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