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
Chemical entities of biological interest biochemistry CHEBI chebi.obo   [Tracker]
Phenotypic quality phenotype PATO quality.obo   [Tracker]
Cellular component anatomy GO go.obo   [Tracker]
Xenopus anatomy and development anatomy XAO xenopus_anatomy_edit.obo   [Tracker]
Biological process biological process GO go.obo   [Tracker]
PRotein Ontology (PRO) proteins PR pro.obo   [Tracker]
Molecular function biological function GO go.obo   [Tracker]
Zebrafish anatomy and development anatomy ZFA zebrafish_anatomy.obo   [Tracker] 2013/04/12
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]
Subcellular anatomy ontology anatomy SAO SAO.owl
Plant Ontology anatomy and development PO plant_ontology.obo?view=co   [Tracker]
C. elegans gross anatomy anatomy WBbt WBbt.obo   [Tracker]
Chemical Information Ontology biochemistry CHEMINF cheminf.owl
Relation ontology all RO ro.owl
Plant Environmental Conditions environment EO environment_ontology.obo
Geographical Entity Ontology GEO geo.owl
Amphibian gross anatomy anatomy AAO AAO_v2_edit.obo   [Tracker]
Vaccine ontology health VO vo   [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_0.979.obo
Evidence codes experiments ECO eco.obo
Bilateria anatomy anatomy BILA bilateria_mrca.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 General Medical Science medicine OGMS ogms.owl   [Tracker]
Symptom Ontology health SYMP gemina_symptom.obo
microRNA Ontology miRNAO mirnao.owl
Ontology of Adverse Events adverse events, health OAE oae.owl
Taxonomic rank vocabulary taxonomy TAXRANK taxonomic_rank.obo
Neuro Behavior Ontology behavior NBO behavior.owl   [Tracker]
Foundational Model of Anatomy (subset) anatomy FMA fma2_obo.obo   [Tracker]
Cell type anatomy CL cl.obo   [Tracker]
Fission Yeast Phenotype Ontology phenotype FYPO fypo.obo?format=raw   [Tracker]
Terminology of Anatomy of Human Histology anatomy TAHH
Software ontology SWO swo_merged.owl
Cell Line Ontology CLO clo.owl
eVOC (Expressed Sequence Annotation for Humans) experiments EV evoc_v2.7_obo.tar.gz
Lipid Ontology lipids LiPrO LipidOntology
human phenotype ontology phenotype HP human-phenotype-ontology.obo   [Tracker]
Population and Community Ontology health PCO pco.owl   [Tracker]
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
Mass spectrometry experiments MS psi-ms.obo
Molecule role (INOH Protein name/family name ontology) proteins IMR MoleculeRoleOntology.obo
Suggested Ontology for Pharmacogenomics health SOPHARM sopharm
Mental Functioning Ontology MF mf.owl   [Tracker]
Pathway ontology biological process PW pathway.obo
Amphibian taxonomy anatomy ATO amphibian_taxonomy.obo
Ontology for Parasite LifeCycle OPL opl.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
Terminology of Anatomy of Human Embryology anatomy TAHE
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
Malaria Ontology health IDOMAL IDOMAL.obo
Units of measurement phenotype UO unit.obo
Microarray experimental conditions experiments MO MGEDOntology.owl
Mouse pathology health MPATH mpath.obo
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
Proteomics data and process provenance proteins ProPreO ProPreO-060506.owl
Uber anatomy ontology, basic version anatomy uberon-basic basic.obo
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
NCI Thesaurus health ncithesaurus EVS/
Human disease ontology health DOID HumanDO.obo   [Tracker]
NIF Gross Anatomy neuroscience NIF_GrossAnatomy NIF-GrossAnatomy.owl
C. elegans development anatomy WBls worm_development.obo
eagle-i resource ontology resources ERO ero.owl   [Tracker]
Information Artifact Ontology information IAO iao.owl   [Tracker]
Gene Regulation Ontology genomic BOOTStrep GRO_latest
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
Event (INOH pathway ontology) biological process IEV EventOntology.obo
Exposure ontology health ExO CTD_exposure_ontology.obo
Protein modification proteins MOD PSI-MOD.obo
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
Ontology for biomedical investigations experiments OBI obi.owl   [Tracker]
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
Plant Trait Ontology phenotype TO trait.obo?view=co   [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
Physico-chemical process REX rex.obo 2007/03/08
Fly taxonomy taxonomy FBsp fly_taxonomy.obo   [Tracker] 2007/04/10
Mouse gross anatomy and development anatomy EMAP EMAP.obo 2007/06/17
Minimal anatomical terminology anatomy MAT minimal_anatomical_terminology.obo 2009/01/24
Dendritic cell anatomy,immunology DC_CL DC-CL_deployed.obo 2009/06/30
OBO relationship types (legacy) all OBO_REL ro.obo   [Tracker] 2010/06/07
Drosophila development anatomy FBdv fly_development.obo   [Tracker] 2010/07/01
Biological imaging methods experiments FBbi image.obo 2011/05/24
Mosquito gross anatomy anatomy TGMA mosquito_anatomy.obo 2011/09/15
Spider Ontology anatomy SPD spider_comparative_biology.obo   [Tracker] 2011/11/24
Common Anatomy Reference Ontology anatomy CARO caro.obo   [Tracker] 2011/12/14
Tick gross anatomy anatomy TADS tick_anatomy.obo 2012/03/14
Anatomical Entity Ontology anatomy AEO aeo.obo 2012/06/01
Teleost taxonomy taxonomy TTO teleost_taxonomy.obo   [Tracker] 2012/07/19
Sequence types and features biological sequence SO so.obo   [Tracker] 2012/11/01
Dictyostelium discoideum anatomy anatomy DDANAT dictyostelium_anatomy.obo   [Tracker] 2013/01/19
Mosquito insecticide resistance environment MIRO mosquito_insecticide_resistance.obo 2013/03/08
Mouse adult gross anatomy anatomy MA adult_mouse_anatomy.obo   [Tracker] 2013/03/12
Fungal gross anatomy anatomy FAO fungal_anatomy.obo 2013/04/08
Drosophila gross anatomy anatomy FBbt fly_anatomy.obo   [Tracker] 2013/04/16
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 human-dev-anat-abstract2.obo 2013/04/24
Ascomycete phenotype ontology phenotype APO ascomycete_phenotype.obo 2013/05/02
C. elegans phenotype phenotype WBPhenotype worm_phenotype.obo 2013/05/10
Spatial Ontology anatomy BSPO spatial.obo   [Tracker] 2013/05/17

Last updated Thu May 23 01:00:10 2013