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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
Plant Ontology anatomy and development PO plant_ontology.obo?view=co   [Tracker]
Phenotypic quality phenotype PATO pato.obo   [Tracker]
Xenopus anatomy and development anatomy XAO xenopus_anatomy.obo   [Tracker]
PRotein Ontology (PRO) proteins PR pro.obo   [Tracker]
Chemical entities of biological interest biochemistry CHEBI chebi.obo   [Tracker]
Zebrafish anatomy and development anatomy ZFA zfa.obo   [Tracker]
Biological process biological process GO go.obo   [Tracker]
Ontology for biomedical investigations experiments OBI obi.owl   [Tracker]
Molecular function biological function 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
Mouse gross anatomy and development, timed anatomy EMAP EMAP_combined.obo
Neuro Behavior Ontology behavior NBO behavior.owl   [Tracker]
Tick gross anatomy anatomy TADS tads.obo
Malaria Ontology health IDOMAL idomal.obo
microRNA Ontology miRNAO mirnao.owl
Ontology for genetic interval OGI ogi.owl   [Tracker]
Porifera Ontology anatomy PORO poro.owl   [Tracker]
Informed Consent Ontology health ICO ico.owl   [Tracker]
Vertebrate Taxonomy Ontology VTO vto.owl   [Tracker]
CranioMaxilloFacial ontology health CMF cmf.owl   [Tracker]
Sequence types and features biological sequence SO so-xp.obo?format=raw   [Tracker]
Vaccine ontology health VO vo   [Tracker]
Mouse pathology health MPATH mpath.obo
Mosquito insecticide resistance environment MIRO miro.obo
Population and Community Ontology PCO pco.owl   [Tracker]
Uber anatomy ontology, basic version anatomy uberon-basic basic.obo
Physico-chemical methods and properties FIX fix.obo
Geographical Entity Ontology GEO geo.owl   [Tracker]
Mathematical modeling ontology MAMO mamo-xml.owl   [Tracker]
Evidence codes experiments ECO eco.obo
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
verteberate Homologous Organ Groups anatomy vHOG vHOG.obo
Physico-chemical process REX rex.obo
Ontology of Vaccine Adverse Events OVAE ovae.owl   [Tracker]
Kinetic Simulation Algorithm Ontology algorithms KISAO KISAO   [Tracker]
Basic Formal Ontology upper BFO 1.1
NCI Thesaurus health ncithesaurus EVS/
Zebrafish developmental stages anatomy ZFS zfs.obo
Drosophila Phenotype Ontology phenotype FBcv dpo.owl
Ontology for Parasite LifeCycle OPL opl.owl   [Tracker]
homology_ontology HOM hom.obo
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
Platynereis stage ontology anatomy PD_ST Pdu_Stages.obo
Environment Ontology environment ENVO envo-basic.obo   [Tracker]
Infectious disease health IDO ido.owl   [Tracker]
Cell type anatomy CL cl.owl   [Tracker]
Protein modification proteins MOD PSI-MOD.obo
C. elegans development anatomy WBls worm_development.obo
RNA ontology molecular structure RNAO rnao.obo
Fission Yeast Phenotype Ontology phenotype FYPO fypo.obo?format=raw   [Tracker]
Dictyostelium discoideum phenotype anatomy DDPHENO dicty_phenotypes.obo
Biological Collections Ontology BCO bco.owl   [Tracker]
Ontology of Biological and Clinical Statistics statistics OBCS obcs.owl   [Tracker]
The Potential Drug-drug Interaction and Potential Drug-drug Interaction Evidence Ontology health DIDEO dideo.owl
Comparative Data Analysis Ontology CDAO cdao.owl
Protein-protein interaction experiments MI psi-mi25.obo
Information Artifact Ontology information IAO iao.owl   [Tracker]
Beta Cell Genomics Ontology experiments BCGO bcgo.owl   [Tracker]
C. elegans phenotype phenotype WBPhenotype wbphenotype.obo
Taxonomic rank vocabulary taxonomy TAXRANK taxrank.obo
Epidemiology Ontology EPO epo.owl
NIF Dysfunction neuroscience NIF_Dysfunction NIF-Dysfunction.owl
Molecular Process Ontology MOP mop.obo   [Tracker]
NIF Cell neuroscience NIF_Cell NIF-Cell.owl
Variation Ontology VariO vario.obo
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
Drosophila gross anatomy anatomy FBbt fbbt.obo   [Tracker]
Relation ontology all RO ro.owl
Human disease ontology health DOID doid.obo   [Tracker]
Plant Trait Ontology phenotype TO trait.obo?view=co   [Tracker]
Ontology of Genetic Susceptibility Factor OGSF ogsf.owl   [Tracker]
Influenza Ontology health FLU flu.owl   [Tracker]
Plant Environmental Conditions environment EO environment_ontology.obo
Mental Disease Ontology health MFOMD mfomd.owl   [Tracker]
Microarray experimental conditions experiments MO MGEDOntology.owl
Software ontology SWO swo_merged.owl
Units of measurement phenotype UO unit.obo
Pathogen transmission health TRANS transmission_process.obo   [Tracker]
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
Pathway ontology biological process PW pathway.obo
eagle-i resource ontology resources ERO ero.owl   [Tracker]
Mosquito gross anatomy anatomy TGMA tgma.obo
Ontology of Biological Attributes phenotype OBA oba.owl
Mouse adult gross anatomy anatomy MA ma.obo   [Tracker]
Mental Functioning Ontology MF mf.owl   [Tracker]
Chemical Information Ontology biochemistry CHEMINF cheminf.owl
Biological Spatial Ontology anatomy BSPO bspo.obo   [Tracker]
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 ehdaa2.obo
Ontology for General Medical Science medicine OGMS ogms.owl   [Tracker]
The Drug Ontology health DRON dron.owl   [Tracker]
Ontology for Biobanking health OBIB obib.owl   [Tracker]
Chemical Methods Ontology health CHMO chmo.owl   [Tracker]
The Drug-drug Interaction Ontology DINTO dinto.owl   [Tracker]
Exposure ontology health ExO CTD_exposure_ontology.obo
C. elegans gross anatomy anatomy WBbt wbbt.obo   [Tracker]
Sample processing and separation techniques provenance SEP sep.obo
Vertebrate Skeletal Anatomy Ontology anatomy VSAO vsao.obo   [Tracker]
Adverse Event Reporting Ontology health AERO aero.owl
STATistics Ontology statistics STATO stato.owl   [Tracker]
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
Symptom Ontology health SYMP gemina_symptom.obo
Name Reaction Ontology RXNO rxno.obo   [Tracker]
Mass spectrometry experiments MS psi-ms.obo
Ontology of Adverse Events adverse events, health OAE oae.owl
Cell Line Ontology CLO clo.owl
Foundational Model of Anatomy (subset) anatomy FMA fma.obo   [Tracker]
MIAPA Ontology MIAPA miapa.owl   [Tracker]
Ctenophore Ontology anatomy CTENO cteno.owl
Systems Biology biochemistry SBO SBO_OBO.obo   [Tracker]
Emotion Ontology health MFOEM mfoem.owl   [Tracker]
The Ontology of Genes and Genomes OGG ogg.owl   [Tracker]
Lipid Ontology lipids LiPrO LipidOntology
Mouse gross anatomy and development, abstract anatomy EMAPA EMAPA.obo
Ontology of Medically Related Social Entities medicine OMRSE omrse.owl
Protein covalent bond proteins RESID RESIDUES.XML
Uber anatomy ontology anatomy UBERON ext.owl   [Tracker]
Ontology for MIRNA Target OMIT OMIT.owl
human phenotype ontology phenotype HP human-phenotype-ontology.obo   [Tracker]
Mammalian phenotype phenotype MP MPheno_OBO.ontology   [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 fbdv.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 Tue Aug 4 00:00:25 2015