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
PRotein Ontology (PRO) proteins PR pro.obo   [Tracker]
Phenotypic quality phenotype PATO pato.obo   [Tracker]
Biological process biological process GO go.obo   [Tracker]
Chemical entities of biological interest biochemistry CHEBI chebi.obo   [Tracker]
Molecular function biological function GO go.obo   [Tracker]
Plant Ontology anatomy and development PO plant_ontology.obo?view=co   [Tracker]
Zebrafish anatomy and development anatomy ZFA zfa.obo   [Tracker]
Ontology for biomedical investigations experiments OBI obi.owl   [Tracker]
Xenopus anatomy and development anatomy XAO xenopus_anatomy.obo   [Tracker]
Cellular component anatomy GO go.obo   [Tracker]
OBO Foundry candidate ontologies and other ontologies of interest
Title Domain Prefix File Last changed
Microarray experimental conditions experiments MO MGEDOntology.owl
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
Fission Yeast Phenotype Ontology phenotype FYPO fypo.obo?format=raw   [Tracker]
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 ehdaa2.obo
Mental Disease Ontology health MFOMD mfomd.owl   [Tracker]
Ontology of Biological Attributes phenotype OBA oba.owl
MIAPA Ontology MIAPA miapa.owl   [Tracker]
Porifera Ontology anatomy PORO poro.owl   [Tracker]
Drosophila gross anatomy anatomy FBbt fbbt.obo   [Tracker]
Uber anatomy ontology anatomy UBERON ext.owl   [Tracker]
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
Informed Consent Ontology health ICO ico.owl   [Tracker]
eagle-i resource ontology resources ERO ero.owl   [Tracker]
Ontology for General Medical Science medicine OGMS ogms.owl   [Tracker]
Drosophila Phenotype Ontology FBcv dpo.owl
Ontology for Biobanking health OBIB obib.owl   [Tracker]
Sequence types and features biological sequence SO so-xp.obo?format=raw   [Tracker]
Mosquito insecticide resistance environment MIRO miro.obo
Physico-chemical methods and properties FIX fix.obo
Ontology for Parasite LifeCycle OPL opl.owl   [Tracker]
C. elegans gross anatomy anatomy WBbt wbbt.obo   [Tracker]
Malaria Ontology health IDOMAL idomal.obo
Neuro Behavior Ontology behavior NBO behavior.owl   [Tracker]
Ontology for MIRNA Target OMIT OMIT.owl
RNA ontology molecular structure RNAO rnao.obo
Name Reaction Ontology RXNO rxno.obo   [Tracker]
Evidence codes experiments ECO eco.obo
Ontology of Genetic Susceptibility Factor OGSF ogsf.owl   [Tracker]
Protein modification proteins MOD PSI-MOD.obo
STATistics Ontology statistics STATO stato.owl   [Tracker]
Ontology of Vaccine Adverse Events OVAE ovae.owl   [Tracker]
homology_ontology HOM hom.obo
Uber anatomy ontology, basic version anatomy uberon-basic basic.obo
Basic Formal Ontology upper BFO 1.1
Mouse adult gross anatomy anatomy MA ma.obo   [Tracker]
Beta Cell Genomics Ontology experiments BCGO bcgo.owl   [Tracker]
Chemical Information Ontology biochemistry CHEMINF cheminf.owl
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
Plant Trait Ontology phenotype TO trait.obo?view=co   [Tracker]
Systems Biology biochemistry SBO SBO_OBO.obo   [Tracker]
Epidemiology Ontology EPO epo.owl
Pathogen transmission health TRANS transmission_process.obo   [Tracker]
Taxonomic rank vocabulary taxonomy TAXRANK taxrank.obo
Information Artifact Ontology information IAO iao.owl   [Tracker]
Influenza Ontology health FLU flu.owl   [Tracker]
NCI Thesaurus health ncithesaurus EVS/
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
Plant Environmental Conditions environment EO environment_ontology.obo
Ontology of Medically Related Social Entities medicine OMRSE omrse.owl
Vaccine ontology health VO vo   [Tracker]
Biological Collections Ontology BCO bco.owl   [Tracker]
The Ontology of Genes and Genomes OGG ogg.owl   [Tracker]
Physico-chemical process REX rex.obo
Environment Ontology environment ENVO envo-basic.obo   [Tracker]
Mental Functioning Ontology MF mf.owl   [Tracker]
Cell Line Ontology CLO clo.owl
Software ontology SWO swo_merged.owl
Vertebrate Skeletal Anatomy Ontology anatomy VSAO vsao.obo   [Tracker]
Tick gross anatomy anatomy TADS tads.obo
Mathematical modeling ontology MAMO mamo-xml.owl   [Tracker]
The Potential Drug-drug Interaction and Potential Drug-drug Interaction Evidence Ontology health DIDEO dideo.owl
Ontology of Biological and Clinical Statistics statistics OBCS obcs.owl   [Tracker]
CranioMaxilloFacial ontology health CMF cmf.owl   [Tracker]
The Drug-drug Interaction Ontology DINTO dinto.owl   [Tracker]
Pathway ontology biological process PW pathway.obo
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
The Drug Ontology health DRON dron.owl   [Tracker]
Units of measurement phenotype UO unit.obo
non-coding RNA Ontology NCRO ncro.owl
Mammalian phenotype phenotype MP MPheno_OBO.ontology   [Tracker]
Geographical Entity Ontology GEO geo.owl   [Tracker]
Lipid Ontology lipids LiPrO LipidOntology
Protein covalent bond proteins RESID RESIDUES.XML
Cell type anatomy CL cl.owl   [Tracker]
Molecular Process Ontology MOP mop.obo   [Tracker]
NIF Cell neuroscience NIF_Cell NIF-Cell.owl
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
Human disease ontology health DOID doid.obo   [Tracker]
Emotion Ontology health MFOEM mfoem.owl   [Tracker]
Vertebrate Taxonomy Ontology VTO vto.owl   [Tracker]
Sample processing and separation techniques provenance SEP sep.obo
Population and Community Ontology PCO pco.owl   [Tracker]
Variation Ontology VariO vario.obo
Mouse pathology health MPATH mpath.obo
Biological Spatial Ontology anatomy BSPO bspo.obo   [Tracker]
Foundational Model of Anatomy (subset) anatomy FMA fma.obo   [Tracker]
Mouse gross anatomy and development, timed anatomy EMAP EMAP_combined.obo
Symptom Ontology health SYMP gemina_symptom.obo
Platynereis stage ontology anatomy PD_ST Pdu_Stages.obo
Zebrafish developmental stages anatomy ZFS zfs.obo
Ctenophore Ontology anatomy CTENO cteno.owl
Comparative Data Analysis Ontology CDAO cdao.owl
Protein-protein interaction experiments MI psi-mi25.obo
microRNA Ontology miRNAO mirnao.owl
Kinetic Simulation Algorithm Ontology algorithms KISAO KISAO   [Tracker]
Infectious disease health IDO ido.owl   [Tracker]
Mosquito gross anatomy anatomy TGMA tgma.obo
Ontology for genetic interval OGI ogi.owl   [Tracker]
NIF Dysfunction neuroscience NIF_Dysfunction NIF-Dysfunction.owl
Adverse Event Reporting Ontology health AERO aero.owl
Chemical Methods Ontology health CHMO chmo.owl   [Tracker]
Ontology of Adverse Events adverse events, health OAE oae.owl
Mouse gross anatomy and development, abstract anatomy EMAPA EMAPA.obo
human phenotype ontology phenotype HP human-phenotype-ontology.obo   [Tracker]
Relation ontology all RO ro.owl
Mass spectrometry experiments MS psi-ms.obo
C. elegans phenotype phenotype WBPhenotype wbphenotype.obo
Exposure ontology health ExO CTD_exposure_ontology.obo
C. elegans development anatomy WBls worm_development.obo
verteberate Homologous Organ Groups anatomy vHOG vHOG.obo
Dictyostelium discoideum phenotype anatomy DDPHENO dicty_phenotypes.obo
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 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 Mon Aug 3 18:09:33 2015