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
Zebrafish anatomy and development anatomy ZFA zfa.obo   [Tracker]
Plant Ontology anatomy and development PO plant_ontology.obo?view=co   [Tracker]
Phenotypic quality phenotype PATO quality.obo   [Tracker]
Ontology for biomedical investigations experiments OBI obi.owl   [Tracker]
PRotein Ontology (PRO) proteins PR pro.obo   [Tracker]
Chemical entities of biological interest biochemistry CHEBI chebi.obo   [Tracker]
Molecular function biological function GO go.obo   [Tracker]
Xenopus anatomy and development anatomy XAO xenopus_anatomy.obo   [Tracker]
Biological process biological process GO go.obo   [Tracker]
Cellular component anatomy GO go.obo   [Tracker]
OBO Foundry candidate ontologies and other ontologies of interest
Title Domain Prefix File Last changed
eagle-i resource ontology resources ERO ero.owl   [Tracker]
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
Cell type anatomy CL cl.owl   [Tracker]
Mathematical modeling ontology MAMO mamo-xml.owl   [Tracker]
Drosophila Phenotype Ontology FBcv dpo.owl
Mouse gross anatomy and development, abstract anatomy EMAPA EMAPA.obo
RNA ontology molecular structure RNAO rnao.obo
Plant Environmental Conditions environment EO environment_ontology.obo
C. elegans development anatomy WBls worm_development.obo
Units of measurement phenotype UO unit.obo
Human disease ontology health DOID doid.obo   [Tracker]
Chemical Information Ontology biochemistry CHEMINF cheminf.owl
Symptom Ontology health SYMP gemina_symptom.obo
Foundational Model of Anatomy (subset) anatomy FMA fma.obo   [Tracker]
Zebrafish developmental stages anatomy ZFS zfs.obo
Mammalian phenotype phenotype MP MPheno_OBO.ontology   [Tracker]
Uber anatomy ontology anatomy UBERON ext.owl   [Tracker]
Ontology for MIRNA Target Prediction OMIT OMIT.owl
Variation Ontology VariO vario.obo
Lipid Ontology lipids LiPrO LipidOntology
Name Reaction Ontology RXNO rxno.obo   [Tracker]
The Drug Ontology health DRON dron.owl   [Tracker]
C. elegans phenotype phenotype WBPhenotype wbphenotype.obo
Microarray experimental conditions experiments MO MGEDOntology.owl
Ontology for General Medical Science medicine OGMS ogms.owl   [Tracker]
CranioMaxilloFacial ontology health CMF cmf.owl   [Tracker]
Malaria Ontology health IDOMAL idomal.obo
Emotion Ontology health MFOEM mfoem.owl   [Tracker]
Geographical Entity Ontology GEO geo.owl   [Tracker]
microRNA Ontology miRNAO mirnao.owl
Ontology of Biological and Clinical Statistics statistics OBCS obcs.owl   [Tracker]
Vertebrate Taxonomy Ontology VTO vto.owl   [Tracker]
Biological Spatial Ontology anatomy BSPO bspo.obo   [Tracker]
Biological Collections Ontology BCO bco.owl   [Tracker]
The Ontology of Genes and Genomes DINTO dinto.owl   [Tracker]
Protein covalent bond proteins RESID RESIDUES.XML
Mosquito insecticide resistance environment MIRO miro.obo
Systems Biology biochemistry SBO SBO_OBO.obo   [Tracker]
MIAPA Ontology MIAPA miapa.owl   [Tracker]
Ontology of Vaccine Adverse Events OVAE ovae.owl   [Tracker]
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
Software ontology SWO swo_merged.owl
Exposure ontology health ExO CTD_exposure_ontology.obo
Mouse gross anatomy and development, timed anatomy EMAP EMAP_combined.obo
NIF Cell neuroscience NIF_Cell NIF-Cell.owl
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
Kinetic Simulation Algorithm Ontology algorithms KISAO KISAO   [Tracker]
Adverse Event Reporting Ontology health AERO aero.owl
Ontology of Medically Related Social Entities medicine OMRSE omrse.owl
Drosophila gross anatomy anatomy FBbt fbbt.obo   [Tracker]
Ontology of Adverse Events adverse events, health OAE oae.owl
Vertebrate Skeletal Anatomy Ontology anatomy VSAO vsao.obo   [Tracker]
Protein-protein interaction experiments MI psi-mi25.obo
Pathogen transmission health TRANS transmission_process.obo   [Tracker]
Information Artifact Ontology information IAO iao.owl   [Tracker]
Mouse pathology health MPATH mpath.obo
Neuro Behavior Ontology behavior NBO behavior.owl   [Tracker]
C. elegans gross anatomy anatomy WBbt wbbt.obo   [Tracker]
human phenotype ontology phenotype HP human-phenotype-ontology.obo   [Tracker]
Relation ontology all RO ro.owl
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
verteberate Homologous Organ Groups anatomy vHOG vHOG.obo
Protein modification proteins MOD PSI-MOD.obo
Basic Formal Ontology upper BFO 1.1
Ontology of Genetic Susceptibility Factor OGSF ogsf.owl   [Tracker]
NCI Thesaurus health ncithesaurus EVS/
Mental Functioning Ontology MF mf.owl   [Tracker]
homology_ontology HOM hom.obo
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
Environment Ontology environment ENVO envo-basic.obo   [Tracker]
Sample processing and separation techniques provenance SEP sep.obo
Fission Yeast Phenotype Ontology phenotype FYPO fypo.obo?format=raw   [Tracker]
Influenza Ontology health FLU flu.owl   [Tracker]
Cell Line Ontology CLO clo.owl
Mass spectrometry experiments MS psi-ms.obo
Chemical Methods Ontology health CHMO chmo.owl   [Tracker]
Sequence types and features biological sequence SO so-xp.obo?format=raw   [Tracker]
Informed Consent Ontology health ICO ico.owl   [Tracker]
Beta Cell Genomics Ontology experiments BCGO bcgo.owl   [Tracker]
Ontology for genetic interval OGI ogi.owl   [Tracker]
Pathway ontology biological process PW pathway.obo
NIF Dysfunction neuroscience NIF_Dysfunction NIF-Dysfunction.owl
Epidemiology Ontology EPO epo.owl
Physico-chemical methods and properties FIX fix.obo
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 ehdaa2.obo
Plant Trait Ontology phenotype TO trait.obo?view=co   [Tracker]
Comparative Data Analysis Ontology CDAO cdao.owl
Uber anatomy ontology, basic version anatomy uberon-basic basic.obo
STATistics Ontology statistics STATO stato.owl   [Tracker]
Physico-chemical process REX rex.obo
Ontology of Biological Attributes phenotype OBA oba.owl
Ontology for Biobanking health OBIB obib.owl   [Tracker]
Evidence codes experiments ECO eco.obo
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
The Ontology of Genes and Genomes OGG ogg.owl   [Tracker]
Mental Disease Ontology health MFOMD mfomd.owl   [Tracker]
Porifera Ontology anatomy PORO poro.owl   [Tracker]
Mosquito gross anatomy anatomy TGMA tgma.obo
Ontology for Parasite LifeCycle OPL opl.owl   [Tracker]
Mouse adult gross anatomy anatomy MA ma.obo   [Tracker]
Platynereis stage ontology anatomy PD_ST Pdu_Stages.obo
Population and Community Ontology PCO pco.owl   [Tracker]
Tick gross anatomy anatomy TADS tads.obo
Vaccine ontology health VO vo   [Tracker]
Taxonomic rank vocabulary taxonomy TAXRANK taxrank.obo
Infectious disease health IDO ido.owl   [Tracker]
Molecular Process Ontology MOP mop.obo   [Tracker]
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 dictyostelium_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 Sat Jan 17 00:00:29 2015