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 candidate ontologies
Title Domain Prefix File Last changed
Amphibian gross anatomy anatomy AAO amphibian_anatomy.obo 2008/06/19
Ascomycete phenotype ontology phenotype APO ascomycete_phenotype.obo 2009/06/25
Biological process biological process GO gene_ontology_edit.obo   [Tracker] 2009/07/02
C. elegans development anatomy WBls worm_development.obo 2008/01/31
C. elegans gross anatomy anatomy WBbt WBbt.obo   [Tracker] 2009/06/18
C. elegans phenotype phenotype WBPhenotype worm_phenotype.obo 2009/06/30
Cell type anatomy CL cell.obo   [Tracker] 2008/12/09
Cellular component anatomy GO gene_ontology_edit.obo   [Tracker] 2009/07/02
Cereal plant trait phenotype TO plant_trait.obo   [Tracker] 2009/05/08
Chemical entities of biological interest biochemistry CHEBI chebi.obo   [Tracker] 2009/06/24
Common Anatomy Reference Ontology anatomy CARO caro.obo   [Tracker] 2007/06/17
Dictyostelium discoideum anatomy anatomy DDANAT dictyostelium_anatomy.obo   [Tracker] 2008/05/29
Drosophila development anatomy FBdv fly_development.obo   [Tracker] 2008/12/11
Drosophila gross anatomy anatomy FBbt fly_anatomy.obo   [Tracker] 2009/03/17
Environment Ontology environment ENVO envo.obo   [Tracker] 2009/05/20
Evidence codes experiments ECO evidence_code.obo 2009/03/20
Fly taxonomy taxonomy FBsp fly_taxonomy.obo   [Tracker] 2007/04/10
Foundational Model of Anatomy (subset) anatomy FMA fma2_obo.obo   [Tracker]
Fungal gross anatomy anatomy FAO fungal_anatomy.obo 2009/03/31
Human developmental anatomy, abstract version anatomy EHDAA human-dev-anat-abstract.obo 2007/06/17
Human developmental anatomy, timed version anatomy EHDA human-dev-anat-staged.obo 2007/06/17
Human disease health DOID human_disease.obo   [Tracker] 2009/07/02
Infectious disease health IDO infectious_disease.obo 2009/02/27
Mammalian phenotype phenotype MP mammalian_phenotype.obo   [Tracker] 2009/06/25
Mass spectrometry experiments MS psi-ms.obo
Medaka fish anatomy and development anatomy MFO medaka_ontology.obo 2005/11/08
Molecular function biological function GO gene_ontology_edit.obo   [Tracker] 2009/07/02
Mosquito gross anatomy anatomy TGMA mosquito_anatomy.obo 2009/02/05
Mosquito insecticide resistance environment MIRO mosquito_insecticide_resistance.obo 2009/07/02
Mouse adult gross anatomy anatomy MA adult_mouse_anatomy.obo 2009/04/12
Mouse gross anatomy and development anatomy EMAP EMAP.obo 2007/06/17
Mouse pathology health MPATH mouse_pathology.obo 2009/03/13
NMR-instrument specific component of metabolomics investigations experiments NMR NMR.owl
OBO relationship types all OBO_REL ro.obo   [Tracker] 2009/03/20
Ontology for biomedical investigations experiments OBI obi.owl   [Tracker]
Pathogen transmission health TRANS transmission_process.obo   [Tracker] 2009/05/28
Phenotypic quality phenotype PATO quality.obo   [Tracker] 2009/07/01
Plant growth and developmental stage anatomy PO po_temporal.obo   [Tracker] 2008/06/11
Plant structure anatomy PO po_anatomy.obo   [Tracker] 2009/04/03
Protein modification proteins MOD PSI-MOD.obo
PRotein Ontology (PRO) proteins PRO pro.obo   [Tracker] 2009/06/24
Protein-protein interaction experiments MI psi-mi25.obo
Sequence types and features biological sequence SO so.obo   [Tracker] 2009/06/30
Spatial Ontology anatomy BSPO spatial.obo 2009/06/16
Spider Ontology anatomy SPD spider_comparative_biology.obo   [Tracker] 2009/06/26
Subcellular anatomy ontology anatomy SAO SAO.owl
Suggested Ontology for Pharmacogenomics health SOPHARM sopharm
Systems Biology biochemistry SBO SBO_OBO.obo   [Tracker]
Teleost anatomy and development anatomy TAO teleost_anatomy.obo   [Tracker] 2009/06/26
Teleost taxonomy taxonomy TTO teleost_taxonomy.obo   [Tracker] 2009/06/30
Tick gross anatomy anatomy TADS tick_anatomy.obo 2007/12/13
Units of measurement phenotype UO unit.obo 2009/03/23
Xenopus anatomy and development anatomy XAO xenopus_anatomy.obo 2009/05/12
Zebrafish anatomy and development anatomy ZFA zebrafish_anatomy.obo   [Tracker] 2009/02/26
Other ontologies and terminologies of interest
Title Domain Prefix File Last changed
Bilateria anatomy anatomy BILA bilateria_mrca.obo
Biological imaging methods experiments FBbi image.obo 2005/08/19
BRENDA tissue / enzyme source anatomy BTO BrendaTissueOBO
Dendritic cell anatomy,immunology DC_CL DC-CL_deployed.obo 2009/06/30
Event (INOH pathway ontology) biological process IEV Event Ontology Download
eVOC (Expressed Sequence Annotation for Humans) experiments EV evoc_v2.7_obo.tar.gz
Gene Regulation Ontology genomic BOOTStrep GRO_latest
human phenotype ontology phenotype HP human_phenotype.obo   [Tracker] 2009/07/01
Lipid Ontology lipids LiPrO LipidOntology
Microarray experimental conditions experiments MO MGEDOntology.owl
Minimal anatomical terminology anatomy MAT minimal_anatomical_terminology.obo 2009/01/24
Molecule role (INOH Protein name/family name ontology) proteins IMR molecule_role.obo
NCBI organismal classification taxonomy NCBITaxon taxonomy.dat
NCI Thesaurus health NCIt EVS ftp site
NIF Dysfunction neuroscience NIF_Dysfunction NIF-Dysfunction.owl
NIF Gross Anatomy neuroscience NIF_GrossAnatomy NIF-GrossAnatomy.owl
Pathway ontology biological process PW pathway.obo
Physico-chemical methods and properties FIX fix.obo
Physico-chemical process REX rex.obo 2007/03/08
Plant environmental conditions environment EO environment_ontology.obo 2009/01/09
Plasmodium life cycle anatomy PLO PLO_ontology.txt
Protein covalent bond proteins RESID RESIDUES.XML
Protein Domains proteins IPR InterPro FTP directory
Proteomics data and process provenance proteins ProPreO ProPreO-060506.owl
Sample processing and separation techniques provenance SEP sep.obo
Symptom Ontology health SYMP gemina_symptom.obo
Uber anatomy ontology anatomy UBERON uberon.obo 2009/05/04

Last updated Thu Jul 2 01:00:02 2009