List of all ontologies in OLS
| Ontology Name | Short name | Description | Loaded | Action |
|---|---|---|---|---|
| Anatomical Entity Ontology | AEO | AEO is an ontology of anatomical structures that expands CARO, the Common Anatomy Reference Ontology | Fri Aug 14 11:28:12 BST 2020 |
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| Allotrope Merged Ontology Suite | AFO | Allotrope Merged Ontology Suite | Tue May 28 16:48:55 BST 2019 |
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| Agronomy Ontology | AGRO | Ontology of agronomic practices, agronomic techniques, and agronomic variables used in agronomic experiments | Wed Apr 15 15:35:32 BST 2020 |
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| Amphioxus Development and Anatomy Ontology (AMPHX) | AMPHX | An ontology for the development and anatomy of Amphioxus (Branchiostoma lanceolatum). | Mon Jan 04 10:27:30 GMT 2021 |
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| Ascomycete phenotype ontology | APO | A structured controlled vocabulary for the phenotypes of Ascomycete fungi | Fri Aug 14 14:22:43 BST 2020 |
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| Apollo Structured Vocabulary (Apollo-SV) | APOLLO_SV | Defines terms and relations necessary for interoperation between epidemic models and public health application software that interface with these models | Mon Jan 04 11:00:55 GMT 2021 |
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| Antibiotic Resistance Ontology | ARO | Antibiotic resistance genes and mutations | Mon Feb 01 02:06:59 GMT 2021 |
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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 scientificand 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. | Thu Sep 13 02:18:31 BST 2018 |
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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. | Thu Dec 17 01:59:49 GMT 2020 |
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| The Behaviour Change Intervention Ontology | BCIO | The Behaviour Change Intervention Ontology is an ontology for all aspects of human behaviour change interventions and their evaluation. | Fri Jan 29 03:39:44 GMT 2021 |
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| Biological Collections Ontology | BCO | An ontology to support the interoperability of biodiversity data, including data on museum collections, environmental/metagenomic samples, and ecological surveys. | Fri Aug 14 17:13:46 BST 2020 |
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| Basic Formal Ontology | BFO | The upper level ontology upon which OBO Foundry ontologies are built. | Fri Aug 14 17:48:30 BST 2020 |
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| Biological Spatial Ontology | BSPO | An ontology for representing spatial concepts, anatomical axes, gradients, regions, planes, sides, and surfaces | Fri Aug 14 18:21:51 BST 2020 |
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| The BRENDA Tissue Ontology (BTO) | BTO | A structured controlled vocabulary for the source of an enzyme comprising tissues, cell lines, cell types and cell cultures. | Wed Feb 10 02:30:29 GMT 2021 |
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| Common Anatomy Reference Ontology | CARO | An upper level ontology to facilitate interoperability between existing anatomy ontologies for different species | Fri Aug 14 19:30:57 BST 2020 |
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| Cell Cycle Ontology | CCO | The Cell Cycle Ontology extends existing ontologies for cell cycle knowledge building a resource that integrates and manages knowledge about the cell cycle components and regulatory aspects. | Wed Mar 23 13:43:08 GMT 2016 |
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| Comparative Data Analysis Ontology | CDAO | The Comparative Data Analysis Ontology (CDAO) provides a framework for understanding data in the context of evolutionary-comparative analysis. This comparative approach is used commonly in bioinformatics and other areas of biology to draw inferences from a comparison of differently evolved versions of something, such as differently evolved versions of a protein. In this kind of analysis, the things-to-be-compared typically are classes called 'OTUs' (Operational Taxonomic Units). The OTUs can represent biological species, but also may be drawn from higher or lower in a biological hierarchy, anywhere from molecules to communities. The features to be compared among OTUs are rendered in an entity-attribute-value model sometimes referred to as the 'character-state data model'. For a given character, such as 'beak length', each OTU has a state, such as 'short' or 'long'. The differences between states are understood to emerge by a historical process of evolutionary transitions in state, represented by a model (or rules) of transitions along with a phylogenetic tree. CDAO provides the framework for representing OTUs, trees, transformations, and characters. The representation of characters and transformations may depend on imported ontologies for a specific type of character. | Fri Aug 14 20:05:38 BST 2020 |
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| Crop Dietary Nutrition Ontology | CDNO | None | Tue Feb 16 04:00:53 GMT 2021 |
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| Cephalopod Ontology | CEPH | An anatomical and developmental ontology for cephalopods | Fri Aug 14 20:41:31 BST 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 Mar 03 02:36:21 GMT 2021 |
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| chemical information ontology (cheminf) - information entities about chemical entities | CHEMINF | Includes terms for the descriptors commonly used in cheminformatics software applications and the algorithms which generate them. | Fri Aug 14 22:02:41 BST 2020 |
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| CHEBI Integrated Role Ontology | CHIRO | CHEBI provides a distinct role hierarchy. Chemicals in the structural hierarchy are connected via a 'has role' relation. CHIRO provides links from these roles to useful other classes in other ontologies. This will allow direct connection between chemical structures (small molecules, drugs) and what they do. This could be formalized using 'capable of', in the same way Uberon and the Cell Ontology link structures to processes. | Fri Aug 14 22:38:15 BST 2020 |
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| Chemical Methods Ontology | CHMO | CHMO, the chemical methods ontology, describes methods used to collect data in chemical experiments, such as mass spectrometry and electron microscopy prepare and separate material for further analysis, such as sample ionisation, chromatography, and electrophoresis synthesise materials, such as epitaxy and continuous vapour deposition It also describes the instruments used in these experiments, such as mass spectrometers and chromatography columns. It is intended to be complementary to the Ontology for Biomedical Investigations (OBI). | Mon Oct 05 06:15:35 BST 2020 |
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| CIDO: Ontology of Coronavirus Infectious Disease | CIDO | The Ontology of Coronavirus Infectious Disease (CIDO) is a community-driven open-source biomedical ontology in the area of coronavirus infectious disease. The CIDO is developed to provide standardized human- and computer-interpretable annotation and representation of various coronavirus infectious diseases, including their etiology, transmission, pathogenesis, diagnosis, prevention, and treatment. | Wed Feb 24 12:47:09 GMT 2021 |
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| Confidence Information Ontology | CIO | An ontology to capture confidence information about annotations. | Sat Aug 15 00:27:36 BST 2020 |
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| Cell Ontology | CL | An ontology of cell types. | Tue Feb 02 05:35:42 GMT 2021 |
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| Collembola Anatomy Ontology | CLAO | CLAO is an ontology of anatomical terms employed in morphological descriptions for the Class Collembola (Arthropoda: Hexapoda). | Tue Nov 03 15:57:08 GMT 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. | Sat Aug 15 01:43:57 BST 2020 |
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| Clytia hemisphaerica Development and Anatomy Ontology (CLYH) | CLYH | Anatomy, development and life cycle stages - planula, polyp, medusa/jellyfish - of the cnidarian hydrozoan species, Clytia hemiphaerica. | Sat Aug 15 02:20:04 BST 2020 |
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| Clinical measurement ontology | CMO | Morphological and physiological measurement records generated from clinical and model organism research and health programs. | Sat Aug 15 02:54:28 BST 2020 |
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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. | Tue Sep 29 01:57:40 BST 2020 |
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| Rice ontology | CO_320 | Rice Trait Dictionary in template v 5.0 - IRRI - March 2016 - Based on SES, RD, UPOV variables and on variables used by CIAT, FLAR and the GRISP Phenotyping Network variables | Thu Apr 16 22:55:54 BST 2020 |
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| Wheat ontology | CO_321 | Sept 2020 | Fri Apr 17 00:33:28 BST 2020 |
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| Wheat ontology | CO_321:ROOT | T3 Wheat traits |
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| Maize ontology | CO_322 | Maize Trait Dictionary in template 5 - CIMMYT- September 2016 | Fri Apr 17 01:59:57 BST 2020 |
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| Barley ontology | CO_323 | ICARDA - TDv5 - Sept 2018 | Sat Aug 15 04:10:01 BST 2020 |
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| Sorghum ontology | CO_324 | Sorghum TDv5 Nov. 2020 | Thu Dec 03 03:27:29 GMT 2020 |
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| Banana ontology | CO_325 | Banana Trait Dictionary in template 5 - Bioversity & IITA - April 2019 | Thu Dec 03 04:49:07 GMT 2020 |
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| Pearl millet ontology | CO_327 | Pearl millet Trait Dictionary in template 5 - ICRISAT/INERA - April 2016 | Mon Nov 23 15:06:10 GMT 2020 |
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| Potato ontology | CO_330 | CIP - potato ontology - december 2018 | Mon Aug 17 22:06:22 BST 2020 |
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| Sweet Potato ontology | CO_331 | Sweet Potato Trait Dictionary in template v5 - CIP - November 2019 | Fri Apr 17 10:43:55 BST 2020 |
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| Beet Ontology ontology | CO_333 | This ontology was built as part of the AKER project. It describes variables used in beet phenotyping (experimental properties and measurement scale) for each institution (INRAE, Geves, ITB) and breeding companies (Florimond Desprez). Curator: Dorothee Charruaud (ADRINORD - URGI) Daphne Verdelet (Florimond Desprez) - First submission in November 2017. | Wed Jan 23 08:18:53 GMT 2019 |
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| Cassava ontology | CO_334 | Cassava Trait Dictionary in template 5 - IITA - July 2015, updated in February 2016 | Fri Apr 17 12:13:35 BST 2020 |
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| Common Bean ontology | CO_335 | CIAT Common bean trait dictionary - version August 2014 | Wed Dec 16 05:48:31 GMT 2020 |
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| Soybean ontology | CO_336 | Soybean Trait Dictionary in template v5 - IITA - July 2015 |
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| Groundnut ontology | CO_337 | Groundnut Trait Dictionary in template v5 - ICRISAT/ISRA/DARS - Sept 2015 | Wed Dec 16 07:18:07 GMT 2020 |
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| Chickpea ontology | CO_338 | Chickpea Trait Dictionary in template v5 - ICRISAT - July 2015 | Wed Dec 16 08:41:00 GMT 2020 |
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| Lentil ontology | CO_339 | Lentil Trait Dictionary in template v5 - ICARDA - July 2015 | Fri Apr 17 18:22:17 BST 2020 |
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| Cowpea ontology | CO_340 | Cowpea Trait Dictionary in template v5 - IITA - August 2015 | Fri Apr 17 19:46:58 BST 2020 |
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| Pigeonpea ontology | CO_341 | Pigeonpea Trait Dictionary in template v5 - ICRISAT - July 2015 | Mon Aug 17 23:17:00 BST 2020 |
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| Yam ontology | CO_343 | version 2019 - pvs | Fri Apr 17 23:03:03 BST 2020 |
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| Brachiaria ontology | CO_345 | Brachiaria (forages) ontology TD v5 - Version Oct 2016 | Fri Jul 17 03:34:09 BST 2020 |
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| Mungbean ontology | CO_346 | oct 2016 | Sat Apr 18 02:07:17 BST 2020 |
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| Castor bean ontology | CO_347 | March 2017 version | Mon Nov 23 15:40:44 GMT 2020 |
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| Brassica ontology | CO_348 | Brassica Trait Ontology (BRaTO) hosts trait information to describe brassica crop data. Terms are collected from various projects including OREGIN, RIPR (UK) and Rapsodyn (France). BRATO development is conducted by Earlham Institute (UK), Southern Cross University (Australia) and INRA (France). | Fri Feb 05 03:23:30 GMT 2021 |
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| Oat ontology | CO_350 | Oat trait dictionary started by Oat Global (http://oatglobal.org/) and improved by NIAB and PepsiCo | Tue Aug 18 01:38:27 BST 2020 |
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| Vitis ontology | CO_356 | Grape Ontology including OIV and bioversity descriptors. INRAE Jan 2021 | Thu Jan 21 03:26:57 GMT 2021 |
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| Woody Plant Ontology ontology | CO_357 | This ontology lists all variables used for woody plant observations. Terms are collected from various sources (past and ongoing projects at national and international levels). Curators: Celia Michotey (INRAE) & Ines Chaves (IBET) - Version 2 submitted on Jun 2020 by INRAE. | Tue Aug 18 02:55:27 BST 2020 |
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| Cotton ontology | CO_358 | Cotton ontology from CottonGen database - June 2019 | Thu Feb 04 03:40:37 GMT 2021 |
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| Sunflower ontology | CO_359 | December 2019 |
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| Sugar Kelp trait ontology | CO_360 | Sugar Kelp trait ontology | Sat Aug 15 04:47:02 BST 2020 |
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| Fababean ontology | CO_365 | developed by ICARDA - Dec 2018 | Sat Apr 18 12:55:13 BST 2020 |
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| Bambara groundnut ontology | CO_366 | version Dec 2019 | Tue Jun 30 06:55:29 BST 2020 |
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| Core Ontology for Biology and Biomedicine | COB | COB brings together key terms from a wide range of OBO projects to improve interoperability. | Mon Mar 01 02:31:03 GMT 2021 |
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| CoVoc Coronavirus Vocabulary | COVOC | The COVID-19 Vocabulary (COVoc) is an ontology containing terms related to the research of the COVID-19 pandemic. This includes host organisms, pathogenicity, gene and gene products, barrier gestures, treatments and more. | Wed Oct 21 04:03:47 BST 2020 |
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| Contributor Role Ontology | CRO | A classification of the diverse roles performed in the work leading to a published research output in the sciences. Its purpose to provide transparency in contributions to scholarly published work, to enable improved systems of attribution, credit, and accountability. | Sat Aug 15 05:57:43 BST 2020 |
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| Ctenophore Ontology | CTENO | An anatomical and developmental ontology for ctenophores (Comb Jellies) | Sat Aug 15 06:34:14 BST 2020 |
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| CTO: Core Ontology of Clinical Trials | CTO | The core Ontology of Clinical Trials (CTO) will serve as a structured resource integrating basic terms and concepts in the context of clinical trials. Thereby covering clinicaltrails.gov. CoreCTO will serve as a basic ontology to generate extended versions for specific applications such as annotation of variables in study documents from clinical trials. | Tue Sep 15 03:01:07 BST 2020 |
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| Cardiovascular Disease Ontology | CVDO | An ontology to describe entities related to cardiovascular diseases | Sat Aug 15 07:51:20 BST 2020 |
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| Dictyostelium discoideum anatomy | DDANAT | A structured controlled vocabulary of the anatomy of the slime-mold Dictyostelium discoideum | Sat Aug 15 08:29:43 BST 2020 |
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| Dicty Phenotype Ontology (DDPHENO) | DDPHENO | A structured controlled vocabulary of phenotypes of the slime-mould Dictyostelium discoideum. | Sat Aug 15 09:05:35 BST 2020 |
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| DICOM Controlled Terminology | DICOM | DICOM Controlled Terminology | Mon Feb 01 11:38:03 GMT 2021 |
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| Drug-drug Interaction and Drug-drug Interaction Evidence Ontology | DIDEO | The Potential Drug-drug Interaction and Potential Drug-drug Interaction Evidence Ontology | Sat Aug 15 09:40:46 BST 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. | Thu Feb 25 02:15:05 GMT 2021 |
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| Drosophila Phenotype Ontology (DPO) | FBcv | An ontology for the description of Drosophila melanogaster phenotypes. | Mon Jan 18 04:52:26 GMT 2021 |
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| The Drug Ontology | DRON | An ontology to support comparative effectiveness researchers studying claims data. | Tue Dec 15 12:01:42 GMT 2020 |
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| Data Use Ontology | DUO | DUO is an ontology which represent data use conditions. | Wed Feb 24 13:25:15 GMT 2021 |
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| Echinoderm Anatomy and Development Ontology | ECAO | None | Sat Aug 15 14:19:27 BST 2020 |
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| Evidence & Conclusion Ontology (ECO) | ECO | The Evidence & Conclusion Ontology (ECO) describes types of scientific evidence within the biological research domain that arise from laboratory experiments, computational methods, literature curation, or other means. | Tue Feb 09 06:18:49 GMT 2021 |
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| An ontology of core ecological entities | ECOCORE | Ecocore is a community ontology for the concise and controlled description of ecological traits of organisms. | Wed Feb 24 14:02:05 GMT 2021 |
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| Environment Exposure Ontology | ECTO | ECTO describes exposures to experimental treatments of plants and model organisms (e.g. exposures to modification of diet, lighting levels, temperature); exposures of humans or any other organisms to stressors through a variety of routes, for purposes of public health, environmental monitoring etc, stimuli, natural and experimental, any kind of environmental condition or change in condition that can be experienced by an organism or population of organisms on earth. The scope is very general and can include for example plant treatment regimens, as well as human clinical exposures (although these may better be handled by a more specialized ontology). | Thu Sep 24 17:32:35 BST 2020 |
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| Bioinformatics operations, data types, formats, identifiers and topics | EDAM | EDAM is a simple ontology of well established, familiar concepts that are prevalent within bioinformatics, including types of data and data identifiers, data formats, operations and topics. EDAM provides a set of terms with synonyms and definitions - organised into an intuitive hierarchy for convenient use. | Fri Nov 27 13:59:35 GMT 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 OpenTargets.org | Tue Feb 16 07:57:42 GMT 2021 |
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| Human developmental anatomy, abstract | EHDAA2 | A structured controlled vocabulary of stage-specific anatomical structures of the developing human. | Sat Aug 15 16:24:22 BST 2020 |
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| Mouse Developmental Anatomy Ontology | EMAPA | An ontology for mouse anatomy covering embryonic development and postnatal stages. | Sat Aug 15 17:26:59 BST 2020 |
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| eNanoMapper Ontology | ENM | The eNanoMapper project (www.enanomapper.net) is creating a pan-European computational infrastructure for toxicological data management for ENMs, based on semantic web standards and ontologies. > This ontology is an application ontology targeting the full domain of nanomaterial safety assessment. It re-uses several other ontologies including the NPO, CHEMINF, ChEBI, and ENVO. | Fri Sep 28 03:37:09 BST 2018 |
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| Ensembl Glossary | ENSGLOSS | The Ensembl glossary lists the terms, data types and file types that are used in Ensembl and describes how they are used. | Tue Feb 16 09:38:02 GMT 2021 |
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| The Environment Ontology | ENVO | ENVO is an ontology which represents knowledge about environments,environmental processes, ecosystems, habitats, and related entities | Sat Aug 15 18:29:01 BST 2020 |
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| Environment Ontology for Livestock | EOL | L'ontologie EOL décrit les conditions d'environnement des élevages d'animaux domestiques. Elle décrit plus particulièrement les modalités de l'alimentation, de l'environnement, de la structure des élevages et des systèmes d'élevage | Thu Sep 13 04:35:21 BST 2018 |
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| eagle-i resource ontology | ERO | An ontology of research resources such as instruments. protocols, reagents, animal models and biospecimens. | Tue Mar 02 03:58:52 GMT 2021 |
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| VEuPathDB Ontology | EUPATH | The VEuPathDB ontology is an application ontology developed to encode our understanding of what data is about in the public resources developed and maintained by the Eukaryotic Pathogen, Host and Vector Genomics Resource (VEuPathDB; https://veupathdb.org). The VEuPathDB ontology was previously named the EuPathDB ontology prior to EuPathDB joining with VectorBase.The ontology was built based on the Ontology of Biomedical Investigations (OBI) with integration of other OBO ontologies such as PATO, OGMS, DO, etc. as needed for coverage. Currently the VEuPath ontology is primarily intended to be used for support of the VEuPathDB sites. Terms with VEuPathDB ontology IDs that are not specific to VEuPathDB will be submitted to OBO Foundry ontologies for subsequent import and replacement of those terms when they are available. | Mon Jan 18 06:18:37 GMT 2021 |
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| Exposure ontology | ExO | Vocabularies for describing exposure data to inform understanding of environmental health. | Sat Aug 15 20:02:45 BST 2020 |
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| Fungal gross anatomy | FAO | A structured controlled vocabulary for the anatomy of fungi. | Sat Aug 15 20:33:13 BST 2020 |
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| Biological Imaging Methods Ontology | FBbi | A structured controlled vocabulary of sample preparation, visualization and imaging methods used in biomedical research. | Mon Nov 09 04:02:00 GMT 2020 |
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| Drosophila Anatomy Ontology (DAO) | FBbt | An ontology of Drosophila melanogaster anatomy. | Mon Jan 18 07:41:49 GMT 2021 |
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| FlyBase Controlled Vocabulary (FBcv) | FBcv | A miscellaneous ontology of terms used for curation in FlyBase, including the DPO. | Mon Jan 18 09:02:11 GMT 2021 |
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| FlyBase Developmental Ontology (FBdv) | FBdv | An ontology of Drosophila melanogaster developmental stages. | Wed Jan 13 17:04:28 GMT 2021 |
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| Food Interactions with Drugs Evidence Ontology | FIDEO | The Food Interactions with Drugs Evidence Ontology (FIDEO) represents Food-Drug Interactions and underlying interaction mechanisms described in scientific publications, drug and adverse effects databases, and drug interactions compendia. The ontology builds on previous efforts from the FoodOn, DRON, ChEBI, and DIDEO ontologies as well as the Thériaque database. This ontology is maintained at https://gitub.u-bordeaux.fr/erias/fideo, and requests for changes or additions should be filed at the issue tracker there. | Tue Dec 01 12:59:48 GMT 2020 |
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| Physico-chemical methods and properties | FIX | An ontology of physico-chemical methods and properties. | Sat Aug 15 23:11:30 BST 2020 |
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| Flora Phenotype Ontology | FLOPO | Traits and phenotypes of flowering plants occurring in digitized Floras | Sun Aug 16 00:00:12 BST 2020 |
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| Foundational Model of Anatomy Ontology (subset) | FMA | This is currently a slimmed down version of FMA | Sun Aug 16 00:46:10 BST 2020 |
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| FOBI | FOBI | FOBI (Food-Biomarker Ontology) is an ontology to represent food intake data and associate it with metabolomic data | Sun Aug 16 01:17:47 BST 2020 |
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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. | Thu Feb 04 05:25:32 GMT 2021 |
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| FuTRES Ontology of Vertebrate Traits | FOVT | None | Thu Mar 04 03:50:44 GMT 2021 |
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| Fission Yeast Phenotype Ontology (FYPO) | FYPO | A formal ontology of phenotypes observed in fission yeast. | Wed Mar 03 03:16:22 GMT 2021 |
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| Gazetteer | GAZ | A gazetteer constructed on ontological principles | Tue Nov 03 17:04:13 GMT 2020 |
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| Genomics Cohorts Knowledge Ontology | GECKO | An ontology to represent genomics cohort attributes. | Thu Jan 21 04:52:50 GMT 2021 |
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| Genomic Epidemiology Ontology | GENEPIO | The Genomic Epidemiology Ontology (GenEpiO) covers vocabulary necessary to identify, document and research foodborne pathogens and associated outbreaks. | Sun Aug 16 05:05:13 BST 2020 |
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| GENO ontology | GENO | GENO is an OWL model of genotypes, their more fundamental sequence components, and links to related biological and experimental entities. At present many parts of the model are exploratory and set to undergo refactoring. In addition, many classes and properties have GENO URIs but are place holders for classes that will be imported from an external ontology (e.g. SO, ChEBI, OBI, etc). Furthermore, ongoing work will implement a model of genotype-to-phenotype associations. This will support description of asserted and inferred relationships between a genotypes, phenotypes, and environments, and the evidence/provenance behind these associations. Documentation is under development as well, and for now a slidedeck is available at http://www.slideshare.net/mhb120/brush-icbo-2013 | Sun Aug 16 05:37:31 BST 2020 |
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| Geographical Entity Ontology | GEO | An ontology of geographical entities | Sun Aug 16 06:09:45 BST 2020 |
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| Gene Expression Ontology | GeXO | Gene Expression Ontology | Mon Apr 20 17:22:45 BST 2020 |
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| Glycan Naming Ontology | GNO | An ontology for glycans based on GlyTouCan, but organized by subsumption. | Thu Oct 15 02:28:19 BST 2020 |
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| Gene Ontology | GO | The Gene Ontology (GO) provides a framework and set of concepts for describing the functions of gene products from all organisms. | Thu Feb 04 08:19:45 GMT 2021 |
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| GSSO - the Gender, Sex, and Sexual Orientation ontology | GSSO | GSSO is the Gender, Sex, and Sex Orientation ontology, including terms related to gender identity and expression, sexual and romantic identity and orientation, and sexual and reproductive behavior. | Thu Jan 07 03:31:46 GMT 2021 |
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| Human Ancestry Ontology | HANCESTRO | Human ancestry ontology for the NHGRI GWAS Catalog | Tue Jan 05 05:24:22 GMT 2021 |
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| Hymenoptera Anatomy Ontology | HAO | A structured controlled vocabulary of the anatomy of the Hymenoptera (bees, wasps, and ants) | Sun Aug 16 08:23:52 BST 2020 |
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| Human Cell Atlas Ontology | HCAO | Application ontology for human cell types, anatomy and development stages for the Human Cell Atlas. | Thu Feb 25 23:34:59 GMT 2021 |
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| Homology Ontology | HOM | This ontology represents concepts related to homology, as well as other concepts used to describe similarity and non-homology. | Sun Aug 16 09:29:26 BST 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. | Tue Mar 02 05:50:40 GMT 2021 |
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| Histopathology Ontology | MC | An ontology of histopathological morphologies used by pathologists to classify/categorise animal lesions observed histologically during regulatory toxicology studies. The ontology was developed using real data from over 6000 regulatory toxicology studies donated by 13 companies spanning nine species. | Sun Aug 16 10:36:58 BST 2020 |
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| Human Developmental Stages | HsapDv | Life cycle stages for Human | Sun Aug 16 11:09:21 BST 2020 |
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| Health Surveillance Ontology | HSO | The health Surveillance Ontology (HSO) focuses on "surveillance system level data", that is, data outputs from surveillance activities, such as number of samples collected, cases observed, etc. It aims to support One-Health surveillance, covering animal health, public health and food safety surveillance. | Tue Jan 26 20:27:49 GMT 2021 |
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| Hypertension Ontology For Clinical Data | HTN | An ontology for representing clinical data about hypertension, intended to support classification of patients according to various diagnostic guidelines | Tue Apr 21 06:13:38 BST 2020 |
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| Information Artifact Ontology (IAO) | IAO | The Information Artifact Ontology (IAO) is an ontology of information entities, originally driven by work by the OBI digital entity and realizable information entity branch. | Fri Dec 11 10:40:36 GMT 2020 |
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| ICEO: Ontology of Integrative and Conjugative Elements | ICEO | A biological ontology to standardize and integrate Integrative and Conjugative Element (ICE) information and to support computer-assisted reasoning. | Thu Feb 04 09:47:18 GMT 2021 |
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| Informed Consent Ontology | ICO | The Informed Consent Ontology (ICO) is an ontology for the informed consent and informed consent process in the medical field. | Fri Aug 28 02:56:12 BST 2020 |
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| Infectious Disease Ontology | IDO | A set of interoperable ontologies that will together provide coverage of the infectious disease domain. IDO core is the upper-level ontology that hosts terms of general relevance across the domain, while extension ontologies host terms to specific to a particular part of the domain. | Sun Aug 16 13:23:07 BST 2020 |
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| The COVID-19 Infectious Disease Ontology | IDO-COVID-19 | 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). IDO-COVID-19 follows OBO Foundry guidelines, employs the Basic Formal Ontology as its starting point, and covers epidemiology, classification, pathogenesis, and treatment of terms used to represent infection by the SARS-CoV-2 virus strain, and the associated COVID-19 disease. | Fri Sep 25 01:22:44 BST 2020 |
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| Malaria Ontology | IDOMAL | An application ontology to cover all aspects of malaria as well as the intervention attempts to control it. | Sun Aug 16 13:57:09 BST 2020 |
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| INO: Interaction Network Ontology | INO | he Interaction Network Ontology (INO) is an ontology in the domain of interactions and interaction networks. INO represents general and species-neutral types of interactions and interaction networks, and their related elements and relations. INO is a community-driven ontology, aligns with BFO, and is developed by following the OBO Foundry principles. | Sun Aug 16 14:30:02 BST 2020 |
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| Kinetic Simulation Algorithm Ontology | KISAO | A classification of algorithms available for the simulation of models in biology. | Thu Feb 04 11:10:35 GMT 2021 |
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| clinical LABoratory Ontology | LABO | LABO is an ontology of informational entities formalizing clinical laboratory tests prescriptions and reporting documents. | Fri Sep 06 14:52:20 BST 2019 |
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| Livestock Breed Ontology | LBO | A vocabulary for cattle, chicken, horse, pig, and sheep breeds. | Thu Mar 04 05:38:46 GMT 2021 |
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| Mouse adult gross anatomy | MA | A structured controlled vocabulary of the adult anatomy of the mouse (Mus). | Sun Aug 16 15:37:32 BST 2020 |
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| Mathematical Modelling Ontology | MAMO | The Mathematical Modelling Ontology (MAMO) is a classification of the types of mathematical models used mostly in the life sciences, their variables, relationships and other relevant features. | Tue Feb 16 11:12:35 GMT 2021 |
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| Medical Action Ontology | MAXO | An ontology to represent medically relevant actions, procedures, therapies, interventions, and recommendations. | Fri Feb 26 01:15:59 GMT 2021 |
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| Microbial Conditions Ontology | MCO | Microbial Conditions Ontology is an ontology... | Sun Aug 16 17:15:35 BST 2020 |
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| Mental Functioning Ontology | MF | The Mental Functioning Ontology is an overarching ontology for all aspects of mental functioning. | Sun Aug 16 17:48:15 BST 2020 |
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| Mammalian Feeding Muscle Ontology | MFMO | The Mammalian Feeding Muscle Ontology is an antomy ontology for the muscles of the head and neck that participate in feeding, swallowing, and other oral-pharyngeal behaviors. | Wed Apr 22 00:27:03 BST 2020 |
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| Emotion Ontology | MFOEM | An ontology of affective phenomena such as emotions, moods, appraisals and subjective feelings. | Sun Aug 16 18:20:56 BST 2020 |
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| Mental Disease Ontology | MFOMD | The Mental Disease Ontology is developed to facilitate representation for all aspects of mental disease. It is an extension of the Ontology for General Medical Science (OGMS) and Mental Functioning Ontology (MF). | Sun Aug 16 18:52:15 BST 2020 |
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| Molecular Interactions Controlled Vocabulary | MI | A structured controlled vocabulary for the annotation of experiments concerned with protein-protein interactions. | Fri Feb 12 05:03:23 GMT 2021 |
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| Minimum Information for A Phylogenetic Analysis (MIAPA) Ontology | MIAPA | The MIAPA ontology is intended to be an application ontology for the purpose of semantic annotation of phylogenetic data according to the requirements and recommendations of the Minimum Information for A Phylogenetic Analysis (MIAPA) metadata reporting standard. The ontology leverages (imports) primarily from the CDAO (Comparative Data Analysis Ontology), PROV (W3C Provenance Ontology), and SWO (Software Ontology, which includes the EDAM ontologies) ontologies. It adds some assertions of its own, as well as some classes and individuals that may eventually get pushed down into one of the respective source ontologies. This ontology is maintained at http://github.com/miapa/miapa, and requests for changes or additions should be filed at the issue tracker there. The discussion list is at miapa-discuss@googlegroups.com. Further resources about MIAPA can be found at the project's main page at http://evoio.org/wiki/MIAPA. | Sun Aug 16 19:56:32 BST 2020 |
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| Ontology of Prokaryotic Phenotypic and Metabolic Characters | MICRO | An ontology of prokaryotic phenotypic and metabolic characters | Wed Apr 22 07:27:36 BST 2020 |
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| Mosquito insecticide resistance | MIRO | Application ontology for entities related to insecticide resistance in mosquitos | Sun Aug 16 20:30:17 BST 2020 |
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| Measurement method ontology | MMO | A representation of the variety of methods used to make clinical and phenotype measurements. | Sun Aug 16 21:03:46 BST 2020 |
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| Mouse Developmental Stages | MmusDv | Life cycle stages for Mus Musculus | Sun Aug 16 21:35:07 BST 2020 |
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| Protein modification | MOD | PSI-MOD is an ontology consisting of terms that describe protein chemical modifications | Mon Feb 15 06:53:08 GMT 2021 |
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| Mondo Disease Ontology | MONDO | A semi-automatically constructed ontology that merges in multiple disease resources to yield a coherent merged ontology. | Thu Mar 04 07:29:16 GMT 2021 |
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| MOP | MOP | MOP is the molecular process ontology. It contains the molecular processes that underlie the name reaction ontology RXNO, for example cyclization, methylation and demethylation. | Mon Feb 01 05:31:14 GMT 2021 |
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| The Mammalian Phenotype Ontology | MP | The Mammalian Phenotype Ontology is being developed by Cynthia L. Smith, Susan M. Bello, Carroll W. Goldsmith and Janan T. Eppig, as part of the Mouse Genome Database (MGD) Project, Mouse Genome Informatics (MGI), The Jackson Laboratory, Bar Harbor, ME. This file contains pre-coordinated phenotype terms, definitions and synonyms that can be used to describe mammalian phenotypes. The ontology is represented as a directed acyclic graph (DAG). It organizes phenotype terms into major biological system headers such as nervous system and respiratory system. This ontology is currently under development. Weekly updates are available at the Mouse Genome Informatics (MGI) ftp site (ftp://ftp.informatics.jax.org/pub/reports/index.html#pheno) as well as the OBO Foundry site (http://obofoundry.org/). Questions, comments and suggestions are welcome, and should be directed to pheno@jax.org, Susan.Bello@jax.org or to GitHub tracker (https://github.com/obophenotype/mammalian-phenotype-ontology/issues) MGD is funded by NIH/NHGRI grant HG000330. | Fri Jan 29 11:10:47 GMT 2021 |
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| Mouse pathology ontology | MPATH | A structured controlled vocabulary of mutant and transgenic mouse pathology phenotypes | Mon Aug 17 00:23:16 BST 2020 |
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| Minimum PDDI Information Ontology | MPIO | An ontology of minimum information regarding potential drug-drug interaction information. | Mon Aug 17 00:54:56 BST 2020 |
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| MHC Restriction Ontology | MRO | The MHC Restriction Ontology is an application ontology capturing how Major Histocompatibility Complex (MHC) restriction is defined in experiments, spanning exact protein complexes, individual protein chains, serotypes, haplotypes and mutant molecules, as well as evidence for MHC restrictions. | Thu Mar 04 09:27:05 GMT 2021 |
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| Mass spectrometry ontology | MS | A structured controlled vocabulary for the annotation of experiments concerned with proteomics mass spectrometry. | Mon Aug 17 02:01:34 BST 2020 |
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| Metabolomics Standards Initiative Ontology (MSIO) | MSIO | an application ontology for supporting description and annotation of mass-spectrometry and nmr-spectroscopy based metabolomics experiments and fluxomics studies. | Mon Aug 17 02:34:16 BST 2020 |
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| Neuro Behavior Ontology | NBO | An ontology of human and animal behaviours and behavioural phenotypes | Wed Feb 24 15:52:40 GMT 2021 |
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| NCBI organismal classification | NCBITAXON | An ontology representation of the NCBI organismal taxonomy | Thu Feb 18 06:20:37 GMT 2021 |
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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 Feb 16 13:11:51 GMT 2021 |
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| Non-Coding RNA Ontology | NCRO | An ontology for non-coding RNA, both of biological origin, and engineered. | Mon Aug 17 05:49:50 BST 2020 |
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| nuclear magnetic resonance CV | NMR | This artefact is an MSI-approved controlled vocabulary primarily developed under COSMOS EU and PhenoMeNal EU governance. The nmrCV is supporting the nmrML XML format with standardized terms. nmrML is a vendor agnostic open access NMR raw data standard. Its primaly role is analogous to the mzCV for the PSI-approved mzML XML format. It uses BFO2.0 as its Top level. This CV was derived from two predecessors (The NMR CV from the David Wishart Group, developed by Joseph Cruz) and the MSI nmr CV developed by Daniel Schober at the EBI. This simple taxonomy of terms (no DL semantics used) serves the nuclear magnetic resonance markup language (nmrML) with meaningful descriptors to amend the nmrML xml file with CV terms. Metabolomics scientists are encouraged to use this CV to annotrate their raw and experimental context data, i.e. within nmrML. The approach to have an exchange syntax mixed of an xsd and CV stems from the PSI mzML effort. The reason to branch out from an xsd into a CV is, that in areas where the terminology is likely to change faster than the nmrML xsd could be updated and aligned, an externally and decentrallised maintained CV can accompensate for such dynamics in a more flexible way. A second reason for this set-up is that semantic validity of CV terms used in an nmrML XML instance (allowed CV terms, position/relation to each other, cardinality) can be validated by rule-based proprietary validators: By means of cardinality specifications and XPath expressions defined in an XML mapping file (an instances of the CvMappingRules.xsd ), one can define what ontology terms are allowed in a specific location of the data model. | Thu Oct 01 03:38:03 BST 2020 |
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| NOMEN - A nomenclatural ontology for biological names | NOMEN | NOMEN is a nomenclatural ontology for biological names (not concepts). It encodes the goverened rules of nomenclature. | Mon Jan 04 15:23:04 GMT 2021 |
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| OAE: Ontology of Adverse Events | OAE | The Ontology of Adverse Eventsy (OAE) is a biomedical ontology in the domain of adverse events. OAE aims to standardize adverse event annotation, integrate various adverse event data, and support computer-assisted reasoning. OAE is a community-based ontology. Its development follows the OBO Foundry principles. Vaccine adverse events have been used as an initial testing use case. OAE also studies adverse events associated with the administration of drug and nutritional products, the operation of surgeries, and the usage of medical devices, etc. | Thu Feb 11 04:51:34 GMT 2021 |
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| Ontology of Arthropod Circulatory Systems | OARCS | OArCS is an ontology describing the Arthropod ciruclatory system. | Mon Aug 17 07:35:14 BST 2020 |
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| Ontology of Biological Attributes | OBA | A collection of biological attributes (traits) covering all kingdoms of life. | Mon Aug 17 08:13:08 BST 2020 |
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| Ontology of Biological and Clinical Statistics | OBCS | OBCS stands for the Ontology of Biological and Clinical Statistics. OBCS is an ontology in the domain of biological and clinical statistics. It is aligned with the Basic Formal Ontology (BFO) and the Ontology for Biomedical Investigations (OBI). OBCS imports all possible biostatistics terms in OBI and includes many additional biostatistics terms, some of which were proposed and discussed in the OBI face-to-face workshop in Ann Arbor in 2012. | Mon Aug 17 08:47:37 BST 2020 |
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| Ontology for Biomedical Investigations | OBI | The Ontology for Biomedical Investigations (OBI) is build in a collaborative, international effort and will serve as a resource for annotating biomedical investigations, including the study design, protocols and instrumentation used, the data generated and the types of analysis performed on the data. This ontology arose from the Functional Genomics Investigation Ontology (FuGO) and will contain both terms that are common to all biomedical investigations, including functional genomics investigations and those that are more domain specific. | Mon Jan 04 15:56:31 GMT 2021 |
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| Ontology for BIoBanking (OBIB) | OBIB | The Ontology for Biobanking (OBIB) is an ontology for the annotation and modeling of the activities, contents, and administration of a biobank. Biobanks are facilities that store specimens, such as bodily fluids and tissues, typically along with specimen annotation and clinical data. OBIB is based on a subset of the Ontology for Biomedical Investigation (OBI), has the Basic Formal Ontology (BFO) as its upper ontology, and is developed following OBO Foundry principles. The first version of OBIB resulted from the merging of two existing biobank-related ontologies, OMIABIS and biobank ontology. | Thu Feb 11 05:38:05 GMT 2021 |
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| OGG: Ontology of Genes and Genomes | OGG | OGG is a biological ontology in the area of genes and genomes. OGG uses the Basic Formal Ontology (BFO) as its upper level ontology. This OGG document contains the genes and genomes of a list of selected organisms, including human, two viruses (HIV and influenza virus), and bacteria (B. melitensis strain 16M, E. coli strain K-12 substrain MG1655, M. tuberculosis strain H37Rv, and P. aeruginosa strain PAO1). More OGG information for other organisms (e.g., mouse, zebrafish, fruit fly, yeast, etc.) may be found in other OGG subsets. | Tue Dec 15 13:28:18 GMT 2020 |
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| Ontology for genetic interval | OGI | OGI formalized the genomic element by defining an upper class 'genetic interval'. The definition of 'genetic interval' is "the spatial continuous physical entity which contains ordered genomic sets(DNA, RNA, Allele, Marker,etc.) between and including two points (Nucleic Acid Base Residue) on a chromosome or RNA molecule which must have a liner primary sequence sturcture." Related paper: 1. Yu Lin, Norihiro Sakamoto (2009) “Genome, Gene, Interval and Ontology” Interdisciplinary Ontology Vol.2 - Proceedings of the Second Interdisciplinary Meeting, Tokyo, Feb. 28th- Mar. 1st, 2009. Page(s):25-34 (http://cdb-riken.academia.edu/LinYu/Papers/142399/Genome_Gene_Interval_and_Ontology) Yu Lin, Hiroshi Tarui, Peter Simons (2009) “From Ontology for Genetic Interval(OGI) to Sequence Assembly – Ontology apply to next generation sequencing” Proceeding of the Semantic Web Applications and Tools for Life Science Workshop, Amsterdam, Nov.20th, 2009. (http://ceur-ws.org/Vol-559/Poster2.pdf) Yu Lin, Peter Simons (2010) “DNA sequence from below: A Nominalist Approach” Interdisciplinary Ontology Vol.3 - Proceedings of the Second Interdisciplinary Meeting, Tokyo, Feb. 28th- Mar. 1st, 2010. (http://philpapers.org/rec/LINDSF) | Wed Mar 23 17:37:20 GMT 2016 |
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| Ontology for General Medical Science | OGMS | The Ontology for General Medical Science (OGMS) is an ontology of entities involved in a clinical encounter. OGMS includes very general terms that are used across medical disciplines, including: 'disease', 'disorder', 'disease course', 'diagnosis', 'patient', and 'healthcare provider'. OGMS uses the Basic Formal Ontology (BFO) as an upper-level ontology. The scope of OGMS is restricted to humans, but many terms can be applied to a variety of organisms. OGMS provides a formal theory of disease that can be further elaborated by specific disease ontologies. This theory is implemented using OWL-DL and OBO Relation Ontology relations and is available in OWL and OBO formats. OGMS is based on the papers Toward an Ontological Treatment of Disease and Diagnosis and On Carcinomas and Other Pathological Entities. The ontology attempts to address some of the issues raised at the Workshop on Ontology of Diseases (Dallas, TX) and the Signs, Symptoms, and Findings Workshop(Milan, Italy). OGMS was formerly called the clinical phenotype ontology. Terms from OGMS hang from the Basic Formal Ontology. | Thu Sep 10 02:29:48 BST 2020 |
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| Ontology of Genetic Susceptibility Factor | OGSF | An application ontology to represent genetic susceptibility to a specific disease, adverse event, or a pathological process. | Mon Aug 17 11:39:51 BST 2020 |
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| The Oral Health and Disease Ontology | OHD | The Oral Health and Disease Ontology was created, initially, to represent the content of dental practice health records. | Wed Jan 04 01:12:12 GMT 2017 |
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| OHMI: Ontology of Host-Microbiome Interactions | OHMI | OHMI is a biomedical ontology that represents the entities and relations in the domain of host-microbiome interactions. | Mon Aug 17 12:13:53 BST 2020 |
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| OHPI: Ontology of Host-Pathogen Interactions | OHPI | OHPI is a biomedical ontology in the area of host-pathogen interactions. OHPI is developed by following the OBO Foundry Principles (e.g., openness and collaboration). | Wed Jan 08 08:44:30 GMT 2020 |
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| Medaka Developmental Stages | OlatDv | Life cycle stages for Medaka | Sat Apr 11 11:17:01 BST 2020 |
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| Ontology of units of Measure (OM) | OM | The OM ontology provides classes, instances, and properties that represent the different concepts used for defining and using measures and units. It includes, for instance, common units such as the SI units meter and kilogram, but also units from other systems of units such as the mile or nautical mile. For many application areas it includes more specific units and quantities, such as the unit of the Hubble constant: km/s/Mpc, or the quantity vaselife. OM defines the complete set of concepts in the domain as distinguished in the textual standards. As a result the ontology can answer a wider range of competency questions than the existing approaches do. The following application areas are supported by OM: Geometry; Mechanics; Thermodynamics; Electromagnetism; Fluid mechanics; Chemical physics; Photometry; Radiometry and Radiobiology; Nuclear physics; Astronomy and Astrophysics; Cosmology; Earth science; Meteorology; Material science; Microbiology; Economics; Information technology; Typography; Shipping; Food engineering; Post-harvest; technology; Dynamics of texture and taste; Packaging | Mon Feb 15 08:41:05 GMT 2021 |
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| Ontologized MIABIS | OMIABIS | An ontological version of MIABIS (Minimum Information About BIobank data Sharing) | Mon May 23 07:23:55 BST 2016 |
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| Ontology for MIRNA Target | OMIT | Ontology to establish data exchange standards and common data elements in the microRNA (miR) domain | Fri Jun 07 00:55:21 BST 2019 |
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| OBO Metadata Ontology | OMO | An ontology specifies terms that are used to annotate ontology terms for all OBO ontologies. The ontology was developed as part of Information Artifact Ontology (IAO). | Mon Jun 15 10:55:31 BST 2020 |
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| Ontology of Microbial Phenotypes | OMP | An ontology of phenotypes covering microbes | Mon Feb 08 16:52:43 GMT 2021 |
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| 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. | Fri Dec 11 14:44:15 GMT 2020 |
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| Ontology for Nutritional Epidemiology | ONE | An ontology to standardize research output of nutritional epidemiologic studies. | Wed Jan 13 22:37:12 GMT 2021 |
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| Ontology for Nutritional Studies | ONS | An ontology for description of concepts in the nutritional studies domain. | Wed Jul 15 10:33:27 BST 2020 |
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| Obstetric and Neonatal Ontology | ONTONEO | The Obstetric and Neonatal Ontology is a structured controlled vocabulary to provide a representation of the data from electronic health records (EHRs) involved in the care of the pregnant woman, and of her baby. | Fri Jul 28 03:27:38 BST 2017 |
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| Ontology of Organizational Structures of Trauma centers and Trauma Systems | OOSTT | An ontology built for representating the organizational components of trauma centers and trauma systems. | Thu Jan 14 00:27:25 GMT 2021 |
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| Ontology for Parasite Lifecycle | OPL | The Ontology for Parasite Lifecycle (OPL) models the life cycle stage details of various parasites, including Trypanosoma sp., Leishmania major, and Plasmodium sp., etc. In addition to life cycle stages, the ontology also models necessary contextual details, such as host information, vector information, and anatomical location. OPL is based on the Basic Formal Ontology (BFO) and follows the rules set by the OBO Foundry consortium. | Fri Jan 29 12:53:44 GMT 2021 |
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| OPMI: Ontology of Precision Medicine and Investigation | OPMI | OPMI is a biomedical ontology in the area of precision medicine and its related investigations. It is community-driven and developed by following the OBO Foundry ontology development principles. | Wed Jan 20 04:47:22 GMT 2021 |
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| Orphanet Rare Disease Ontology | ORDO | The Orphanet Rare Disease ontology (ORDO) is jointly developed by Orphanet and the EBI to provide 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 derived from the Orphanet database (www.orpha.net ) , a multilingual database dedicated to rare diseases populated from literature and validated by international experts. 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) or classifications (ICD10). | Fri Dec 18 09:18:36 GMT 2020 |
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| Ontology for RNA sequencing (ORNASEQ) | ORNASEQ | An application ontology designed to annotate next-generation sequencing experiments performed on RNA. | Fri Aug 16 21:02:11 BST 2019 |
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| OVAE: Ontology of Vaccine Adverse Events | OVAE | OVAE is a biomedical ontology in the area of vaccine adverse events. OVAE is an extension of the community-based Ontology of Adverse Events (OAE). | Mon Apr 25 02:43:14 BST 2016 |
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| PATO - the Phenotype And Trait Ontology | PATO | An ontology of phenotypic qualities (properties, attributes or characteristics). | Mon Aug 03 04:10:24 BST 2020 |
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| 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. It is taxon neutral, and can be used for any species, including humans. The classes in the PCO are useful for describing evolutionary processes, organismal interactions, and ecological experiments. Practical applications of the PCO include community health care, plant pathology, behavioral studies, sociology, and ecology. | Thu Aug 27 02:14:11 BST 2020 |
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| The Prescription of Drugs Ontology | PDRO | An ontology to describe entities related to prescription of drugs | Wed Feb 24 16:28:04 GMT 2021 |
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| Platynereis Developmental Stages | PdumDv | Life cycle stages for Platynereis dumerilii | Sat Apr 11 15:56:26 BST 2020 |
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| Plant Experimental Conditions Ontology | PECO | A structured, controlled vocabulary which describes the treatments, growing conditions, and/or study types used in plant biology experiments. | Fri Nov 13 07:26:45 GMT 2020 |
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| PHI-base Ontology | PHI | Pathogen-Host Interaction database Ontology used by Ensembl | Mon Dec 10 09:03:07 GMT 2018 |
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| Pathogen Host Interactions Phenotype Ontology | PHIPO | Ontology of species-neutral phenotypes observed in pathogen-host interactions. | Fri Feb 26 02:47:03 GMT 2021 |
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| planaria-ontology | PLANA | PLANA, the planarian anatomy ontology, encompasses the anatomy and life cycle stages for both __Schmidtea mediterranea__ biotypes. | Mon Dec 14 11:46:10 GMT 2020 |
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| Planarian Phenotype Ontology (PLANP) | PLANP | Planarian Phenotype Ontology is an ontology of phenotypes observed in the planarian Schmidtea mediterranea. | Sat Apr 11 19:21:50 BST 2020 |
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| Plant Ontology | PO | The Plant Ontology is a structured vocabulary and database resource that links plant anatomy, morphology and growth and development to plant genomics data. | Fri Aug 21 07:04:24 BST 2020 |
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| Porifera (sponge) ontology | PORO | An ontology describing the anatomical structures and characteristics of Porifera (sponges) | Thu Sep 15 03:05:04 BST 2016 |
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| Plant Phenology Ontology | PPO | An ontology for describing the phenology of individual plants and populations of plants, and for integrating plant phenological data across sources and scales. | Tue Oct 30 05:07:24 GMT 2018 |
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| PRotein Ontology (PRO) | PR | An ontological representation of protein-related entities | Mon Mar 01 16:06:51 GMT 2021 |
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| PRIDE Controlled Vocabulary | PRIDE | The PRIDE PRoteomics IDEntifications (PRIDE) database is a centralized, standards compliant, public data repository for proteomics data, including protein and peptide identifications, post-translational modifications and supporting spectral evidence. | Mon Mar 01 17:50:38 GMT 2021 |
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| Probability Distribution Ontology | PROBONTO | ProbOnto, is an ontology-based knowledge base of probability distributions, featuring more than eighty uni- and multivariate distributions with their defining functions, characteristics, relationships and reparameterisation formulas. | Wed May 17 12:18:40 BST 2017 |
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| Provenance Ontology (PROV-O) | PROV | Fri Feb 26 04:16:55 GMT 2021 |
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| Performance Summary Display Ontology | PSDO | Performance Summary Display Ontology (PSDO) (pronounced "pseudo" or "sudo") is an application ontology about charts, tables, and graphs that are used to communicate performance information to employees and teams in organizations. PSDO's domain focus is on healthcare organizations that use performance summary displays in clinical dashboards and feedback interventions for healthcare professionals and teams. The displays commonly show information about the quality of care and health outcomes that has been derived from clinical data using performance measures (aka metrics, process indicators, quality measures, etc). PSDO uses Basic Formal Ontology as its upper level ontology. This work is not peer-reviewed. | Mon Jan 04 17:06:24 GMT 2021 |
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| Plant Stress Ontology | PSO | The Plant Stress Ontology describes... | Wed Jul 15 12:06:10 BST 2020 |
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| Pathway ontology | PW | A controlled vocabulary for annotating gene products to pathways. | Wed Oct 23 10:16:31 BST 2019 |
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| Radiation Biology Ontology | RBO | The RBO is an ontology about Radiation Biology, with emphasis on Space Biology. | Fri Jan 29 18:09:47 GMT 2021 |
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| REPRODUCE-ME Ontology | REPR | The REPRODUCE-ME ontology is an extension of the PROV-O and the P-Plan ontology to describe a complete path of a scientific experiment. It expresses the REPRODUCE-ME Data Model using the OWL2 Web Ontology Language (OWL2). It provides a set of classes and properties to represent a scientific experiment including its computational and non-computational steps to track the provenance of results. It describes a complete path of a scientific experiment considering the use-case of biological imaging and microscopy experiments, computational experiments, including Jupyter notebooks and scripts. It describes an experiment and its data, agents, activities, plans, steps, variables, instruments, materials, and settings required for its reproducibility. | Thu Nov 05 18:04:04 GMT 2020 |
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| Regulation of Transcription Ontology | ReTO | Regulation of Transcription | Tue Sep 17 09:49:12 BST 2019 |
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| Physico-chemical process | REX | An ontology of physico-chemical processes, i.e. physico-chemical changes occurring in course of time. | Mon Nov 20 05:52:04 GMT 2017 |
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| Regulation of Gene Expression Ontology | ReXO | Regulation of Gene Expression | Thu Apr 11 06:45:12 BST 2019 |
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| The RNA Ontology (RNAO): An Ontology for Integrating RNA Sequence and Structure Data | RNAO | Controlled vocabulary pertaining to RNA function and based on RNA sequences, secondary and three-dimensional structures. | Mon Apr 15 20:00:40 BST 2019 |
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| OBO Relations Ontology | RO | The OBO Relations Ontology (RO) is a collection of OWL relations (ObjectProperties) intended for use across a wide variety of biological ontologies. | Mon Jan 04 17:40:34 GMT 2021 |
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| Rat Strain Ontology | RS | Ontology of rat strains | Sat Apr 11 21:44:08 BST 2020 |
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| RXNO | RXNO | RXNO is the name reaction ontology. It contains more than 500 classes representing organic reactions such as the Diels–Alder cyclization. | Mon Feb 01 06:44:33 GMT 2021 |
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| Systems Biology Ontology | SBO | Terms commonly used in Systems Biology, and in particular in computational modeling. | Thu Mar 04 11:12:16 GMT 2021 |
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| Sickle Cell Disease Ontology | SCDO | The Sickle Cell Disease Ontology (SCDO) project is a collaboration between H3ABioNet (Pan African Bioinformatics Network) and SPAN (Sickle Cell Disease Pan African Network). The SCDO is currently under development and its purpose is to 1) establish community standardized SCD terms and descriptions, 2) establish canonical and hierarchical representation of knowledge on SCD and 3) link to other ontologies and bodies of work such as DO, PhenX MeSH, ICD, NCI’s thesaurus, SNOMED and OMIM. | Wed Jul 10 18:16:15 BST 2019 |
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| Sustainable Development Goals Interface Ontology | SDGIO | An OBO-compliant ontology representing the entities referenced by the SDGs, their targets, and indicators. | Thu Jun 18 08:06:47 BST 2020 |
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| Scientific Evidence and Provenance Information Ontology | SEPIO | An ontology for representing the provenance of scientific claims and the evidence that supports them. | Mon Aug 19 13:15:36 BST 2019 |
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| Social Insect Behavior Ontology | SIBO | Social Behavior in insects | Wed Mar 23 20:03:52 GMT 2016 |
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| Semanticscience Integrated Ontology | SIO | The Semanticscience Integrated Ontology (SIO) provides a simple, integrated ontology of types and relations for rich description of objects, processes and their attributes. | Wed Feb 24 17:38:40 GMT 2021 |
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| Sequence types and features ontology | SO | A structured controlled vocabulary for sequence annotation, for the exchange of annotation data and for the description of sequence objects in databases. | Wed Feb 17 10:01:00 GMT 2021 |
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| Spider Ontology | SPD | An ontology for spider comparative biology including anatomical parts (e.g. leg, claw), behavior (e.g. courtship, combing) and products (i.g. silk, web, borrow). | Wed Feb 27 09:45:24 GMT 2019 |
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| FAIRsharing Subject Ontology (SRAO) | SRAO | The FAIRsharing Subject Ontology (SRAO) is an application ontology for the categorization of research disciplines across all research domains, from the humanities to the natural sciences. It utilizes multiple external vocabularies. | Mon Aug 10 22:25:02 BST 2020 |
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| STATO: the statistical methods ontology | STATO | STATO is the statistical methods ontology. It contains concepts and properties related to statistical methods, probability distributions and other concepts related to statistical analysis, including relationships to study designs and plots. | Fri Sep 07 04:55:31 BST 2018 |
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| SWO (The Software Ontology) | SWO | The Software Ontology (SWO) is a resource for describing software tools, their types, tasks, versions, provenance and associated data. It contains detailed information on licensing and formats as well as software applications themselves, mainly (but not limited) to the bioinformatics community. | Mon Nov 11 08:38:20 GMT 2019 |
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| Symptom Ontology | SYMP | The Symptom Ontology has been developed as a standardized ontology for symptoms of human diseases. | Tue Nov 17 05:35:35 GMT 2020 |
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| Tick Anatomy Ontology | TADS | The anatomy of the Tick, <i>Families: Ixodidae, Argassidae</i> | Fri Feb 28 15:48:02 GMT 2020 |
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| Taxonomic rank vocabulary | TAXRANK | A vocabulary of taxonomic ranks (species, family, phylum, etc) | Mon Apr 18 14:03:17 BST 2016 |
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| Terminology for Description of Dynamics | TEDDY | TEDDY is an ontology for dynamical behaviours, observable dynamical phenomena, and control elements of bio-models and biological systems in Systems and Synthetic Biology. | Thu Feb 04 17:35:42 GMT 2021 |
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| Mosquito gross anatomy ontology | TGMA | A structured controlled vocabulary of the anatomy of mosquitoes. | Fri Feb 28 17:05:10 GMT 2020 |
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| Plant Trait Ontology | TO | A controlled vocabulary of describe phenotypic traits in plants. | Wed Oct 14 14:59:22 BST 2020 |
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| 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. The pathogen transmission may occur either directly or indirectly and may involve animate vectors or inanimate vehicles. | Wed Aug 05 04:40:00 BST 2020 |
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| Teleost taxonomy ontology | TTO | An ontology covering the taxonomy of teleosts (bony fish) | Mon Mar 26 07:18:51 BST 2018 |
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| TOXic Process Ontology (TXPO) | TXPO | Elucidating the mechanism of toxicity is crucial in drug safety evaluations. TOXic Process Ontology (TXPO) systematizes a wide variety of terms involving toxicity courses and processes. The first version of TXPO focuses on liver toxicity. The TXPO contains an is-a hierarchy that is organized into three layers: the top layer contains general terms, mostly derived from the Basic Formal Ontology. The intermediate layer contains biomedical terms in OBO foundry from UBERON, Cell Ontology, NCBI Taxon, ChEBI, Gene Ontology, PATO, OGG, INOH, HINO, NCIT, DOID and Relational ontology (RO). The lower layer contains toxicological terms. In applied work, we have developed a prototype of TOXPILOT, a TOXic Process InterpretabLe knOwledge sysTem. TOXPILOT provides visualization maps of the toxic course, which facilitates capturing the comprehensive picture for understanding toxicity mechanisms. A prototype of TOXPILOT is available: https://toxpilot.nibiohn.go.jp | Fri Jul 10 10:47:45 BST 2020 |
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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. | Thu Feb 18 07:58:09 GMT 2021 |
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| Unimod protein modification database for mass spectrometry | UNIMOD | Unimod is a community supported, comprehensive database of protein modifications for mass spectrometry applications. That is, accurate and verifiable values, derived from elemental compositions, for the mass differences introduced by all types of natural and artificial modifications. Other important information includes any mass change, (neutral loss), that occurs during MS/MS analysis, an d site specificity, (which residues are susceptible to modification and any constraints on the position of the modification within the protein or peptide). | Wed Jul 22 05:03:32 BST 2020 |
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| Units of measurement ontology | UO | Metrical units for use in conjunction with PATO | Fri Nov 27 16:58:13 GMT 2020 |
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| Unipathway | UPA | A manually curated resource for the representation and annotation of metabolic pathways | Thu Jul 25 03:09:36 BST 2019 |
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| Unified phenotype ontology (uPheno) | UPHENO | The uPheno ontology integrates multiple phenotype ontologies into a unified cross-species phenotype ontology. | Tue Oct 31 04:30:26 GMT 2017 |
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| Variation Ontology | VARIO | Variation Ontology, VariO, is an ontology for standardized, systematic description of effects, consequences and mechanisms of variations. | Wed Nov 14 20:00:23 GMT 2018 |
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| The Virus Infectious Disease Ontology | VIDO | The Virus Infectious Disease Ontology (IDO Virus) is an extension of the Infectious Disease Ontology (IDO). IDO Virus follows OBO Foundry guidelines, employs the Basic Formal Ontology as its starting point, and covers epidemiology, classification, pathogenesis, and treatment of terms used by Virologists, i.e. virus, prion, satellite, viroid, etc. | Fri Sep 25 07:22:00 BST 2020 |
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| Vaccine Ontology | VO | The Vaccine Ontology (VO) is a biomedical ontology in the domain of vaccine and vaccination. VO aims to standardize vaccine annotation, integrate various vaccine data, and support computer-assisted reasoning. VO supports basic vaccine R&D and clincal vaccine usage. VO is being developed as a community-based ontology with support and collaborations from the vaccine and bio-ontology communities. | Tue Feb 16 16:34:15 GMT 2021 |
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| Vertebrate trait ontology | VT | An ontology of traits covering vertebrates | Wed Feb 17 11:58:02 GMT 2021 |
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| Vertebrate Taxonomy Ontology | VTO | Comprehensive hierarchy of extinct and extant vertebrate taxa. | Mon Nov 16 06:33:36 GMT 2020 |
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| C. elegans Gross Anatomy Ontology | WBbt | Ontology about the gross anatomy of the C. elegans | Tue Dec 15 15:52:42 GMT 2020 |
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| C. elegans Development Ontology | WBls | Ontology about the development and life stages of the C. elegans | Wed Feb 10 06:45:16 GMT 2021 |
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| C elegans Phenotype Ontology | WBPhenotype | Ontology about C. elegans and other nematode phenotypes | Tue Mar 02 09:28:55 GMT 2021 |
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| Xenopus Anatomy Ontology | XAO | XAO represents the anatomy and development of the African frogs Xenopus laevis and tropicalis. | Mon Jun 29 09:53:51 BST 2020 |
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| Experimental condition ontology | XCO | Conditions under which physiological and morphological measurements are made both in the clinic and in studies involving humans or model organisms. | Sun Apr 12 06:58:15 BST 2020 |
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| Cross-linker reagents ontology | XL | A structured controlled vocabulary for cross-linking reagents used with proteomics mass spectrometry. |
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| HUPO-PSI cross-linking and derivatization reagents controlled vocabulary | XLMOD | A structured controlled vocabulary for cross-linking reagents used with proteomics mass spectrometry. |
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| Xenopus Phenotype Ontology | XPO | XPO represents anatomical, cellular, and gene function phenotypes occurring throughout the development of the African frogs Xenopus laevis and tropicalis. | Mon Jul 06 04:48:51 BST 2020 |
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| Zebrafish Experimental Conditions Ontology | ZECO | None | Tue Dec 01 15:11:23 GMT 2020 |
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| Zebrafish anatomy and development ontology | ZFA | A structured controlled vocabulary of the anatomy and development of the Zebrafish | Sun Apr 12 10:29:12 BST 2020 |
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| Zebrafish developmental stages ontology | ZFS | Developmental stages of the Zebrafish | Sun Apr 12 11:39:46 BST 2020 |
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| Zebrafish Phenotype Ontology | ZP | The Zebrafish Phenotype Ontology formally defines all phenotypes of the Zebrafish model organism. | Mon Aug 03 05:36:09 BST 2020 |
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