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
Chemical entities of biological interest biochemistry CHEBI chebi.obo   [Tracker]
Cellular component anatomy GO go.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]
Plant Ontology anatomy and development PO plant_ontology.obo?view=co   [Tracker]
PRotein Ontology (PRO) proteins PR pro.obo   [Tracker]
Xenopus anatomy and development anatomy XAO xenopus_anatomy.obo   [Tracker]
Zebrafish anatomy and development anatomy ZFA zfa.obo   [Tracker]
OBO Foundry candidate ontologies and other ontologies of interest
Title Domain Prefix File Last changed
Anatomical Entity Ontology anatomy AEO aeo.obo 2012/06/01
Adverse Event Reporting Ontology health AERO aero.owl
Ascomycete phenotype ontology phenotype APO ascomycete_phenotype.obo 2014/06/30
Beta Cell Genomics Ontology BCGO bcgo.owl   [Tracker]
Biological Collections Ontology BCO bco.owl   [Tracker]
Basic Formal Ontology upper BFO 1.1
Biological Spatial Ontology anatomy BSPO bspo.obo   [Tracker]
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
Common Anatomy Reference Ontology anatomy CARO caro.obo   [Tracker] 2011/12/14
Comparative Data Analysis Ontology CDAO cdao.owl
Chemical Information Ontology biochemistry CHEMINF cheminf.owl
Chemical Methods Ontology health CHMO chmo.owl   [Tracker]
Cell type anatomy CL cl.owl   [Tracker]
Cell Line Ontology CLO clo.owl
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
Dictyostelium discoideum anatomy anatomy DDANAT dictyostelium_anatomy.obo   [Tracker] 2013/01/19
Human disease ontology health DOID doid.obo   [Tracker]
The Drug Ontology health DRON dron.owl   [Tracker]
Evidence codes experiments ECO eco.obo
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 ehdaa2.obo
Mouse gross anatomy and development, timed anatomy EMAP EMAP_combined.obo
Mouse gross anatomy and development, abstract anatomy EMAPA EMAPA.obo
Environment Ontology environment ENVO envo-basic.obo   [Tracker]
Plant Environmental Conditions environment EO environment_ontology.obo
Epidemiology Ontology EPO epo.owl
eagle-i resource ontology resources ERO ero.owl   [Tracker]
Exposure ontology health ExO CTD_exposure_ontology.obo
Fungal gross anatomy anatomy FAO fungal_anatomy.obo 2014/02/07
Biological imaging methods experiments FBbi image.obo 2013/11/05
Drosophila gross anatomy anatomy FBbt fbbt.obo   [Tracker]
Drosophila Phenotype Ontology FBcv dpo.owl
Drosophila development anatomy FBdv fly_development.obo   [Tracker] 2010/07/01
Fly taxonomy taxonomy FBsp fly_taxonomy.obo   [Tracker] 2007/04/10
Physico-chemical methods and properties FIX fix.obo
Influenza Ontology health FLU flu.owl   [Tracker]
Foundational Model of Anatomy (subset) anatomy FMA fma.obo   [Tracker]
Fission Yeast Phenotype Ontology phenotype FYPO fypo.obo?format=raw   [Tracker]
Geographical Entity Ontology GEO geo.owl   [Tracker]
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
homology_ontology HOM homology_ontology.obo
human phenotype ontology phenotype HP human-phenotype-ontology.obo   [Tracker]
Information Artifact Ontology information IAO iao.owl   [Tracker]
Infectious disease health IDO ido.owl   [Tracker]
Malaria Ontology health IDOMAL idomal.obo
Kinetic Simulation Algorithm Ontology algorithms KISAO KISAO   [Tracker]
Lipid Ontology lipids LiPrO LipidOntology
Mouse adult gross anatomy anatomy MA ma.obo   [Tracker]
Mathematical modeling ontology MAMO mamo-xml.owl   [Tracker]
Mental Functioning Ontology MF mf.owl   [Tracker]
Medaka fish anatomy and development anatomy MFO medaka_ontology.obo 2005/11/08
Emotion Ontology health MFOEM mfoem.owl   [Tracker]
Protein-protein interaction experiments MI psi-mi25.obo
MIAPA Ontology MIAPA miapa.owl   [Tracker]
microRNA Ontology miRNAO mirnao.owl
Mosquito insecticide resistance environment MIRO miro.obo
Microarray experimental conditions experiments MO MGEDOntology.owl
Protein modification proteins MOD PSI-MOD.obo
Mammalian phenotype phenotype MP MPheno_OBO.ontology   [Tracker]
Mouse pathology health MPATH mpath.obo
Mass spectrometry experiments MS psi-ms.obo
Neuro Behavior Ontology behavior NBO behavior.owl   [Tracker]
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
NCI Thesaurus health ncithesaurus EVS/
NIF Cell neuroscience NIF_Cell NIF-Cell.owl
NIF Dysfunction neuroscience NIF_Dysfunction NIF-Dysfunction.owl
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
Ontology of Adverse Events adverse events, health OAE oae.owl
Ontology of Biological Attributes phenotype OBA oba.owl
OBO relationship types (legacy) all OBO_REL ro.obo   [Tracker] 2010/06/07
The Ontology of Genes and Genomes OGG ogg.owl   [Tracker]
Ontology for genetic interval OGI ogi.owl   [Tracker]
Ontology for General Medical Science medicine OGMS ogms.owl   [Tracker]
Ontology of Genetic Susceptibility Factor OGSF ogsf.owl   [Tracker]
Ontology for MIRNA Target Prediction OMIT OMIT.owl
Ontology of Medically Related Social Entities medicine OMRSE omrse.owl
Ontology for Parasite LifeCycle OPL opl.owl   [Tracker]
Ontology of Vaccine Adverse Events OVAE ovae.owl   [Tracker]
Population and Community Ontology PCO pco.owl   [Tracker]
Platynereis stage ontology anatomy PD_ST Pdu_Stages.obo
Porifera Ontology anatomy PORO poro.owl   [Tracker]
Pathway ontology biological process PW pathway.obo
Protein covalent bond proteins RESID RESIDUES.XML
Physico-chemical process REX rex.obo
RNA ontology molecular structure RNAO rnao.obo
Relation ontology all RO ro.owl
Systems Biology biochemistry SBO SBO_OBO.obo   [Tracker]
Sample processing and separation techniques provenance SEP sep.obo
Sequence types and features biological sequence SO so-xp.obo?format=raw   [Tracker]
Spider Ontology anatomy SPD spider_comparative_biology.obo   [Tracker] 2014/01/09
Software ontology SWO swo_merged.owl
Symptom Ontology health SYMP gemina_symptom.obo
Tick gross anatomy anatomy TADS tads.obo
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
Taxonomic rank vocabulary taxonomy TAXRANK taxrank.obo
Mosquito gross anatomy anatomy TGMA tgma.obo
Plant Trait Ontology phenotype TO trait.obo?view=co   [Tracker]
Pathogen transmission health TRANS transmission_process.obo   [Tracker]
Teleost taxonomy taxonomy TTO teleost_taxonomy.obo   [Tracker] 2012/07/19
Uber anatomy ontology anatomy UBERON ext.owl   [Tracker]
Uber anatomy ontology, basic version anatomy uberon-basic basic.obo
Units of measurement phenotype UO unit.obo
Variation Ontology VariO vario.obo
verteberate Homologous Organ Groups anatomy vHOG vHOG.obo
Vaccine ontology health VO vo   [Tracker]
Vertebrate Skeletal Anatomy Ontology anatomy VSAO vsao.obo   [Tracker]
Vertebrate Taxonomy Ontology VTO vto.owl   [Tracker]
C. elegans gross anatomy anatomy WBbt wbbt.obo   [Tracker]
C. elegans development anatomy WBls worm_development.obo
C. elegans phenotype phenotype WBPhenotype wbphenotype.obo
Zebrafish developmental stages anatomy ZFS zfs.obo
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 Dec 1 00:00:18 2014