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
Zebrafish anatomy and development anatomy ZFA zebrafish_anatomy.obo   [Tracker] 2013/04/12
Cellular component anatomy GO go.obo   [Tracker]
Xenopus anatomy and development anatomy XAO xenopus_anatomy_edit.obo   [Tracker]
Chemical entities of biological interest biochemistry CHEBI chebi.obo   [Tracker]
Molecular function biological function GO go.obo   [Tracker]
Biological process biological process 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
Comparative Data Analysis Ontology CDAO cdao.owl
Geographical Entity Ontology GEO geo.owl
Variation Ontology VariO VariO_0.979.obo
Physico-chemical process REX rex.obo 2007/03/08
microRNA Ontology miRNAO mirnao.owl
Software ontology SWO swo_merged.owl
Cell Line Ontology CLO clo.owl
Mental Functioning Ontology MF mf.owl   [Tracker]
Ontology for Parasite LifeCycle OPL opl.owl   [Tracker]
MIAPA Ontology MIAPA miapa.owl   [Tracker]
homology_ontology HOM homology_ontology.obo
Ontology of Adverse Events adverse events, health OAE oae.owl
Kinetic Simulation Algorithm Ontology algorithms KISAO KISAO   [Tracker]
Relation ontology all RO ro.owl
OBO relationship types (legacy) all OBO_REL ro.obo   [Tracker] 2010/06/07
Porifera Ontology anatomy PORO poro.owl   [Tracker]
Subcellular anatomy ontology anatomy SAO SAO.owl
C. elegans gross anatomy anatomy WBbt WBbt.obo   [Tracker]
Spider Ontology anatomy SPD spider_comparative_biology.obo   [Tracker] 2011/11/24
Mouse adult gross anatomy anatomy MA adult_mouse_anatomy.obo   [Tracker] 2013/03/12
Mouse gross anatomy and development anatomy EMAP EMAP.obo 2007/06/17
Amphibian gross anatomy anatomy AAO AAO_v2_edit.obo   [Tracker]
Human developmental anatomy, abstract version, v2 anatomy EHDAA2 human-dev-anat-abstract2.obo 2013/04/24
Drosophila gross anatomy anatomy FBbt fly_anatomy.obo   [Tracker] 2013/04/16
Fungal gross anatomy anatomy FAO fungal_anatomy.obo 2013/04/08
Platynereis stage ontology anatomy PD_ST Pdu_Stages.obo
Uber anatomy ontology anatomy UBERON ext.owl   [Tracker]
Bilateria anatomy anatomy BILA bilateria_mrca.obo
Vertebrate Skeletal Anatomy Ontology anatomy VSAO vsao.obo   [Tracker]
Dictyostelium discoideum anatomy anatomy DDANAT dictyostelium_anatomy.obo   [Tracker] 2013/01/19
Tick gross anatomy anatomy TADS tick_anatomy.obo 2012/03/14
Foundational Model of Anatomy (subset) anatomy FMA fma2_obo.obo   [Tracker]
Cell type anatomy CL cl.obo   [Tracker]
Terminology of Anatomy of Human Histology anatomy TAHH
Common Anatomy Reference Ontology anatomy CARO caro.obo   [Tracker] 2011/12/14
Teleost Anatomy Ontology anatomy TAO tao.obo   [Tracker]
Amphibian taxonomy anatomy ATO amphibian_taxonomy.obo
Zebrafish developmental stages anatomy ZFS zfs.obo
Terminology of Anatomy of Human Embryology anatomy TAHE
Uber anatomy ontology, basic version anatomy uberon-basic basic.obo
Spatial Ontology anatomy BSPO spatial.obo   [Tracker] 2013/05/17
C. elegans development anatomy WBls worm_development.obo
Mosquito gross anatomy anatomy TGMA mosquito_anatomy.obo 2011/09/15
Drosophila development anatomy FBdv fly_development.obo   [Tracker] 2010/07/01
Minimal anatomical terminology anatomy MAT minimal_anatomical_terminology.obo 2009/01/24
Anatomical Entity Ontology anatomy AEO aeo.obo 2012/06/01
Hymenoptera Anatomy Ontology anatomy HAO hao.owl
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
Medaka fish anatomy and development anatomy MFO medaka_ontology.obo 2005/11/08
verteberate Homologous Organ Groups anatomy vHOG vHOG.obo
Plant Ontology anatomy and development PO plant_ontology.obo?view=co   [Tracker]
Dendritic cell anatomy,immunology DC_CL DC-CL_deployed.obo 2009/06/30
Neuro Behavior Ontology behavior NBO behavior.owl   [Tracker]
Chemical Information Ontology biochemistry CHEMINF cheminf.owl
Systems Biology biochemistry SBO SBO_OBO.obo   [Tracker]
Pathway ontology biological process PW pathway.obo
Event (INOH pathway ontology) biological process IEV EventOntology.obo
Sequence types and features biological sequence SO so.obo   [Tracker] 2012/11/01
Plant Environmental Conditions environment EO environment_ontology.obo
Mosquito insecticide resistance environment MIRO mosquito_insecticide_resistance.obo 2013/03/08
Environment Ontology environment ENVO envo-basic.obo   [Tracker]
Biological imaging methods experiments FBbi image.obo 2011/05/24
Evidence codes experiments ECO eco.obo
eVOC (Expressed Sequence Annotation for Humans) experiments EV evoc_v2.7_obo.tar.gz
Mass spectrometry experiments MS psi-ms.obo
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
Microarray experimental conditions experiments MO MGEDOntology.owl
Protein-protein interaction experiments MI psi-mi25.obo
Ontology for biomedical investigations experiments OBI obi.owl   [Tracker]
Gene Regulation Ontology genomic BOOTStrep GRO_latest
Vaccine ontology health VO vo   [Tracker]
Chemical Methods Ontology health CHMO chmo.owl   [Tracker]
The Drug Ontology health DRON dron.owl   [Tracker]
Symptom Ontology health SYMP gemina_symptom.obo
Population and Community Ontology health PCO pco.owl   [Tracker]
Suggested Ontology for Pharmacogenomics health SOPHARM sopharm
Emotion Ontology health MFOEM mfoem.owl   [Tracker]
Pathogen transmission health TRANS transmission_process.obo   [Tracker]
Malaria Ontology health IDOMAL IDOMAL.obo
Mouse pathology health MPATH mpath.obo
Cardiovascular Disease Ontology health CVDO cvdo.owl   [Tracker]
NCI Thesaurus health ncithesaurus EVS/
Human disease ontology health DOID HumanDO.obo   [Tracker]
Infectious disease health IDO ido.owl   [Tracker]
Adverse Event Reporting Ontology health AERO aero.owl
Exposure ontology health ExO CTD_exposure_ontology.obo
Influenza Ontology health FLU flu.owl   [Tracker]
Information Artifact Ontology information IAO iao.owl   [Tracker]
Lipid Ontology lipids LiPrO LipidOntology
Ontology for General Medical Science medicine OGMS ogms.owl   [Tracker]
Ontology of Medically Related Social Entities medicine OMRSE omrse.owl
RNA ontology molecular structure RNAO rnao.obo
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
Ascomycete phenotype ontology phenotype APO ascomycete_phenotype.obo 2013/05/02
Mammalian phenotype phenotype MP MPheno_OBO.ontology   [Tracker]
Fission Yeast Phenotype Ontology phenotype FYPO fypo.obo?format=raw   [Tracker]
human phenotype ontology phenotype HP human-phenotype-ontology.obo   [Tracker]
C. elegans phenotype phenotype WBPhenotype worm_phenotype.obo 2013/05/10
Units of measurement phenotype UO unit.obo
Plant Trait Ontology phenotype TO trait.obo?view=co   [Tracker]
Molecule role (INOH Protein name/family name ontology) proteins IMR MoleculeRoleOntology.obo
Protein covalent bond proteins RESID RESIDUES.XML
Proteomics data and process provenance proteins ProPreO ProPreO-060506.owl
Protein modification proteins MOD PSI-MOD.obo
Sample processing and separation techniques provenance SEP sep.obo
eagle-i resource ontology resources ERO ero.owl   [Tracker]
Teleost taxonomy taxonomy TTO teleost_taxonomy.obo   [Tracker] 2012/07/19
Fly taxonomy taxonomy FBsp fly_taxonomy.obo   [Tracker] 2007/04/10
Taxonomic rank vocabulary taxonomy TAXRANK taxonomic_rank.obo
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
Basic Formal Ontology upper BFO 1.1

Last updated Wed May 22 01:00:07 2013