The registry contains metadata about ontologies, controlled vocabularies, and resources including their preferred prefix, name, description, homepage, mappings to other registries, and more.
| Name | Prefix | Description |
| Apollo Structured Vocabulary | apollosv |
Defines terms and relations necessary for interoperation between epidemic models and public health application software that interface with these models. |
| arXiv ID | arxiv |
arXiv is an e-print service in the fields of physics, mathematics, non-linear science, computer science, and quantitative biology. |
| Basic Formal Ontology | bfo |
The upper level ontology upon which OBO Foundry ontologies are built. |
| Bioregistry | bioregistry |
The Bioregistry is integrative meta-registry of biological databases, ontologies, and nomenclatures that is backed by an open database. |
| Bioregistry Collections | bioregistry.collection |
Manually curated collections of resources stored in the bioregistry. |
| Bioregistry Metaregistry | bioregistry.registry |
The Bioregistry's meta-registry. |
| Bioregistry Schema | bioregistry.schema |
Schema for the export of the Bioregistry as RDF. |
| Biological Spatial Ontology | bspo |
An ontology for respresenting spatial concepts, anatomical axes, gradients, regions, planes, sides and surfaces. |
| Common Anatomy Reference Ontology | caro |
None. |
| The COVID-19 epidemiology and monitoring ontology | cemo |
The covid-19 epidemiology and monitoring ontology (cemo) provides a common ontological model to make epidemiological quantitative data for monitoring the covid-19 outbreak machine-readable and interoperable to facilitate its exchange, integration and analysis, to eventually support evidence-based rapid response. |
| Chemical Entities of Biological Interest | chebi |
Chemical Entities of Biological Interest (ChEBI) is a freely available dictionary of molecular entities focused on 'small' chemical compounds. |
| Coronavirus Infectious Disease Ontology | cido |
The Ontology of Coronavirus Infectious Disease (CIDO) is a community-driven open-source biomedical ontology in the area of coronavirus infectious disease. |
| Cell Ontology | cl |
The Cell Ontology is designed as a structured controlled vocabulary for cell types. |
| Clinical measurement ontology | cmo |
Morphological and physiological measurement records generated from clinical and model organism research and health programs. |
| Common Core Ontologies | commoncoreontology |
The Common Core Ontologies (CCO) comprise twelve ontologies that are designed to represent and integrate taxonomies of generic classes and relations across all domains of interest.
CCO is a mid-level extension of Basic Formal Ontology (BFO), an upper-level ontology framework widely used to structure and integrate ontologies in the biomedical domain (Arp, et al., 2015). |
| CoVoc Coronavirus Vocabulary | covoc |
The COVID-19 Vocabulary (COVoc) is an ontology containing terms related to the research of the COVID-19 pandemic. |
| DBPedia Ontology | dbo |
This ontology is generated from the manually created specifications in the dbpedia mappings wiki. |
| Dublin Core | dc |
Metadata terms maintained by the Dublin Core Metadata Initiative, including properties, vocabulary encoding schemes, syntax encoding schemes, and classes. |
| Dublin Core Metadata Vocabulary | dcterms |
This document is an up-to-date specification of all metadata terms maintained by the Dublin Core Metadata Initiative, including properties, vocabulary encoding schemes, syntax encoding schemes, and classes. |
| Decentralized Biomedical Ontology | debio |
A repository for the TSV-based, decentralized, community-curated curation of terms, properties, and relations that get turned into OBO, OWL, and OBO Graph JSON. |
| Disease Drivers Ontology | disdriv |
Drivers of human diseases including environmental, maternal and social exposures. |
| Digital Object Identifier | doi |
The Digital Object Identifier System is for identifying content objects in the digital environment. |
| Human Disease Ontology | doid |
The Disease Ontology has been developed as a standardized ontology for human disease with the purpose of providing the biomedical community with consistent, reusable and sustainable descriptions of human disease terms, phenotype characteristics and related medical vocabulary disease concepts. |
| Drosophila Phenotype Ontology | dpo |
An ontology for the description of Drosophila melanogaster phenotypes. |
| The Drug Ontology | dron |
We built this ontology primarily to support comparative effectiveness researchers studying claims data. |
| Data Science Ontology | dso |
The Data Science Ontology is a research project of IBM Research AI and Stanford University Statistics. |
| Evidence ontology | eco |
Evidence codes can be used to specify the type of supporting evidence for a piece of knowledge. |
| Experimental Factor Ontology | efo |
The Experimental Factor Ontology (EFO) provides a systematic description of many experimental variables available in EBI databases. |
| Environment Ontology | envo |
The Environment Ontology is a resource and research target for the semantically controlled description of environmental entities. |
| eagle-i resource ontology | ero |
An ontology of research resources such as instruments. |
| Exposure ontology | exo |
ExO is intended to bridge the gap between exposure science and diverse environmental health disciplines including toxicology, epidemiology, disease surveillance, and epigenetics. |
| Drosophila gross anatomy | fbbt |
An ontology of Drosophila melanogaster anatomy. |
| Drosophila development | fbdv |
An ontology of Drosophila melanogaster developmental stages. |
| Foundational Model of Anatomy | fma |
The Foundational Model of Anatomy Ontology (FMA) is a biomedical informatics ontology. |
| Friend of a Friend | foaf |
FOAF is a project devoted to linking people and information using the Web. |
| The Food Ontology | foodon |
FoodOn is a comprehensive and easily accessible global farm-to-fork ontology about food that accurately and consistently describes foods commonly known in cultures from around the world. |
| Gazetteer | gaz |
A gazetteer constructed on ontological principles. |
| Genotype Ontology | geno |
GENO is an OWL model of genotypes, their more fundamental sequence components, and links to related biological and experimental entities. |
| Geographical Entity Ontology | geogeo |
An ontology and inventory of geopolitical entities such as nations and their components (states, provinces, districts, counties) and the actual physical territories over which they have jurisdiction. |
| General Formal Ontology | gfo |
The General Formal Ontology is a top-level ontology for conceptual modeling, which is being constantly further developed by Onto-Med. |
| Gene Ontology | go |
The Gene Ontology project provides a controlled vocabulary to describe gene and gene product attributes in any organism. |
| Gender, Sex, and Sexual Orientation Ontology | gsso |
The Gender, Sex, and Sexual Orientation (GSSO) ontology is an interdisciplinary ontology connecting terms from biology, medicine, psychology, sociology, and gender studies, aiming to bridge gaps between linguistic variations inside and outside of the health care environment. |
| HUGO Gene Nomenclature Committee | hgnc |
The HGNC (HUGO Gene Nomenclature Committee) provides an approved gene name and symbol (short-form abbreviation) for each known human gene. |
| Human Phenotype Ontology | hp |
The Human Phenotype Ontology (HPO) aims to provide a standardized vocabulary of phenotypic abnormalities encountered in human disease. |
| Human Developmental Stages | hsapdv |
Life cycle stages for Human. |
| Information Artifact Ontology | iao |
An ontology of information entities, originally driven by work by the Ontology of Biomedical Investigation (OBI) digital entity and realizable information entity branch. |
| Informed Consent Ontology | ico |
The Informed Consent Ontology (ICO) is an ontology for the informed consent and informed consent process in the medical field. |
| Infectious Disease Ontology | ido |
Infectious Disease Ontology holds entities relevant to both biomedical and clinical aspects of most infectious diseases. |
| The COVID-19 Infectious Disease Ontology | idocovid19 |
The COVID-19 Infectious Disease Ontology (IDO-COVID-19) is an extension of the Infectious Disease Ontology (IDO) and the Virus Infectious Disease Ontology (VIDO). |
| Malaria Ontology | idomal |
An application ontology to cover all aspects of malaria as well as the intervention attempts to control it. |
| Medical Action Ontology | maxo |
An ontology to represent medically relevant actions, procedures, therapies, interventions, and recommendations. |
| Mosquito insecticide resistance | miro |
Application ontology for entities related to insecticide resistance in mosquitos. |
| Mouse pathology ontology | mpath |
A structured controlled vocabulary of mutant and transgenic mouse pathology phenotypes. |
| Neuro Behavior Ontology | nbo |
An ontology of human and animal behaviours and behavioural phenotypes. |
| NCBI Taxonomy | ncbitaxon |
The taxonomy contains the relationships between all living forms for which nucleic acid or protein sequence have been determined. |
| NCI Thesaurus | ncit |
NCI Thesaurus (NCIt) provides reference terminology covering vocabulary for clinical care, translational and basic research, and public information and administrative activities, providing a stable and unique identification code. |
| National Drug File - Reference Terminology | ndfrt |
NDF-RT combines the NDF hierarchical drug classification with a multi-category reference model. |
| NeuroNames | neuronames |
BrainInfo is designed to help you identify structures in the brain. |
| NIF Standard Ontology: External | nif.ext |
NIFEXT covers IRIs that were "external" identifiers that were brought into the ontology at some point in time. |
| NIF Standard Ontology | nif.std |
NIFSTD is a base namespace (like obo:) which houses many other prefixes. |
| Ontology of Adverse Events | oae |
The Ontology of Adverse Eventsy (OAE) is a biomedical ontology in the domain of adverse events. |
| Ontology of Biological and Clinical Statistics | obcs |
OBCS stands for the Ontology of Biological and Clinical Statistics. |
| Ontology for Biomedical Investigations | obi |
The Ontology for Biomedical Investigations (OBI) project is developing an integrated ontology for the description of biological and clinical investigations. |
| Ontology for Biobanking | obib |
The Ontology for Biobanking (OBIB) is an ontology for the annotation and modeling of the activities, contents, and administration of a biobank. |
| Open Biological and Biomedical Ontologies | obo |
The OBO namespace is the top-level namespace used by Open Biological and Biomedical Ontology (OBO) Foundry ontologies. |
| OBO in OWL | oboinowl |
This meta-ontology is self-describing. |
| The Ontology of Genes and Genomes | ogg |
OGG is a biological ontology in the area of genes and genomes. |
| Ontology for General Medical Science | ogms |
The Ontology for General Medical Science (OGMS) is an ontology of entities involved in a clinical encounter. |
| Ontologized MIABIS | omiabis |
An ontological version of MIABIS (Minimum Information About BIobank data Sharing). |
| Online Mendelian Inheritance in Man | omim |
Online Mendelian Inheritance in Man is a catalog of human genes and genetic disorders. |
| Ontology of Medically Related Social Entities | omrse |
This ontology covers the domain of social entities that are related to health care, such as demographic information and the roles of various individuals and organizations. |
| Ontology of Precision Medicine and Investigation | opmi |
OPMI is a biomedical ontology in the area of precision medicine and its related investigations. |
| Orphanet Rare Disease Ontology | orphanet.ordo |
The Orphanet Rare Disease ontology (ORDO) is a structured vocabulary for rare diseases, capturing relationships between diseases, genes and other relevant features which will form a useful resource for the computational analysis of rare diseases. It integrates a nosology (classification of rare diseases), relationships (gene-disease relations, epiemological data) and connections with other terminologies (MeSH, UMLS, MedDRA), databases (OMIM, UniProtKB, HGNC, ensembl, Reactome, IUPHAR, Geantlas) and classifications (ICD10). |
| Ontology of Vaccine Adverse Events | ovae |
OVAE is a biomedical ontology in the area of vaccine adverse events. |
| Web Ontology Language | owl |
Overview of the Web Ontology Language (OWL) which provides an introduction to OWL by informally describing the features of each of the sublanguages. |
| Phenotype And Trait Ontology | pato |
PATO is an ontology of phenotypic qualities, intended for use in a number of applications, primarily defining composite phenotypes and phenotype annotation. |
| Population and Community Ontology | pco |
The Population and Community Ontology (PCO) describes material entities, qualities, and processes related to collections of interacting organisms such as populations and communities. |
| PMCID | pmc |
PMC International (PMCI) is a free full-text archive of biomedical and life sciences journal literature. |
| Protein Ontology | pr |
The PRotein Ontology (PRO) has been designed to describe the relationships of proteins and protein evolutionary classes, to delineate the multiple protein forms of a gene locus (ontology for protein forms), and to interconnect existing ontologies. |
| PubMed ID | pubmed |
PubMed is a service of the U.S. |
| Quantities, Units, Dimensions, and Types Ontology | qudt |
Ontologies that aim to provide semantic specifications for units of measure, quantity kind, dimensions and data types. |
| RDF Schema | rdfs |
RDF Schema provides a data-modelling vocabulary for RDF data. |
| Relation Ontology | ro |
The OBO Relation Ontology provides consistent and unambiguous formal definitions of the relational expressions used in biomedical ontologies. |
| Sustainable Development Goals Interface Ontology | sdgio |
An OBO-compliant ontology representing the entities referenced by the SDGs, their targets, and indicators. |
| Semanticscience Integrated Ontology | sio |
The semanticscience integrated ontology (SIO) provides a simple, integrated upper level ontology (types, relations) for consistent knowledge representation across physical, processual and informational entities. |
| Simple Knowledge Organization System | skos |
SKOS is an area of work developing specifications and standards to support the use of knowledge organization systems (KOS) such as thesauri, classification schemes, subject heading lists and taxonomies within the framework of the Semantic Web. |
| Sequence types and features ontology | so |
The Sequence Ontology (SO) is a structured controlled vocabulary for the parts of a genomic annotation. |
| The Statistical Methods Ontology | stato |
STATO is the statistical methods ontology. |
| Symptom Ontology | symp |
The Symptom Ontology has been developed as a standardized ontology for symptoms of human diseases. |
| Pathogen Transmission Ontology | trans |
The Pathogen Transmission Ontology describes the tranmission methods of human disease pathogens describing how a pathogen is transmitted from one host, reservoir, or source to another host. |
| Uber Anatomy Ontology | uberon |
Uberon is an integrated cross-species anatomy ontology representing a variety of entities classified according to traditional anatomical criteria such as structure, function and developmental lineage. |
| UniProt Isoform | uniprot.isoform |
The UniProt Knowledgebase (UniProtKB) is a comprehensive resource for protein sequence and functional information with extensive cross-references to more than 120 external databases. |
| Units of measurement ontology | uo |
Ontology of standardized units. |
| Unified Phenotype Ontology | upheno |
The uPheno ontology integrates multiple phenotype ontologies into a unified cross-species phenotype ontology. |
| Variation Ontology | vario |
The Variation Ontology (VariO) is an ontology for the standardized, systematic description of effects, consequences and mechanisms of variations. |
| The Virus Infectious Disease Ontology | vido |
The Virus Infectious Disease Ontology (IDO Virus) is an extension of the Infectious Disease Ontology (IDO). |
| Vaccine Ontology | vo |
The Vaccine Ontology (VO) is a biomedical ontology in the domain of vaccine and vaccination. |
| Ontology for vector surveillance and management | vsmo |
an ontology for vector surveillance and management, focusing on arthropod vectors and vector-borne pathogens with relevance to humans or domestic animals, and with special emphasis on content to support operational activities through inclusion in databases, data management systems, or decision support systems. |
| Wikidata | wikidata |
Wikidata is a collaboratively edited knowledge base operated by the Wikimedia Foundation. |
| Wikipedia | wikipedia.en |
Wikipedia is a multilingual, web-based, free-content encyclopedia project based on an openly editable model. |
| ASKEM Ontology | askemo |
A custom ontology to support the epidemiology use case in ASKEM. |