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
Cellular component anatomy GO go.obo   [Tracker]
Plant Ontology anatomy and development PO plant_ontology.obo?view=co   [Tracker]
Biological process biological process GO go.obo   [Tracker]
Molecular function biological function GO go.obo   [Tracker]
Zebrafish anatomy and development anatomy ZFA zfa.obo   [Tracker]
Chemical entities of biological interest biochemistry CHEBI chebi.obo   [Tracker]
Ontology for biomedical investigations experiments OBI obi.owl   [Tracker]
PRotein Ontology (PRO) proteins PR pro.obo   [Tracker]
Phenotypic quality phenotype PATO quality.obo   [Tracker]
Xenopus anatomy and development anatomy XAO xenopus_anatomy.obo   [Tracker]
OBO Foundry candidate ontologies and other ontologies of interest
Title Domain Prefix File Last changed
Infectious disease health IDO ido.owl   [Tracker]
Vertebrate Skeletal Anatomy Ontology anatomy VSAO vsao.obo   [Tracker]
The Ontology of Genes and Genomes OGG ogg.owl   [Tracker]
NCI Thesaurus health ncithesaurus EVS/
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
C. elegans phenotype phenotype WBPhenotype wbphenotype.obo
Ontology for General Medical Science medicine OGMS ogms.owl   [Tracker]
Drosophila Phenotype Ontology FBcv dpo.owl
Influenza Ontology health FLU flu.owl   [Tracker]
Biological Spatial Ontology anatomy BSPO bspo.obo   [Tracker]
RNA ontology molecular structure RNAO rnao.obo
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
Beta Cell Genomics Ontology BCGO bcgo.owl   [Tracker]
Kinetic Simulation Algorithm Ontology algorithms KISAO KISAO   [Tracker]
Uber anatomy ontology, basic version anatomy uberon-basic basic.obo
Mosquito insecticide resistance environment MIRO miro.obo
Protein covalent bond proteins RESID RESIDUES.XML
Adverse Event Reporting Ontology health AERO aero.owl
Relation ontology all RO ro.owl
Mass spectrometry experiments MS psi-ms.obo
Lipid Ontology lipids LiPrO LipidOntology
microRNA Ontology miRNAO mirnao.owl
Zebrafish developmental stages anatomy ZFS zfs.obo
Comparative Data Analysis Ontology CDAO cdao.owl
eagle-i resource ontology resources ERO ero.owl   [Tracker]
Plant Trait Ontology phenotype TO trait.obo?view=co   [Tracker]
Foundational Model of Anatomy (subset) anatomy FMA fma.obo   [Tracker]
Porifera Ontology anatomy PORO poro.owl   [Tracker]
Fission Yeast Phenotype Ontology phenotype FYPO fypo.obo?format=raw   [Tracker]
Plant Environmental Conditions environment EO environment_ontology.obo
homology_ontology HOM homology_ontology.obo
verteberate Homologous Organ Groups anatomy vHOG vHOG.obo
Vertebrate Taxonomy Ontology VTO vto.owl   [Tracker]
Population and Community Ontology PCO pco.owl   [Tracker]
Mammalian phenotype phenotype MP MPheno_OBO.ontology   [Tracker]
Physico-chemical process REX rex.obo
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
C. elegans development anatomy WBls worm_development.obo
Tick gross anatomy anatomy TADS tads.obo
Ontology of Vaccine Adverse Events OVAE ovae.owl
Mouse gross anatomy and development, timed anatomy EMAP EMAP_combined.obo
Emotion Ontology health MFOEM mfoem.owl   [Tracker]
Basic Formal Ontology upper BFO 1.1
NIF Cell neuroscience NIF_Cell NIF-Cell.owl
Sample processing and separation techniques provenance SEP sep.obo
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
Uber anatomy ontology anatomy UBERON ext.owl   [Tracker]
Ontology of Genetic Susceptibility Factor OGSF ogsf.owl   [Tracker]
NIF Dysfunction neuroscience NIF_Dysfunction NIF-Dysfunction.owl
Ontology for Parasite LifeCycle OPL opl.owl   [Tracker]
Ontology of Medically Related Social Entities medicine OMRSE omrse.owl
Symptom Ontology health SYMP gemina_symptom.obo
Systems Biology biochemistry SBO SBO_OBO.obo   [Tracker]
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 ehdaa2.obo
Sequence types and features biological sequence SO so-xp.obo?format=raw   [Tracker]
C. elegans gross anatomy anatomy WBbt wbbt.obo   [Tracker]
Malaria Ontology health IDOMAL idomal.obo
Biological Collections Ontology BCO bco.owl   [Tracker]
Epidemiology Ontology EPO epo.owl
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
Ontology of Adverse Events adverse events, health OAE oae.owl
Ontology of Biological Attributes phenotype OBA oba.owl
Mouse gross anatomy and development, abstract anatomy EMAPA EMAPA.obo
Geographical Entity Ontology GEO geo.owl   [Tracker]
Physico-chemical methods and properties FIX fix.obo
Neuro Behavior Ontology behavior NBO behavior.owl   [Tracker]
Evidence codes experiments ECO eco.obo
Exposure ontology health ExO CTD_exposure_ontology.obo
Environment Ontology environment ENVO envo-basic.obo   [Tracker]
Variation Ontology VariO vario.obo
MIAPA Ontology MIAPA miapa.owl   [Tracker]
human phenotype ontology phenotype HP human-phenotype-ontology.obo   [Tracker]
Mosquito gross anatomy anatomy TGMA tgma.obo
Protein-protein interaction experiments MI psi-mi25.obo
Mathematical modeling ontology MAMO mamo-xml.owl   [Tracker]
Ontology for MIRNA Target Prediction OMIT OMIT.owl
Ontology for genetic interval OGI ogi.owl   [Tracker]
Information Artifact Ontology information IAO iao.owl   [Tracker]
Pathway ontology biological process PW pathway.obo
Pathogen transmission health TRANS transmission_process.obo   [Tracker]
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
Software ontology SWO swo_merged.owl
Platynereis stage ontology anatomy PD_ST Pdu_Stages.obo
Mouse adult gross anatomy anatomy MA ma.obo   [Tracker]
Mouse pathology health MPATH mpath.obo
Units of measurement phenotype UO unit.obo
The Drug Ontology health DRON dron.owl   [Tracker]
Taxonomic rank vocabulary taxonomy TAXRANK taxrank.obo
Mental Functioning Ontology MF mf.owl   [Tracker]
Vaccine ontology health VO vo   [Tracker]
Cell Line Ontology CLO clo.owl
Protein modification proteins MOD PSI-MOD.obo
Chemical Methods Ontology health CHMO chmo.owl   [Tracker]
Drosophila gross anatomy anatomy FBbt fbbt.obo   [Tracker]
Microarray experimental conditions experiments MO MGEDOntology.owl
Human disease ontology health DOID doid.obo   [Tracker]
Cell type anatomy CL cl.owl   [Tracker]
Chemical Information Ontology biochemistry CHEMINF cheminf.owl
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 dictyostelium_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 Fri Oct 17 23:59:10 2014