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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
Xenopus anatomy and development anatomy XAO xenopus_anatomy.obo   [Tracker]
Cellular component anatomy GO go.obo   [Tracker]
Zebrafish anatomy and development anatomy ZFA zfa.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
homology_ontology HOM hom.obo
Ontology of Vaccine Adverse Events OVAE ovae.owl   [Tracker]
Variation Ontology VariO vario.obo
Mathematical modeling ontology MAMO mamo-xml.owl   [Tracker]
Physico-chemical process REX rex.obo
Software ontology SWO swo_merged.owl
microRNA Ontology miRNAO mirnao.owl
Cell Line Ontology CLO clo.owl
Mental Functioning Ontology MF mf.owl   [Tracker]
Comparative Data Analysis Ontology CDAO cdao.owl
MIAPA Ontology MIAPA miapa.owl   [Tracker]
Ontology for MIRNA Target OMIT OMIT.owl
Ontology of Genetic Susceptibility Factor OGSF ogsf.owl   [Tracker]
Epidemiology Ontology EPO epo.owl
Name Reaction Ontology RXNO rxno.obo   [Tracker]
The Ontology of Genes and Genomes OGG ogg.owl   [Tracker]
Population and Community Ontology PCO pco.owl   [Tracker]
Biological Collections Ontology BCO bco.owl   [Tracker]
Molecular Process Ontology MOP mop.obo   [Tracker]
Physico-chemical methods and properties FIX fix.obo
Ontology for Parasite LifeCycle OPL opl.owl   [Tracker]
Geographical Entity Ontology GEO geo.owl   [Tracker]
The Drug-drug Interaction Ontology DINTO dinto.owl   [Tracker]
Vertebrate Taxonomy Ontology VTO vto.owl   [Tracker]
Ontology for genetic interval OGI ogi.owl   [Tracker]
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]
Common Anatomy Reference Ontology anatomy CARO caro.obo   [Tracker] 2011/12/14
Uber anatomy ontology, basic version anatomy uberon-basic basic.obo
verteberate Homologous Organ Groups anatomy vHOG vHOG.obo
Cell type anatomy CL cl.owl   [Tracker]
Platynereis stage ontology anatomy PD_ST Pdu_Stages.obo
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
Medaka fish anatomy and development anatomy MFO medaka_ontology.obo 2005/11/08
Ctenophore Ontology anatomy CTENO cteno.owl
Tick gross anatomy anatomy TADS tads.obo
Vertebrate Skeletal Anatomy Ontology anatomy VSAO vsao.obo   [Tracker]
Drosophila gross anatomy anatomy FBbt fbbt.obo   [Tracker]
Anatomical Entity Ontology anatomy AEO aeo.obo 2012/06/01
Foundational Model of Anatomy (subset) anatomy FMA fma.obo   [Tracker]
Fungal gross anatomy anatomy FAO fungal_anatomy.obo 2014/02/07
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
Spider Ontology anatomy SPD spider_comparative_biology.obo   [Tracker] 2014/01/09
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 ehdaa2.obo
Biological Spatial Ontology anatomy BSPO bspo.obo   [Tracker]
Porifera Ontology anatomy PORO poro.owl   [Tracker]
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
Mouse adult gross anatomy anatomy MA ma.obo   [Tracker]
Mouse gross anatomy and development, timed anatomy EMAP EMAP_combined.obo
Dictyostelium discoideum phenotype anatomy DDPHENO dicty_phenotypes.obo
Dictyostelium discoideum anatomy anatomy DDANAT dicty_anatomy.obo   [Tracker] 2013/01/19
Zebrafish developmental stages anatomy ZFS zfs.obo
Mouse gross anatomy and development, abstract anatomy EMAPA EMAPA.obo
Mosquito gross anatomy anatomy TGMA tgma.obo
Uber anatomy ontology anatomy UBERON ext.owl   [Tracker]
C. elegans development anatomy WBls worm_development.obo
Drosophila development anatomy FBdv fbdv.obo   [Tracker] 2010/07/01
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]
Mosquito insecticide resistance environment MIRO miro.obo
Environment Ontology environment ENVO envo-basic.obo   [Tracker]
Plant Environmental Conditions environment EO environment_ontology.obo
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
Beta Cell Genomics Ontology experiments BCGO bcgo.owl   [Tracker]
Mass spectrometry experiments MS psi-ms.obo
Protein-protein interaction experiments MI psi-mi25.obo
Biological imaging methods experiments FBbi image.obo 2013/11/05
Microarray experimental conditions experiments MO MGEDOntology.owl
Evidence codes experiments ECO eco.obo
Influenza Ontology health FLU flu.owl   [Tracker]
CranioMaxilloFacial ontology health CMF cmf.owl   [Tracker]
Adverse Event Reporting Ontology health AERO aero.owl
The Potential Drug-drug Interaction and Potential Drug-drug Interaction Evidence Ontology health DIDEO dideo.owl
Informed Consent Ontology health ICO ico.owl   [Tracker]
Mental Disease Ontology health MFOMD mfomd.owl   [Tracker]
Emotion Ontology health MFOEM mfoem.owl   [Tracker]
Pathogen transmission health TRANS transmission_process.obo   [Tracker]
Chemical Methods Ontology health CHMO chmo.owl   [Tracker]
Exposure ontology health ExO CTD_exposure_ontology.obo
NCI Thesaurus health ncithesaurus EVS/
Human disease ontology health DOID doid.obo   [Tracker]
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
Symptom Ontology health SYMP gemina_symptom.obo
Ontology for Biobanking health OBIB obib.owl   [Tracker]
The Drug Ontology health DRON dron.owl   [Tracker]
Mouse pathology health MPATH mpath.obo
Vaccine ontology health VO vo   [Tracker]
Malaria Ontology health IDOMAL idomal.obo
Infectious disease health IDO ido.owl   [Tracker]
Information Artifact Ontology information IAO iao.owl   [Tracker]
Lipid Ontology lipids LiPrO LipidOntology
Ontology of Medically Related Social Entities medicine OMRSE omrse.owl
Ontology for General Medical Science medicine OGMS ogms.owl   [Tracker]
RNA ontology molecular structure RNAO rnao.obo
NIF Dysfunction neuroscience NIF_Dysfunction NIF-Dysfunction.owl
NIF Cell neuroscience NIF_Cell NIF-Cell.owl
Plant Trait Ontology phenotype TO trait.obo?view=co   [Tracker]
Drosophila Phenotype Ontology phenotype FBcv dpo.owl
human phenotype ontology phenotype HP human-phenotype-ontology.obo   [Tracker]
C. elegans phenotype phenotype WBPhenotype wbphenotype.obo
Ontology of Biological Attributes phenotype OBA oba.owl
Units of measurement phenotype UO unit.obo
Fission Yeast Phenotype Ontology phenotype FYPO fypo.obo?format=raw   [Tracker]
Mammalian phenotype phenotype MP MPheno_OBO.ontology   [Tracker]
Ascomycete phenotype ontology phenotype APO ascomycete_phenotype.obo 2014/06/30
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]
Ontology of Biological and Clinical Statistics statistics OBCS obcs.owl   [Tracker]
STATistics Ontology statistics STATO stato.owl   [Tracker]
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
Taxonomic rank vocabulary taxonomy TAXRANK taxrank.obo
Teleost taxonomy taxonomy TTO teleost_taxonomy.obo   [Tracker] 2012/07/19
Fly taxonomy taxonomy FBsp fly_taxonomy.obo   [Tracker] 2007/04/10
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 Tue Aug 4 00:00:25 2015