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
Biological process biological process GO go.obo   [Tracker]
Cellular component anatomy GO go.obo   [Tracker]
Chemical entities of biological interest biochemistry CHEBI chebi.obo   [Tracker]
Molecular function biological function GO go.obo   [Tracker]
Phenotypic quality phenotype PATO quality.obo   [Tracker]
PRotein Ontology (PRO) proteins PR pro.obo   [Tracker]
Xenopus anatomy and development anatomy XAO xenopus_anatomy_edit.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
Adverse Event Reporting Ontology health AERO aero.owl
Amphibian gross anatomy anatomy AAO AAO_v2_edit.obo   [Tracker]
Amphibian taxonomy anatomy ATO amphibian_taxonomy.obo
Anatomical Entity Ontology anatomy AEO aeo.obo 2012/06/01
Ascomycete phenotype ontology phenotype APO ascomycete_phenotype.obo 2013/05/02
Basic Formal Ontology upper BFO 1.1
Beta Cell Genomics Ontology BCGO bcgo.owl   [Tracker]
Bilateria anatomy anatomy BILA bilateria_mrca.obo
Biological imaging methods experiments FBbi image.obo 2011/05/24
Biological Spatial Ontology anatomy BSPO bspo.obo   [Tracker]
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
C. elegans development anatomy WBls worm_development.obo
C. elegans gross anatomy anatomy WBbt wbbt.obo   [Tracker]
C. elegans phenotype phenotype WBPhenotype wbphenotype.obo
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
Cell Line Ontology CLO clo.owl
Cell type anatomy CL cl.obo   [Tracker]
Chemical Information Ontology biochemistry CHEMINF cheminf.owl
Chemical Methods Ontology health CHMO chmo.owl   [Tracker]
Common Anatomy Reference Ontology anatomy CARO caro.obo   [Tracker] 2011/12/14
Comparative Data Analysis Ontology CDAO cdao.owl
Dendritic cell anatomy,immunology DC_CL DC-CL_deployed.obo 2009/06/30
Dictyostelium discoideum anatomy anatomy DDANAT dictyostelium_anatomy.obo   [Tracker] 2013/01/19
Drosophila development anatomy FBdv fly_development.obo   [Tracker] 2010/07/01
Drosophila gross anatomy anatomy FBbt fly_anatomy.obo   [Tracker] 2013/04/16
eagle-i resource ontology resources ERO ero.owl   [Tracker]
Emotion Ontology health MFOEM mfoem.owl   [Tracker]
Environment Ontology environment ENVO envo-basic.obo   [Tracker]
Event (INOH pathway ontology) biological process IEV EventOntology.obo
Evidence codes experiments ECO eco.obo
eVOC (Expressed Sequence Annotation for Humans) experiments EV evoc_v2.7_obo.tar.gz
Exposure ontology health ExO CTD_exposure_ontology.obo
Fission Yeast Phenotype Ontology phenotype FYPO fypo.obo?format=raw   [Tracker]
Fly taxonomy taxonomy FBsp fly_taxonomy.obo   [Tracker] 2007/04/10
Foundational Model of Anatomy (subset) anatomy FMA fma.obo   [Tracker]
Fungal gross anatomy anatomy FAO fungal_anatomy.obo 2013/04/08
Gene Regulation Ontology genomic BOOTStrep GRO_latest
Geographical Entity Ontology GEO geo.owl   [Tracker]
homology_ontology HOM homology_ontology.obo
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 human-dev-anat-abstract2.obo 2013/04/24
Human disease ontology health DOID doid.obo   [Tracker]
human phenotype ontology phenotype HP human-phenotype-ontology.obo   [Tracker]
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
Infectious disease health IDO ido.owl   [Tracker]
Influenza Ontology health FLU flu.owl   [Tracker]
Information Artifact Ontology information IAO iao.owl   [Tracker]
Kinetic Simulation Algorithm Ontology algorithms KISAO KISAO   [Tracker]
Lipid Ontology lipids LiPrO LipidOntology
Malaria Ontology health IDOMAL idomal.obo
Mammalian phenotype phenotype MP MPheno_OBO.ontology   [Tracker]
Mass spectrometry experiments MS psi-ms.obo
Medaka fish anatomy and development anatomy MFO medaka_ontology.obo 2005/11/08
Mental Functioning Ontology MF mf.owl   [Tracker]
MIAPA Ontology MIAPA miapa.owl   [Tracker]
Microarray experimental conditions experiments MO MGEDOntology.owl
microRNA Ontology miRNAO mirnao.owl
Minimal anatomical terminology anatomy MAT minimal_anatomical_terminology.obo 2009/01/24
Molecule role (INOH Protein name/family name ontology) proteins IMR MoleculeRoleOntology.obo
Mosquito gross anatomy anatomy TGMA tgma.obo
Mosquito insecticide resistance environment MIRO miro.obo
Mouse adult gross anatomy anatomy MA ma.obo   [Tracker]
Mouse gross anatomy and development anatomy EMAP EMAP.obo 2007/06/17
Mouse pathology health MPATH mpath.obo
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
NCI Thesaurus health ncithesaurus EVS/
Neuro Behavior Ontology behavior NBO behavior.owl   [Tracker]
NIF Cell neuroscience NIF_Cell NIF-Cell.owl
NIF Dysfunction neuroscience NIF_Dysfunction NIF-Dysfunction.owl
NIF Gross Anatomy neuroscience NIF_GrossAnatomy NIF-GrossAnatomy.owl
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
OBO relationship types (legacy) all OBO_REL ro.obo   [Tracker] 2010/06/07
Ontology for biomedical investigations experiments OBI obi.owl   [Tracker]
Ontology for General Medical Science medicine OGMS ogms.owl   [Tracker]
Ontology for genetic interval OGI ogi.owl   [Tracker]
Ontology for Parasite LifeCycle OPL opl.owl   [Tracker]
Ontology of Adverse Events adverse events, health OAE oae.owl
Ontology of Genetic Susceptibility Factor OGSF ogsf.owl   [Tracker]
Ontology of Medically Related Social Entities medicine OMRSE omrse.owl
Pathogen transmission health TRANS transmission_process.obo   [Tracker]
Pathway ontology biological process PW pathway.obo
Physico-chemical process REX rex.obo 2007/03/08
Plant Environmental Conditions environment EO environment_ontology.obo
Plant Ontology anatomy and development PO plant_ontology.obo?view=co   [Tracker]
Plant Trait Ontology phenotype TO trait.obo?view=co   [Tracker]
Platynereis stage ontology anatomy PD_ST Pdu_Stages.obo
Population and Community Ontology PCO pco.owl   [Tracker]
Porifera Ontology anatomy PORO poro.owl   [Tracker]
Protein covalent bond proteins RESID RESIDUES.XML
Protein modification proteins MOD PSI-MOD.obo
Protein-protein interaction experiments MI psi-mi25.obo
Proteomics data and process provenance proteins ProPreO ProPreO-060506.owl
Relation ontology all RO ro.owl
RNA ontology molecular structure RNAO rnao.obo
Sample processing and separation techniques provenance SEP sep.obo
Sequence types and features biological sequence SO so.obo   [Tracker] 2012/11/01
Software ontology SWO swo_merged.owl
Spider Ontology anatomy SPD spider_comparative_biology.obo   [Tracker] 2011/11/24
Subcellular anatomy ontology anatomy SAO SAO.owl
Suggested Ontology for Pharmacogenomics health SOPHARM sopharm
Symptom Ontology health SYMP gemina_symptom.obo
Systems Biology biochemistry SBO SBO_OBO.obo   [Tracker]
Taxonomic rank vocabulary taxonomy TAXRANK taxonomic_rank.obo
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
Teleost taxonomy taxonomy TTO teleost_taxonomy.obo   [Tracker] 2012/07/19
Terminology of Anatomy of Human Embryology anatomy TAHE
Terminology of Anatomy of Human Histology anatomy TAHH
The Drug Ontology health DRON dron.owl   [Tracker]
Tick gross anatomy anatomy TADS tads.obo
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
Vaccine ontology health VO vo   [Tracker]
Variation Ontology VariO vario.obo
verteberate Homologous Organ Groups anatomy vHOG vHOG.obo
Vertebrate Skeletal Anatomy Ontology anatomy VSAO vsao.obo   [Tracker]
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.obo   [Tracker] 2012/04/23

Last updated Wed Jun 19 01:00:08 2013