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