owl   [Tracker]
Molecular Process Ontology MOP mop.obo   [Tracker]
Mathematical modeling ontology MAMO mamo-xml.owl   [Tracker]
Name Reaction Ontology RXNO rxno.obo   [Tracker]
Physico-chemical methods and properties FIX fix.obo
Drosophila Phenotype Ontology FBcv dpo.owl
Ontology of Genetic Susceptibility Factor OGSF ogsf.owl   [Tracker]
Physico-chemical process REX rex.obo
Mental Functioning Ontology MF mf.owl   [Tracker]
MIAPA Ontology MIAPA miapa.owl   [Tracker]
Epidemiology Ontology EPO epo.owl
Ontology of Adverse Events adverse events, health OAE oae.owl
Kinetic Simulation Algorithm Ontology algorithms KISAO KISAO   [Tracker]
Relation ontology all RO ro.owl
OBO relationship types (legacy) all OBO_REL ro.obo   [Tracker] 2010/06/07
Mouse adult gross anatomy anatomy MA ma.obo   [Tracker]
Anatomical Entity Ontology anatomy AEO aeo.obo 2012/06/01
Dictyostelium discoideum anatomy anatomy DDANAT dicty_anatomy.obo   [Tracker] 2013/01/19
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
Ctenophore Ontology anatomy CTENO cteno.owl
C. elegans gross anatomy anatomy WBbt wbbt.obo   [Tracker]
Cell type anatomy CL cl.owl   [Tracker]
Foundational Model of Anatomy (subset) anatomy FMA fma.obo   [Tracker]
Uber anatomy ontology, basic version anatomy uberon-basic basic.obo
Platynereis stage ontology anatomy PD_ST Pdu_Stages.obo
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
Biological Spatial Ontology anatomy BSPO bspo.obo   [Tracker]
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
Common Anatomy Reference Ontology anatomy CARO caro.obo   [Tracker] 2011/12/14
Vertebrate Skeletal Anatomy Ontology anatomy VSAO vsao.obo   [Tracker]
Zebrafish developmental stages anatomy ZFS zfs.obo
Mouse gross anatomy and development, abstract anatomy EMAPA EMAPA.obo
Spider Ontology anatomy SPD spider_comparative_biology.obo   [Tracker] 2014/01/09
Uber anatomy ontology anatomy UBERON ext.owl   [Tracker]
Drosophila gross anatomy anatomy FBbt fbbt.obo   [Tracker]
C. elegans development anatomy WBls worm_development.obo
Tick gross anatomy anatomy TADS tads.obo
verteberate Homologous Organ Groups anatomy vHOG vHOG.obo
Mosquito gross anatomy anatomy TGMA tgma.obo
Dictyostelium discoideum phenotype anatomy DDPHENO dicty_phenotypes.obo
Medaka fish anatomy and development anatomy MFO medaka_ontology.obo 2005/11/08
Mouse gross anatomy and development, timed anatomy EMAP EMAP_combined.obo
Porifera Ontology anatomy PORO poro.owl   [Tracker]
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 ehdaa2.obo
Fungal gross anatomy anatomy FAO fungal_anatomy.obo 2014/02/07
Drosophila development anatomy FBdv fly_development.obo   [Tracker] 2010/07/01
Neuro Behavior Ontology behavior NBO behavior.owl   [Tracker]
Chemical Information Ontology biochemistry CHEMINF cheminf.owl
Systems Biology biochemistry SBO SBO_OBO.obo   [Tracker]
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
Environment Ontology environment ENVO envo-basic.obo   [Tracker]
Mosquito insecticide resistance environment MIRO miro.obo
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
Evidence codes experiments ECO eco.obo
Mass spectrometry experiments MS psi-ms.obo
Beta Cell Genomics Ontology experiments BCGO bcgo.owl   [Tracker]
Biological imaging methods experiments FBbi image.obo 2013/11/05
Protein-protein interaction experiments MI psi-mi25.obo
Microarray experimental conditions experiments MO MGEDOntology.owl
Malaria Ontology health IDOMAL idomal.obo
Informed Consent Ontology health ICO ico.owl   [Tracker]
Influenza Ontology health FLU flu.owl   [Tracker]
Exposure ontology health ExO CTD_exposure_ontology.obo
Ontology for Biobanking health OBIB obib.owl   [Tracker]
Mental Disease Ontology health MFOMD mfomd.owl   [Tracker]
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
The Drug Ontology health DRON dron.owl   [Tracker]
IRIDA ontology health IRIDA IRIDA-full.owl   [Tracker]
Pathogen transmission health TRANS transmission_process.obo   [Tracker]
NCI Thesaurus health ncithesaurus EVS/
Symptom Ontology health SYMP gemina_symptom.obo
Human disease ontology health DOID doid.obo   [Tracker]
Chemical Methods Ontology health CHMO chmo.owl   [Tracker]
Mouse pathology health MPATH mpath.obo
Adverse Event Reporting Ontology health AERO aero.owl
Emotion Ontology health MFOEM mfoem.owl   [Tracker]
CranioMaxilloFacial ontology health CMF cmf.owl   [Tracker]
Vaccine ontology health VO vo   [Tracker]
Infectious disease health IDO ido.owl   [Tracker]
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
Ontology of Biological Attributes phenotype OBA oba.owl
Units of measurement phenotype UO unit.obo
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
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]
STATistics Ontology statistics STATO stato.owl   [Tracker]
Ontology of Biological and Clinical Statistics statistics OBCS obcs.owl   [Tracker]
Taxonomic rank vocabulary taxonomy TAXRANK taxrank.obo
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
Fly taxonomy taxonomy FBsp fly_taxonomy.obo   [Tracker] 2007/04/10
Teleost taxonomy taxonomy TTO teleost_taxonomy.obo   [Tracker] 2012/07/19
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 May 15 00:00:17 2015