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 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
Epidemiology Ontology EPO epo.owl
Cell Line Ontology CLO clo.owl
Drosophila Phenotype Ontology FBcv dpo.owl
Ontology of Genetic Susceptibility Factor OGSF ogsf.owl   [Tracker]
Variation Ontology VariO vario.obo
Ontology for MIRNA Target Prediction OMIT OMIT.owl
Ontology of Vaccine Adverse Events OVAE ovae.owl
Ontology for genetic interval OGI ogi.owl   [Tracker]
The Ontology of Genes and Genomes OGG ogg.owl   [Tracker]
Geographical Entity Ontology GEO geo.owl   [Tracker]
Mathematical modeling ontology MAMO mamo-xml.owl   [Tracker]
Vertebrate Taxonomy Ontology VTO vto.owl   [Tracker]
Biological Collections Ontology BCO bco.owl   [Tracker]
Physico-chemical methods and properties FIX fix.obo
Comparative Data Analysis Ontology CDAO cdao.owl
Physico-chemical process REX rex.obo
homology_ontology HOM homology_ontology.obo
Beta Cell Genomics Ontology BCGO bcgo.owl   [Tracker]
MIAPA Ontology MIAPA miapa.owl   [Tracker]
Ontology for Parasite LifeCycle OPL opl.owl   [Tracker]
Mental Functioning Ontology MF mf.owl   [Tracker]
Software ontology SWO swo_merged.owl
microRNA Ontology miRNAO mirnao.owl
Population and Community Ontology PCO pco.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
Spider Ontology anatomy SPD spider_comparative_biology.obo   [Tracker] 2014/01/09
Fungal gross anatomy anatomy FAO fungal_anatomy.obo 2014/02/07
Mouse gross anatomy and development, abstract anatomy EMAPA EMAPA.obo
Cell type anatomy CL cl.owl   [Tracker]
C. elegans development anatomy WBls worm_development.obo
Platynereis stage ontology anatomy PD_ST Pdu_Stages.obo
Mosquito gross anatomy anatomy TGMA tgma.obo
Mouse adult gross anatomy anatomy MA ma.obo   [Tracker]
Vertebrate Skeletal Anatomy Ontology anatomy VSAO vsao.obo   [Tracker]
Drosophila gross anatomy anatomy FBbt fbbt.obo   [Tracker]
Drosophila development anatomy FBdv fly_development.obo   [Tracker] 2010/07/01
Common Anatomy Reference Ontology anatomy CARO caro.obo   [Tracker] 2011/12/14
Medaka fish anatomy and development anatomy MFO medaka_ontology.obo 2005/11/08
Tick gross anatomy anatomy TADS tads.obo
Uber anatomy ontology anatomy UBERON ext.owl   [Tracker]
verteberate Homologous Organ Groups anatomy vHOG vHOG.obo
C. elegans gross anatomy anatomy WBbt wbbt.obo   [Tracker]
Uber anatomy ontology, basic version anatomy uberon-basic basic.obo
Zebrafish developmental stages anatomy ZFS zfs.obo
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
Biological Spatial Ontology anatomy BSPO bspo.obo   [Tracker]
Dictyostelium discoideum anatomy anatomy DDANAT dictyostelium_anatomy.obo   [Tracker] 2013/01/19
Foundational Model of Anatomy (subset) anatomy FMA fma.obo   [Tracker]
Anatomical Entity Ontology anatomy AEO aeo.obo 2012/06/01
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 ehdaa2.obo
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
Mouse gross anatomy and development, timed anatomy EMAP EMAP_combined.obo
Porifera Ontology anatomy PORO poro.owl   [Tracker]
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
Mass spectrometry experiments MS psi-ms.obo
Evidence codes experiments ECO eco.obo
Protein-protein interaction experiments MI psi-mi25.obo
Microarray experimental conditions experiments MO MGEDOntology.owl
Biological imaging methods experiments FBbi image.obo 2013/11/05
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
Human disease ontology health DOID doid.obo   [Tracker]
Pathogen transmission health TRANS transmission_process.obo   [Tracker]
Influenza Ontology health FLU flu.owl   [Tracker]
Malaria Ontology health IDOMAL idomal.obo
Exposure ontology health ExO CTD_exposure_ontology.obo
Adverse Event Reporting Ontology health AERO aero.owl
Chemical Methods Ontology health CHMO chmo.owl   [Tracker]
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
Infectious disease health IDO ido.owl   [Tracker]
Emotion Ontology health MFOEM mfoem.owl   [Tracker]
NCI Thesaurus health ncithesaurus EVS/
Mouse pathology health MPATH mpath.obo
Vaccine ontology health VO vo   [Tracker]
The Drug Ontology health DRON dron.owl   [Tracker]
Symptom Ontology health SYMP gemina_symptom.obo
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 Cell neuroscience NIF_Cell NIF-Cell.owl
NIF Dysfunction neuroscience NIF_Dysfunction NIF-Dysfunction.owl
human phenotype ontology phenotype HP human-phenotype-ontology.obo   [Tracker]
Fission Yeast Phenotype Ontology phenotype FYPO fypo.obo?format=raw   [Tracker]
C. elegans phenotype phenotype WBPhenotype wbphenotype.obo
Plant Trait Ontology phenotype TO trait.obo?view=co   [Tracker]
Ontology of Biological Attributes phenotype OBA oba.owl
Ascomycete phenotype ontology phenotype APO ascomycete_phenotype.obo 2014/06/30
Units of measurement phenotype UO unit.obo
Mammalian phenotype phenotype MP MPheno_OBO.ontology   [Tracker]
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]
Fly taxonomy taxonomy FBsp fly_taxonomy.obo   [Tracker] 2007/04/10
Taxonomic rank vocabulary taxonomy TAXRANK taxrank.obo
Teleost taxonomy taxonomy TTO teleost_taxonomy.obo   [Tracker] 2012/07/19
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 Fri Oct 17 23:59:10 2014