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]
Cellular component anatomy GO go.obo   [Tracker]
Xenopus anatomy and development anatomy XAO xenopus_anatomy.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 quality.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
Comparative Data Analysis Ontology CDAO cdao.owl
Geographical Entity Ontology GEO geo.owl   [Tracker]
Variation Ontology VariO vario.obo
Physico-chemical process REX rex.obo
Ontology of Vaccine Adverse Events OVAE ovae.owl
Ontology for MIRNA Target Prediction OMIT OMIT.owl
Physico-chemical methods and properties FIX fix.obo
microRNA Ontology miRNAO mirnao.owl
The Ontology of Genes and Genomes OGG ogg.owl   [Tracker]
Software ontology SWO swo_merged.owl
Cell Line Ontology CLO clo.owl
Drosophila Phenotype Ontology FBcv dpo.owl
Population and Community Ontology PCO pco.owl   [Tracker]
Vertebrate Taxonomy Ontology VTO vto.owl   [Tracker]
Ontology for genetic interval OGI ogi.owl   [Tracker]
Ontology of Genetic Susceptibility Factor OGSF ogsf.owl   [Tracker]
Epidemiology Ontology EPO epo.owl
Mental Functioning Ontology MF mf.owl   [Tracker]
Ontology for Parasite LifeCycle OPL opl.owl   [Tracker]
Beta Cell Genomics Ontology BCGO bcgo.owl   [Tracker]
Biological Collections Ontology BCO bco.owl   [Tracker]
MIAPA Ontology MIAPA miapa.owl   [Tracker]
homology_ontology HOM homology_ontology.obo
Mathematical modeling ontology MAMO mamo-xml.owl   [Tracker]
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
Porifera Ontology anatomy PORO poro.owl   [Tracker]
C. elegans gross anatomy anatomy WBbt wbbt.obo   [Tracker]
Spider Ontology anatomy SPD spider_comparative_biology.obo   [Tracker]
Mouse adult gross anatomy anatomy MA ma.obo   [Tracker]
Mouse gross anatomy and development, timed anatomy EMAP EMAP_combined.obo
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 ehdaa2.obo
Drosophila gross anatomy anatomy FBbt fbbt.obo   [Tracker]
Fungal gross anatomy anatomy FAO fungal_anatomy.obo 2014/02/07
Platynereis stage ontology anatomy PD_ST Pdu_Stages.obo
Uber anatomy ontology anatomy UBERON ext.owl   [Tracker]
Vertebrate Skeletal Anatomy Ontology anatomy VSAO vsao.obo   [Tracker]
Mouse gross anatomy and development, abstract anatomy EMAPA EMAPA.obo
Dictyostelium discoideum anatomy anatomy DDANAT dictyostelium_anatomy.obo   [Tracker] 2013/01/19
Tick gross anatomy anatomy TADS tads.obo
Foundational Model of Anatomy (subset) anatomy FMA fma.obo   [Tracker]
Cell type anatomy CL cl.owl   [Tracker]
Common Anatomy Reference Ontology anatomy CARO caro.obo   [Tracker]
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
Zebrafish developmental stages anatomy ZFS zfs.obo
Uber anatomy ontology, basic version anatomy uberon-basic basic.obo
Biological Spatial Ontology anatomy BSPO bspo.obo   [Tracker]
C. elegans development anatomy WBls worm_development.obo
Mosquito gross anatomy anatomy TGMA tgma.obo
Drosophila development anatomy FBdv fly_development.obo   [Tracker] 2010/07/01
Anatomical Entity Ontology anatomy AEO aeo.obo 2012/06/01
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
Medaka fish anatomy and development anatomy MFO medaka_ontology.obo 2005/11/08
verteberate Homologous Organ Groups anatomy vHOG vHOG.obo
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
Mosquito insecticide resistance environment MIRO miro.obo
Environment Ontology environment ENVO envo-basic.obo   [Tracker]
Biological imaging methods experiments FBbi image.obo 2013/11/05
Evidence codes experiments ECO eco.obo
Mass spectrometry experiments MS psi-ms.obo
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
Microarray experimental conditions experiments MO MGEDOntology.owl
Protein-protein interaction experiments MI psi-mi25.obo
Vaccine ontology health VO vo   [Tracker]
Chemical Methods Ontology health CHMO chmo.owl   [Tracker]
The Drug Ontology health DRON dron.owl   [Tracker]
Symptom Ontology health SYMP gemina_symptom.obo
Emotion Ontology health MFOEM mfoem.owl   [Tracker]
Pathogen transmission health TRANS transmission_process.obo   [Tracker]
Malaria Ontology health IDOMAL idomal.obo
Mouse pathology health MPATH mpath.obo
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
NCI Thesaurus health ncithesaurus EVS/
Human disease ontology health DOID doid.obo   [Tracker]
Infectious disease health IDO ido.owl   [Tracker]
Adverse Event Reporting Ontology health AERO aero.owl
Exposure ontology health ExO CTD_exposure_ontology.obo
Influenza Ontology health FLU flu.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
Ascomycete phenotype ontology phenotype APO ascomycete_phenotype.obo 2014/06/30
Mammalian phenotype phenotype MP MPheno_OBO.ontology   [Tracker]
Fission Yeast Phenotype Ontology phenotype FYPO fypo.obo?format=raw   [Tracker]
human phenotype ontology phenotype HP human-phenotype-ontology.obo   [Tracker]
C. elegans phenotype phenotype WBPhenotype wbphenotype.obo
Units of measurement phenotype UO unit.obo
Plant Trait Ontology phenotype TO trait.obo?view=co   [Tracker]
Protein covalent bond proteins RESID RESIDUES.XML
Protein modification proteins MOD PSI-MOD.obo
Sample processing and separation techniques provenance SEP sep.obo
eagle-i resource ontology resources ERO ero.owl   [Tracker]
Teleost taxonomy taxonomy TTO teleost_taxonomy.obo   [Tracker] 2012/07/19
Fly taxonomy taxonomy FBsp fly_taxonomy.obo   [Tracker] 2007/04/10
Taxonomic rank vocabulary taxonomy TAXRANK taxrank.obo
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
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 Sat Oct 25 01:00:10 2014