Terminology Service for NFDI4Health
List of all resources in the Terminology Service
| Resource Name | Short name | Description | Loaded | Action |
|---|---|---|---|---|
| Agri-Food Experiment Ontology (AFEO) | AFEO | The Agri-Food Experiment Ontology (AFEO), a new ontology network was developed based on two existing ontology resources, i.e., OAE (Ontology for Agriculture Experiment) and OFPE (Ontology for Food Processing Experiment). | Mon Nov 21 21:28:08 CET 2022 |
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| AGROVOC Multilingual Thesaurus | AGROVOC | AGROVOC is a multilingual and controlled vocabulary designed to cover concepts and terminology under FAO's areas of interest. It is the largest Linked Open Data set about agriculture available for public use and its greatest impact is through providing the access and visibility of data across domains and languages. It offers a structured collection of agricultural concepts, terms, definitions and relationships which are used to unambiguously identify resources, allowing standardized indexing processes and making searches more efficient. The thesaurus is hierarchically organized under 25 top concepts. AGROVOC uses semantic web technologies, linking to other multilingual knowledge organization systems and building bridges between datasets. AGROVOC is edited using VocBench 3, a web-based vocabulary management tool. For more information, please consult http://www.fao.org/agrovoc/. The designations employed and the presentation of material in this information product do not imply the expression of any opinion whatsoever on the part of the Food and Agriculture Organization of the United Nations (FAO) concerning the legal or development status of any country, territory, city or area or of its authorities, or concerning the delimitation of its frontiers or boundaries. | Sat Nov 19 00:28:13 CET 2022 |
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| Animal Health Ontology for Livestock | AHOL | AHOL (Animal Health Ontology for Livestock) is an ontology of characteristics defining phenotypes of livestock in their environment (EOL). AHOL aims to: - provide a reference ontology of phenotypic traits of farm animals for the international scientific and educational - communities, farmers, etc.; - deliver this reference ontology in a language which can be used by computers in order to support database management, semantic analysis and modeling; - represent traits as generic as possible for livestock vertebrates; - make the AHOL ontology as operational as possible and closely related to measurement techniques; - structure the ontology in relation to animal production. This ontology was obtained from AgroPortal (https://agroportal.lirmm.fr/ontologies/AHOL), and is licensed under a CC BY 4.0 licence. | Sun Jan 29 21:07:46 CET 2023 |
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| Anatomical Therapeutic Chemical Classification | ATC | The Anatomical Therapeutic Chemical (ATC) Classification System is used for the classification of active ingredients of drugs according to the organ or system on which they act and their therapeutic, pharmacological and chemical properties. It is controlled by the World Health Organization Collaborating Centre for Drug Statistics Methodology (WHOCC), and was first published in 1976. | Mon Mar 16 16:00:34 CET 2020 |
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| Animal Trait Ontology for Livestock | ATOL | ATOL (Animal Trait Ontology for Livestock) is an ontology of characteristics defining phenotypes of livestock in their environment (EOL). ATOL aims to: - provide a reference ontology of phenotypic traits of farm animals for the international scientific and educational - communities, farmers, etc.; - deliver this reference ontology in a language which can be used by computers in order to support database management, semantic analysis and modeling; - represent traits as generic as possible for livestock vertebrates; - make the ATOL ontology as operational as possible and closely related to measurement techniques; - structure the ontology in relation to animal production. This ontology was obtained from AgroPortal (https://agroportal.lirmm.fr/ontologies/ATOL), and is licensed under a CC BY 4.0 licence. | Tue Jan 24 20:39:01 CET 2023 |
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| BioAssay Ontology | BAO | The BioAssay Ontology (BAO) describes biological screening assays and their results including high-throughput screening (HTS) data for the purpose of categorizing assays and data analysis. BAO is an extensible, knowledge-based, highly expressive (currently SHOIQ(D)) description of biological assays making use of descriptive logic based features of the Web Ontology Language (OWL). BAO currently has over 700 classes and also makes use of several other ontologies. It describes several concepts related to biological screening, including Perturbagen, Format, Meta Target, Design, Detection Technology, and Endpoint. Perturbagens are perturbing agents that are screened in an assay; they are mostly small molecules. Assay Meta Target describes what is known about the biological system and / or its components interrogated in the assay (and influenced by the Perturbagen). Meta target can be directly described as a molecular entity (e.g. a purified protein or a protein complex), or indirectly by a biological process or event (e.g. phosphorylation). Format describes the biological or chemical features common to each test condition in the assay and includes biochemical, cell-based, organism-based, and variations thereof. The assay Design describes the assay methodology and implementation of how the perturbation of the biological system is translated into a detectable signal. Detection Technology relates to the physical method and technical details to detect and record a signal. Endpoints are the final HTS results as they are usually published (such as IC50, percent inhibition, etc). BAO has been designed to accommodate multiplexed assays. All main BAO components include multiple levels of sub-categories and specification classes, which are linked via object property relationships forming an expressive knowledge-based representation. | Tue Jan 28 12:06:52 CET 2020 |
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| Chemical Entities of Biological Interest | CHEBI | A structured classification of molecular entities of biological interest focusing on 'small' chemical compounds. | Wed Jan 22 10:19:51 CET 2020 |
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| Cell Ontology | CL | The Cell Ontology is a structured controlled vocabulary for cell types in animals. | Wed Jan 22 08:34:23 CET 2020 |
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| CLO: Cell Line Ontology | CLO | The Cell Line Ontology (CLO) is a community-based ontology of cell lines. The CLO is developed to unify publicly available cell line entry data from multiple sources to a standardized logically defined format based on consensus design patterns. | Fri Oct 07 17:38:43 CEST 2022 |
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| Cellular Microscopy Phenotype Ontology | CMPO | CMPO is a species neutral ontology for describing general phenotypic observations relating to the whole cell, cellular components, cellular processes and cell populations. | Wed Jan 22 10:06:49 CET 2020 |
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| SARS-CoV-2 virus variants | COVID_VAR | This terminology contains information about SARS-CoV-2 virus variants. | Fri Feb 23 13:05:38 CET 2024 |
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| dbSNP | DBSNP | dbSNP contains human single nucleotide variations, microsatellites, and small-scale insertions and deletions along with publication, population frequency, molecular consequence, and genomic and RefSeq mapping information for both common variations and clinical mutations. Here we provide the ClinVar subset of dbSNP. | Thu Apr 23 13:21:56 CEST 2020 |
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| 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. | Tue Mar 17 13:47:42 CET 2020 |
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| Experimental Factor Ontology | EFO | The Experimental Factor Ontology (EFO) provides a systematic description of many experimental variables available in EBI databases, and for external projects such as the NHGRI GWAS catalogue. It combines parts of several biological ontologies, such as anatomy, disease and chemical compounds. The scope of EFO is to support the annotation, analysis and visualization of data handled by many groups at the EBI and as the core ontology for the Centre for Therapeutic Validation (CTTV) | Fri Oct 07 15:39:27 CEST 2022 |
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| Environment Ontology for Livestock | EOL | The EOL ontology describes environmental conditions of livestock breeding. It includes feeding modalities, the structure of breeding systems and their environment. This ontology was obtained from AgroPortal (https://agroportal.lirmm.fr/ontologies/EOL), and is licensed under a CC BY 4.0 licence. | Tue Jan 24 20:32:38 CET 2023 |
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| ExtruOnt | EXTRUONT | An RDF/OWL schema for representing an extruder | Fri Mar 10 11:23:45 CET 2023 |
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| FoodEx2 maintenance 2021 | FOODEX2 | FoodEx2 is a comprehensive food classification and description system developed and maintained by EFSA with the aim to keep it up to date and to cover the needs of data collections in different domains. This semantic version was created by the ZB MED - Information Centre for Life Sciences. | Wed Dec 07 20:28:35 CET 2022 |
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| Food Ontology | FOODON | FoodOn (http://foodon.org) is a consortium-driven project to build 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. | Fri Nov 18 22:59:01 CET 2022 |
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| FSKX Ontology | FSKXO | The FSKX ontology contains definitions used in the FSKX (Fair Scientific Knowledge eXchange) context. Its origins lie in the food safety domain (previously known as 'Food Safety Knowledge eXchange'). The classes and instances in the FSKX ontology were created from controlled vocabularies in a spreadsheet file named 'Controlled_Vocabularies_Master_Table_V1.04' found on the BfR webpage 'RAKIP Harmonization Resources'. A hyperlink to the webpage is provided. The properties in the FSKX ontology have been defined to improve working with the controlled vocabularies in a linked data context. | Fri Feb 23 16:07:04 CET 2024 |
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| Gene Ontology | GO | An ontology for describing the function of genes and gene products | Tue Jan 21 17:01:43 CET 2020 |
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| HUGO Gene Nomenclature Committee | HGNC | HGNC is responsible for approving unique symbols and names for human loci, including protein coding genes, ncRNA genes and pseudogenes, to allow unambiguous scientific communication. | Wed Jan 22 10:26:32 CET 2020 |
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| Human Phenotype Ontology | HP | The Human Phenotype Ontology (HPO) provides a standardized vocabulary of phenotypic abnormalities and clinical features encountered in human disease. | Wed Jan 22 09:08:27 CET 2020 |
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| International Classification of Diseases, Version 10 | ICD10 | International Statistical Classification of Diseases and Related Health Problems (ICD-10). 10th rev. Geneva. This ontology is made available via the UMLS. Users of all UMLS ontologies must abide by the terms of the UMLS license, available at https://uts.nlm.nih.gov/license.html | Tue Jan 31 01:19:17 CET 2023 |
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| International Classification of Diseases Ontology | ICDO | A biomedical ontology for logical representation of the terms and relations related to the International Classification of Diseases (ICD) | Fri Jul 01 20:11:28 CEST 2022 |
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| Logical Observation Identifier Names and Codes | LOINC | RDF Version of the UMLS ontology LNC; converted with the UMLS2RDF tool (https://github.com/ncbo/umls2rdf), developed by the NCBO project. License information: This ontology is made available via the UMLS. Users of all UMLS ontologies must abide by the terms of the UMLS license, available at https://uts.nlm.nih.gov/license.html | Fri Nov 18 23:25:46 CET 2022 |
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| Maelstrom Research Taxonomies | MAELSTROM | This semantic Maelstrom terminology provides next to internal identifier identifier from ICD-10 and SNOMED-CT. The terminology was created from a yaml file named 'AreaOfInformation.yml' from the GitHub repository 'maelstrom-taxonomies'. A hyperlink to the repository is provided. | Fri Jul 15 00:43:58 CEST 2022 |
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| Medical Subject Headings | MESH | The Medical Subject Headings (MeSH) thesaurus is a controlled vocabulary produced by the National Library of Medicine and used for indexing, cataloging, and searching for biomedical and health-related information and documents. | Thu May 20 15:20:24 CEST 2021 |
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| Medical Subject Headings - Diseases | MESHD | The Medical Subject Headings (MeSH) thesaurus is a controlled vocabulary produced by the National Library of Medicine and used for indexing, cataloging, and searching for biomedical and health-related information and documents. Here we are providing the diseases subtree. | Fri Mar 10 11:00:06 CET 2023 |
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| Mouse Genome Informatics | MGI | The Mouse Genome Informatics group is a founding member of the Gene Ontology Consortium (www.geneontology.org). MGI fully incorporates the GO in the database and provides a GO browser. | Wed Jan 22 09:50:27 CET 2020 |
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| miRBase | MIRBASE | The miRBase database is a searchable database of published miRNA sequences and annotation. Each entry in the miRBase Sequence database represents a predicted hairpin portion of a miRNA transcript (termed mir in the database), with information on the location and sequence of the mature miRNA sequence (termed miR). | Wed Jan 22 10:12:53 CET 2020 |
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| NCBI Gene - Subset: Human, Mouse, Rat | NCBIGENE | Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide. We provide here a subset which contains information about the concepts human, mouse and rat. | Thu Jan 30 14:55:48 CET 2020 |
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| NCBI organismal classification | NCBITaxon | An ontology representation of the NCBI organismal taxonomy | Tue Feb 18 16:47:00 CET 2020 |
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| NCI Thesaurus OBO Edition | NCIT | The NCIt OBO Edition project aims to increase integration of the NCIt with OBO Library ontologies. NCIt is a reference terminology that includes broad coverage of the cancer domain, including cancer related diseases, findings and abnormalities. NCIt OBO Edition releases should be considered experimental. | Tue Mar 17 09:17:52 CET 2020 |
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| Ontology for Nutritional Epidemiology | ONE | Nutritional epidemiology is a specific research area. The generic ontologies for food science, nutrition science or medical science failed to cover the specific characteristics of nutritional epidemiologic studies. As a result, we developed the ontology for nutritional epidemiology (ONE) in order to describe nutritional epidemiologic studies accurately. | Fri Jul 15 00:36:56 CEST 2022 |
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| Rat Genome Database | RGD | The Rat Genome Database (RGD) was established in 1999 and is the premier site for genetic, genomic, phenotype, and disease data generated from rat research. In addition, it provides easy access to corresponding human and mouse data for cross-species comparisons. | Wed Jan 22 09:48:19 CET 2020 |
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| Radiology Lexicon | RID | RadLex OWL, as downloaded from BioPortal, includes a set of puns in order to facilitate browsing and display. The base RadLex ontology, without puns, is available at http://radlex.org/ |
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| SARS-CoV-2 Proteins | SC2V | This terminology contains protein information about SARS-CoV-2. | Thu Apr 08 15:51:00 CEST 2021 |
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| SNOMED CT (International Edition) | SNOMED | SNOMED CT or SNOMED Clinical Terms is a systematically organized computer processable collection of medical terms providing codes, terms, synonyms and definitions used in clinical documentation and reporting. DISCLAMER: It is not allowed to parse each concept of SNOMED CT (International Edition) via our API and use this information to create a full version of SNOMED CT. | Sun Aug 28 21:32:30 CEST 2022 |
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| 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. The ontology includes comprehensive relationships to taxon-specific anatomical ontologies, allowing integration of functional, phenotype and expression data. | Wed Jan 22 09:06:23 CET 2020 |
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| UniProt - Subset: Human, Mouse, Rat | UNIPROT | The mission of UniProt is to provide the scientific community with a comprehensive, high-quality and freely accessible resource of protein sequence and functional information. We provide here a subset which contains information about the concepts human, mouse and rat. | Thu Jan 30 16:38:14 CET 2020 |
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