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List of OBO Foundry ontologies

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This is a list of ontologies that are part of the OBO Foundry as of January 2020.

OBO Foundry ontologies

[edit]
Title Prefix Description Official page
Agronomy Ontology AGRO Ontology of concepts relevant to agronomy experiments. [1]
An ontology of core ecological entities ECOCORE An ontology for ecological entities. [2]
Anatomical Entity Ontology AEO Ontology of anatomical structures that expand CARO, the Common Anatomy Reference Ontology. [3]
Antibiotic Resistance Ontology ARO Ontology for antibiotic resistance genes and mutations. [4]
Apollo Structured Vocabulary [1] APOLLO-SV Ontology for enabling interoperability of epidemic models and public health application software.
[5]
Ascomycete phenotype ontology APO A structured controlled vocabulary for the phenotypes of Ascomycete fungi. [6]
Basic Formal Ontology[2] BFO The upper-level ontology upon which OBO Foundry ontologies are built. [7]
Beta Cell Genomics Ontology BCGO An application ontology built for beta cell genomic studies. [8]
Biological Collections Ontology [3] BCO An ontology for biodiversity data. [9]
Biological Imaging Methods Ontology FBBI Ontology for methods involved in biomedical imaging, including preparation and acquisition. [10]
Biological Spatial Ontology BSPO An ontology for representing spatial concepts used in biology. [11]
BRENDA tissue / enzyme source BTO An ontology for the source of enzymes. [12]
C. elegans development ontology (see WormBase) WBLS An ontology for the development of Caenorhabditis elegans. [13]
C. elegans Gross Anatomy Ontology (see WormBase) WBBT An ontology for the anatomy of Caenorhabditis elegans. [14]
C. elegans phenotype (see WormBase) WBPHENOTYPE An ontology for the phenotypes of Caenorhabditis elegans. [15]
Cardiovascular Disease Ontology CVDO An ontology for concepts related to cardiovascular diseases. [16]
[17]
Cell Line Ontology [4] CLO Ontology to describe cell lines. [18]
[19]
Cell Ontology [5] CL Ontology for metazoan cell types. [20]
[21]
Chemical Entities of Biological Interest CHEBI Ontology of small molecular entities of biological interest. [22]
Chemical Information Ontology [6] CHEMINF Ontology for descriptors used in chemoinformatics databases. [23]
[24]
Chemical Methods Ontology CHMO An ontology for the methods used in chemical experiments. [25]
Clinical LABoratory Ontology LABO An ontology of prescriptions and reports in clinical laboratories. [26]
Clinical measurement ontology [7] CMO Ontology to classify clinical measurements of experimental animals. [27]
Common Anatomy Reference Ontology [8] CARO An ontology to improve interoperability between anatomy ontologies for different organisms.
[28]
Comparative Data Analysis Ontology [9] CDAO Ontology of concepts and relations relevant to evolutionary comparative analysis, such as phylogenetic trees. [29]
[30]
Confidence Information Ontology [10] CIO An ontology to describe confidence information in sequence annotations. [31]
Contributor Role Ontology CRO An ontology for the diverse roles behind a scientific research article. [32]
[33]
Ctenophore Ontology CTENO An anatomical and developmental ontology for ctenophores (Comb Jellies). [34]
Dictyostelium discoideum anatomy[11] DDANAT A structured controlled vocabulary of the anatomy of the slime-mold Dictyostelium discoideum. [35]
Dictyostelium discoideum phenotype ontology DDPHENO An ontology for phenotypes of the slime-mould Dictyostelium discoideum. [36]
Drosophila development FBDV An ontology of the development of Drosophila melanogaster. [37]
Drosophila gross anatomy[12] FBBT An ontology for the anatomy of Drosophila melanogaster. [38]
Drosophila Phenotype Ontology FBCV An ontology of common Drosophila phenotypes. [39]
Drug-drug Interaction and Drug-drug Interaction Evidence Ontology [13] DIDEO Ontology for drug–drug interaction evidence. [40]
Evidence & Conclusion Ontology[14] ECO An ontology for types evidence used to support scientific claims. [41]
eagle-i resource ontology ERO An ontology of research equipment, protocols and consumables. [42]

[43]

Emotion Ontology [15] MFOEM An ontology of emotions, moods, and other kinds of feelings. [44]
Environment Ontology [16] ENVO Ontology of environmental features and habitats.
[45]
Experimental condition ontology [17] XCO An ontology for the different conditions in which experimental measurements are taken. [46]
Exposure Ontology [18] EXO Ontology to describe exposure to environmental factors (such as cigarette smoke) that might influence clinical outcomes. [47]
Fission Yeast Phenotype Ontology[19] FYPO An ontology of phenotypes of fission yeast. [48]
[49]
Flora Phenotype Ontology [20] FLOPO An ontology for traits and phenotypes of flowering plants. [50]
FlyBase Controlled Vocabulary FBCV An ontology to support the FlyBase project. [51]
Food Ontology [21] FOODON An ontology to represent entities that play a food role or related to foods. [52]
Foundational Model of Anatomy Ontology (subset) FMAO Subset of the Foundational Model of Anatomy Ontology. [53]
Fungal Anatomy Ontology FAO An ontology for the anatomy of fungi. [54]
Gazetteer GAZ An ontology that acts as a gazetteer (geographical dictionary). [55]
Gene Ontology GO An ontology for describing the function of genes and gene products. [56]
[57]
Genomic Epidemiology Ontology [22] GENEPIO An ontology for foodborne pathogens and associated outbreaks. [58]
Genotype Ontology GENO An ontology for genotypes and their related phenotypes and diseases. [59]
Geographical Entity Ontology GEO An ontology of geographical entities. [60]
Glycan Naming Ontology [23] GNOME An ontology for glycans based on GlyTouCan. [61]
Homology Ontology [24] HOM An ontology for concepts related to homology. [62]
Human Ancestry Ontology [25] HANCESTRO An ontology of ancestry concepts used in the NHGRI-EBI Catalog of published genome-wide association studies. [63]
Human Developmental Stages HSAPDV An ontology of stages of the human life. [64]
Human Disease Ontology DO An ontology for describing human diseases. [65]
Human Phenotype Ontology HPO An ontology for human phenotypes in hereditary and non-hereditary diseases. [66]
[67]
HUPO-PSI cross-linking and derivatization reagents controlled vocabulary PSI-MS An ontology for reagents used to cross-link molecules in mass spectrometry experiments. [68]
Hymenoptera Anatomy Ontology [26] HAO An ontology of the anatomy of the Hymenoptera (bees, wasps, and ants). [69]
Hypertension Ontology HTN An ontology for clinical data about hypertension. [70]
Infectious Disease Ontology [27] IDO A set of ontologies related to infectious diseases. [71]
Information Artifact Ontology [28] IAO An ontology of information entities. [72]
Informed Consent Ontology ICO An ontology for concepts related to informed consent, such as forms and policies. [73]
Integrative and Conjugative Element Ontology ICEO An ontology of bacterial integrative and conjugative elements (ICEs). [74]
Interaction Network Ontology [29] INO An ontology for gene-gene interactions. [75]
Malaria Ontology [30] IDOMAL An ontology for concepts related to malaria.
[76]
Mammalian Feeding Muscle Ontology MFMO An ontology for the mammalian muscles that play a role in feeding behavior. [77]
Mammalian Phenotype Ontology MP Standard terms for annotating mammalian phenotypic data. [78]
Mass spectrometry ontology MI An ontology for concepts to describe mass spectrometry in the context of proteomics. [79]
Measurement method ontology MMO An ontology for methods of clinical and laboratory measurements. [80]
Medaka Developmental Stages OlatDv An ontology of life stages for the medaka fish. [81]
Mental Disease Ontology [31] MFOMD An ontology for mental diseases. [82]
Mental Functioning Ontology [31] MFO An ontology for concepts related to mental functioning. [83]
[84]
MHC Restriction Ontology [32] MRO An ontology for Major Histocompatibility Complex (MHC) restriction in experiments. [85]
MIAPA Ontology [33] MIAPA An ontology for phylogenetic data. [86]
Microbial Conditions Ontology [34] MCO An ontology for microbial growth conditions. [87]
Minimum PDDI Information Ontology MPIO An ontology of the minimum information to describe drug–drug interactions. [88]
Molecular Interactions Controlled Vocabulary MI An ontology for concepts related to the study of protein-protein interactions. [89]
Mondo Disease Ontology MONDO An ontology for the integration of information on disease. [90]
Mosquito gross anatomy ontology (VectorBase) TGMA An ontology for the anatomy of mosquitoes. [91]
Mouse adult gross anatomy ontology EMAPA An ontology for the adult anatomy of the mouse (Mus). [92]
Mouse Developmental Stages MmusDv An ontology of stages of the mouse (Mus) life. [93]
Mouse gross anatomy and development, timed EMAP Ontology of anatomical structures of the mouse (Mus musculus). [94]
Mouse Pathology Ontology [35] MPATH An ontology of mouse pathology phenotypes. [95]
Name Reaction Ontology RXNO An ontology for organic reactions in organic synthesis. [96]
NCBI organismal classification [36] NCBITaxon An ontology representation of the NCBI organismal taxonomy. [97]
Neuro Behavior Ontology NBO An ontology of behavioral phenotypes of animals. [98]
NOMEN - A nomenclatural ontology for biological names [37] NOMEN An ontology of the rules of nomenclature for biological names. [99]
Non-Coding RNA Ontology [38] NCRO An ontology for non-coding RNA function. [100]
Ontologized MIABIS OMIABIS An ontological version of MIABIS (Minimum Information About BIobank data Sharing). [101]
Ontology for Biobanking [39] OBIB An ontology for concepts related to biobanks. [102]
Ontology for Biomedical Investigations OBI An ontology which describes biological processes, cellular components and molecular functions in living organisms. [103]
Ontology for General Medical Science OGMS An ontology for general aspects of medicine, with a focus on cancer. [104]
Ontology for Parasite LifeCycle [40] OPL A reference ontology for parasite life cycle stages. [105]
Ontology of Adverse Events [41] OAE An ontology for adverse events of drug regimens. [106]
Ontology of Arthropod Circulatory Systems [42] OARCS An ontology for the circulatory systems of arthropods. [107]
Ontology of Biological and Clinical Statistics [43] OBCS An ontology to describe statistical tools and methods used in biomedical investigation. [108]
Ontology of Biological Attributes OBA An ontology for biological traits. [109]
Ontology of Medically Related Social Entities [44] OMRSE An ontology for entities (roles and organizations) related to healthcare. [110]
[111]
Ontology of Microbial Phenotypes [45] OMP An ontology of phenotypes of microorganisms. [112]
Ontology of Organizational Structures of Trauma centers and Trauma systems OOSTT An ontology for the organizational structures of trauma centers and trauma systems. [113]
Ontology of Precision Medicine and Investigation OPMI An ontology for concepts related to precision medicine. [114]
Ontology of Prokaryotic Phenotypic and Metabolic Characters [46] MICRO An ontology of prokaryotic phenotypic and metabolic characters. [115]
Ontology of RNA Sequencing ORNASEQ An ontology to annotate RNA Sequencing experiments. [116]
Ontology of Vaccine Adverse Events [47] OVAE An ontology for adverse events of vaccines. [117]
[118]
Pathogen Host Interaction Phenotype Ontology PHIPO An ontology of phenotypes that occur in pathogen-host interactions. [119]
Pathogen Transmission Ontology TRANS An ontology for disease transmission processes. [120]
Pathway ontology PW An ontology for annotating gene products to pathways. [121]
Performance Summary Display Ontology PSDO An ontology for concepts related to performance information for teams and organizations. [122]
Phenotype And Trait Ontology FOBI FOBI (Food-Biomarker Ontology) is an ontology to represent food intake data and associate it with metabolomic data. [123]
Planaria Ontology PLANA An ontology for the anatomy and developmental stages of the planaria (Schmidtea mediterranea). [124]
Planarian Phenotype Ontology PLANP An ontology for phenotypes of the planaria (Schmidtea mediterranea). [125]
Plant Experimental Conditions Ontology PECO An ontology for concepts related to plant biology experiments. [126]
Plant ontology PO An ontology and database resource that links plant traits to genomics data. [127]
Plant Phenology Ontology PPO An ontology for describing the cyclic phenomena of plants. [128]
Plant Trait Ontology TO An ontology for phenotypic traits in plants. [129]
Platynereis Developmental Stages PDUMDV An ontology for life stages of the annelid Platynereis dumerilii. [130]
Population and Community Ontology PCO An ontology for describing groups of interacting organisms.
[131]
Porifera Ontology [48] PORO An ontology for the anatomy of sponges (Porifera) [132]
Protein modification [49] MOD An ontology for protein chemical modifications. [133]
Protein Ontology [50] PRO An ontological representation of protein-related entities. [134]
Rat Strain Ontology [51] RS An ontology for laboratorial rat strains. [135]
Relation Ontology [52] RO An ontology for relations between terms in the ontologies. [136]
Scientific Evidence and Provenance Information Ontology SEPIO An ontology for the provenance of scientific claims and supporting evidence. [137]
Sequence types and features ontology SO An ontology for annotation of sequences. [138]
Software Ontology[53] SWO An ontology to describe software applications with a focus on bioinformatics tools. [139]
Spider Ontology[54] SPD An ontology for anatomy and behavior of spiders as well as spider-derived products. [140]
Symptom Ontology SYMP An ontology of disease symptoms. [141]
Taxonomic rank vocabulary TAXRANK An ontology of taxonomic ranks in systematics. [142]
Teleost taxonomy ontology [55] TTO An ontology for the taxonomy of teleost fish. [143]
The Data Use Ontology [56] DUO Ontology for conditions of data use. [144]
The Drug Ontology [57] DRON An ontology for drug products. [145]
The Ontology of Genes and Genomes OGG An ontology of genes and genomes of biological organisms. [146]
The Oral Health and Disease Ontology [58] OHD An ontology for the content of teeth-related health records. [147]
The Prescription of Drugs Ontology [59] PDRO An ontology for concepts related to prescription of drugs. [148]
The Statistical Methods Ontology STATO An ontology for statistical methods, such as tests and experimental designs. [149]
Tick Anatomy Ontology [60] TADS An ontology for the anatomy of the tick families Ixodidae and Argasidae. [150]
Uberon multi-species anatomy ontology UBERON An integrative, cross species ontology for anatomical terms. [151]
Unified phenotype ontology (uPheno) UPHENO An ontology for unified phenotypical descriptictions. [152]
Units of measurement ontology UO An ontology of metrical units, couplet to the PATO ontology. [153]
Vaccination Informed Consent Ontology [61] VICO An ontology of clinical informed consents focused on vaccination procedures. [154]
Vaccine Ontology [62] VO An ontology for concepts related to vaccines and vaccination. [155]
Vertebrate Taxonomy Ontology VTO An ontology for the taxonomy of vertebrates. [156]
Vertebrate Trait Ontology VT An ontology for traits covering vertebrates [157]
VEuPathDB ontology EUPATH An ontology for the support of the Eukaryotic Pathogen, Host & Vector Genomics Resource. [158]
Xenopus Anatomy Ontology [63] XAO Ontology of the anatomy of the African clawed frog (Xenopus laevis).
[159]
Xenopus Phenotype Ontology XPO An ontology for anatomical, cellular, and gene function phenotypes in African clawed frogs (Xenopus laevis). [160]
Zebrafish anatomy and development ontology ZFA Ontology for the anatomy and development of the zebrafish (Danio rerio). [161]
Zebrafish developmental stages ontology ZFS An ontology for developmental stages of the zebrafish (Danio rerio). [162]
Zebrafish Experimental Conditions Ontology ZECO An ontology for experimental conditions used in zebrafish research and described in ZFIN. [163]
Zebrafish Phenotype Ontology ZP An ontology for the phenotypes of the zebrafish (Danio rerio). [164]

References

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