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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
Porifera Ontology Resource Report Resource Website 1+ mentions |
Porifera Ontology (RRID:SCR_000134) | PORO | data or information resource, ontology, controlled vocabulary | An ontology covering the anatomy of Porifera (sponges). | owl, anatomy |
is listed by: BioPortal is listed by: OBO is listed by: Google Code is listed by: Ontobee is related to: Information Artifact Ontology |
Free, Available for download, Freely available | nlx_157558 | https://code.google.com/p/porifera-ontology/ http://purl.bioontology.org/ontology/PORO http://purl.obolibrary.org/obo/poro.owl |
http://purl.obolibrary.org/obo/poro | SCR_000134 | 2026-02-14 01:59:37 | 1 | ||||||
|
Time Event Ontology Resource Report Resource Website |
Time Event Ontology (RRID:SCR_000310) | TEO | data or information resource, ontology, controlled vocabulary | Ontology for representing events, time, and their relationships. | owl | is listed by: BioPortal | nlx_157610 | SCR_000310 | 2026-02-14 01:59:42 | 0 | |||||||||
|
Variation Ontology Resource Report Resource Website |
Variation Ontology (RRID:SCR_000311) | VARIO | data or information resource, ontology, controlled vocabulary | An ontology for standardized, systematic description of effects, consequences and mechanisms of variations. | obo | is listed by: BioPortal | nlx_157622 | SCR_000311 | 2026-02-14 01:59:41 | 0 | |||||||||
|
Semantic DICOM Ontology Resource Report Resource Website |
Semantic DICOM Ontology (RRID:SCR_000309) | SEDI | data or information resource, ontology, controlled vocabulary | An ontology for DICOM as used in the SeDI project. | owl | is listed by: BioPortal | nlx_157583 | SCR_000309 | 2026-02-14 01:59:41 | 0 | |||||||||
|
Xenopus Anatomy Ontology Resource Report Resource Website 1+ mentions |
Xenopus Anatomy Ontology (RRID:SCR_004337) | XAO | data or information resource, ontology, controlled vocabulary | A structured, controlled vocabulary of the anatomy and development of the African clawed frogs (Xenopus laevis and tropicalis), organized in a graphical structure. Tissues are shown as being part of other tissues and the timing of their development is indicated by start and end stages. The lineage of tissues is represented by develops from relationships between different tissues at different developmental stages. Many items have been classified according to the Common Anatomy Reference Ontology. The Xenopus Anatomical Ontology will be used to annotate Xenopus gene expression patterns and mutant and morphant phenotypes. Its robust developmental map will enable powerful database searches and data analyses. They encourage community recommendations for updates and improvements to the ontology. | obo, anatomy, development |
is listed by: BioPortal is listed by: OBO is related to: Bgee: dataBase for Gene Expression Evolution has parent organization: Xenbase |
AHFMR Senior Scholar award ; NICHD R01HD045776-03 |
PMID:18817563 | The community can contribute to this resource | nlx_35222 | https://xenopus-anatomy-ontology.googlecode.com/svn/trunk/current-release/xenopus_anatomy.obo http://purl.bioontology.org/ontology/XAO http://obofoundry.org/cgi-bin/detail.cgi?id=xenopus_anatomy |
SCR_004337 | Xenopus anatomy and development ontology | 2026-02-14 02:00:42 | 9 | ||||
|
SysMO JERM Ontology of Systems Biology for Micro-Organisms Resource Report Resource Website |
SysMO JERM Ontology of Systems Biology for Micro-Organisms (RRID:SCR_004569) | JERM | data or information resource, ontology, controlled vocabulary | An ontology to describe the entities and relationships in the SEEK database, a Systems Biology environment for the sharing and exchange of data and models. The SysMO-SEEK database contains the work of the SysMO consortium (Systems Biology of Micro-Organisms) https://seek.sysmo-db.org/ | owl |
is listed by: BioPortal has parent organization: SysMO-DB |
nlx_157602 | SCR_004569 | 2026-02-14 02:00:45 | 0 | |||||||||
|
PR Resource Report Resource Website |
PR (RRID:SCR_004964) | PR | data or information resource, ontology, controlled vocabulary | An ontological representation of protein-related entities by explicitly defining them and showing the relationships between them. Each PRO term represents a distinct class of entities (including specific modified forms, orthologous isoforms, and protein complexes) ranging from the taxon-neutral to the taxon-specific. The ontology has a meta-structure encompassing three areas: proteins based on evolutionary relatedness (ProEvo); protein forms produced from a given gene locus (ProForm); and protein-containing complexes (ProComp). NOTICE: The PRO ID format has changed from PRO: to PR: (e.g. PRO:000000563 is now PR:000000563). | database, obo, protein |
is listed by: BioPortal has parent organization: Protein Information Resource has parent organization: Georgetown University; Washington D.C.; USA |
NIH ; NIGMS GM080646-01 |
nlx_92849 | SCR_004964 | PRO, Protein Ontology | 2026-02-14 02:01:02 | 0 | |||||||
|
Ascomycete Phenotype Ontology Resource Report Resource Website |
Ascomycete Phenotype Ontology (RRID:SCR_003254) | APO | data or information resource, ontology, controlled vocabulary | A structured controlled vocabulary for the phenotypes of Ascomycete fungi. | obo, phenotype |
is listed by: BioPortal is listed by: OBO has parent organization: SGD |
Free, Freely available | nlx_157321 | http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/phenotype/ascomycete_phenotype.obo | SCR_003254 | 2026-02-14 02:00:44 | 0 | |||||||
|
Beta Cell Genomics Ontology Resource Report Resource Website |
Beta Cell Genomics Ontology (RRID:SCR_003259) | OBI BCGO, BCGO | data or information resource, ontology, controlled vocabulary | An application ontology built for the Beta Cell Genomics database aiming to support database annotation, complicated semantic queries, and automated cell type classification. The ontology is developed using Basic Formal Ontology (BFO) as upper ontology, Ontology for Biomedical Investigations (OBI) as ontology framework and integrated subsets of multiple OBO Foundry (candidate) ontologies. Current the BCGO contains 2383 classes including terms referencing to 24 various OBO Foundry ontologies including CL, CLO, UBERON, GO, PRO, UO, etc. | owl, cell type, classification, ontology, beta cell genomics |
uses: BFO uses: Ontology for Biomedical Investigations is listed by: BioPortal is listed by: OBO is listed by: Google Code is related to: Information Artifact Ontology has parent organization: Beta Cell Biology Consortium |
Free, Available for download, Freely available | nlx_157324 | https://github.com/obi-bcgo/bcgo | SCR_003259 | 2026-02-14 02:00:31 | 0 | |||||||
|
Biological Collections Ontology Resource Report Resource Website |
Biological Collections Ontology (RRID:SCR_003262) | BCO | data or information resource, ontology, controlled vocabulary | Ontology developed as an application ontology as part of the Biocode Commons project whose goal is to support the interoperability of biodiversity data, including data on museum collections, environmental and metagenomic samples, and ecological surveys. It includes consideration of the distinctions between individuals, organisms, voucher specimens, lots, and samples the relations between these entities, and processes governing the creation and use of samples. Within scope as well are properties including collector, location, time, storage environment, containers, institution, and collection identifiers. | owl, interoperability, biodiversity, museum collection, environmental sample, metagenomic sample, ecological survey |
is listed by: BioPortal is listed by: OBO is listed by: Google Code is related to: Information Artifact Ontology |
PMID:24595056 | Free, Available for download, Freely available | nlx_157333 | http://purl.obolibrary.org/obo/bco.owl http://purl.bioontology.org/ontology/BCO |
SCR_003262 | 2026-02-14 02:00:24 | 0 | ||||||
|
Lipid Ontology Resource Report Resource Website |
Lipid Ontology (RRID:SCR_003349) | LiPrO | data or information resource, ontology, controlled vocabulary | An ontology that describes the LIPIDMAPS nomenclature classification explicitly using description logics (OWL-DL). Lipid classes are organized hierarchically with the super-classes restricted by generic necessary conditions. More specific necessary conditions are used to define membership requirements for sub classes of lipid according to appropriate functional groups. Lipid research is increasingly integrated within systems level biology such as lipidomics where lipid classification is required before appropriate annotation of chemical functions can be applied. | owl, lipid, ontology |
is listed by: BioPortal is listed by: OBO |
Free, Available for download, Freely available | nlx_157458 | http://www.lipidprofiles.com/LipidOntology | SCR_003349 | 2026-02-14 02:00:32 | 0 | |||||||
|
Measurement Method Ontology Resource Report Resource Website |
Measurement Method Ontology (RRID:SCR_003373) | MMO | data or information resource, ontology, controlled vocabulary | An ontology designed to represent the variety of methods used to make qualitative and quantitative clinical and phenotype measurements both in the clinic and with model organisms. | obo, phenotype, clinical |
is listed by: SourceForge is listed by: BioPortal is listed by: OBO |
PMID:22654893 | Free, Available for download, Freely available | nlx_157468 | http://sourceforge.net/projects/phenoonto/ ftp://rgd.mcw.edu/pub/ontology/measurement_method/measurement_method.obo |
SCR_003373 | 2026-02-14 02:00:47 | 0 | ||||||
|
Malaria Ontology Resource Report Resource Website |
Malaria Ontology (RRID:SCR_003369) | IDOMAL | data or information resource, ontology, controlled vocabulary | An application ontology to cover all aspects of malaria (clinical, epidemiological, biological, etc) as well as the intervention attempts to control it, extending the infectious disease ontology (IDO). | obo, health, pathological, clinical, epidemiological, biological, intervention |
is listed by: BioPortal is listed by: OBO has parent organization: AnoBase: An Anopheles database |
Malaria | Free, Available for download, Freely available | nlx_157464 | http://purl.obolibrary.org/obo/idomal.obo http://anobase.vectorbase.org/idomal/IDOMAL.obo |
SCR_003369 | 2026-02-14 02:00:32 | 0 | ||||||
|
Dictyostelium Discoideum Anatomy Ontology Resource Report Resource Website |
Dictyostelium Discoideum Anatomy Ontology (RRID:SCR_003309) | DDANAT | data or information resource, controlled vocabulary | A structured controlled vocabulary of the anatomy of the slime-mould Dictyostelium discoideum. | obo, anatomy, organismal, cellular |
is listed by: BioPortal is listed by: OBO has parent organization: Dictyostelium discoideum genome database |
Free, Available for download, Freely available | nlx_157387 | http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/microbial_gross_anatomy/dictyostelium/dictyostelium_anatomy.obo | SCR_003309 | Dictyostelium discoideum anatomy | 2026-02-14 02:00:45 | 0 | ||||||
|
Minimal Anatomical Terminology Resource Report Resource Website |
Minimal Anatomical Terminology (RRID:SCR_003385) | MAT | data or information resource, ontology, controlled vocabulary | An ontology of minimal set of terms for anatomy. | obo, anatomy, organismal, ontology |
is listed by: BioPortal is listed by: OBO has parent organization: eMouseAtlas |
Free, Available for download, Freely available | nlx_157480 | http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/multispecies/minimal_anatomical_terminology.obo | SCR_003385 | 2026-02-14 02:00:47 | 0 | |||||||
|
Common Anatomy Reference Ontology Resource Report Resource Website |
Common Anatomy Reference Ontology (RRID:SCR_003296) | CARO | data or information resource, ontology, controlled vocabulary | An ontology developed to facilitate interoperability between existing anatomy ontologies for different species, and to provide a template for building new anatomy ontologies. | obo, anatomy, organismal, ontology, interoperability, template |
is used by: Teleost Anatomy Ontology is listed by: BioPortal is listed by: OBO |
Free, Freely available | nlx_157369 | https://bioportal.bioontology.org/ontologies/CARO | SCR_003296 | 2026-02-14 02:00:45 | 0 | |||||||
|
Clinical Measurement Ontology Resource Report Resource Website |
Clinical Measurement Ontology (RRID:SCR_003291) | CMO | data or information resource, ontology, controlled vocabulary | An ontology designed to be used to standardize morphological and physiological measurement records generated from clinical and model organism research and health programs. | obo, phenotype, clinical, measurement, morphology, physiology |
is listed by: SourceForge is listed by: BioPortal is listed by: OBO has parent organization: Medical College of Wisconsin; Wisconsin; USA |
PMID:22654893 | Free, Freely available | nlx_157364 | http://sourceforge.net/projects/phenoonto/ ftp://rgd.mcw.edu/pub/ontology/clinical_measurement/clinical_measurement.obo |
SCR_003291 | 2026-02-14 02:00:45 | 0 | ||||||
|
Chemical Methods Ontology Resource Report Resource Website 1+ mentions |
Chemical Methods Ontology (RRID:SCR_003286) | CHMO, RSC CMO | data or information resource, ontology, controlled vocabulary | An ontology that describes methods used to collect data in chemical experiments, such as mass spectrometry and electron microscopy; preparing and separating material for further analysis, such as sample ionization, chromatography, and electrophoresis; and synthesizing materials, such as epitaxy and continuous vapor 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). | obo, chemistry, analytical chemistry, physical chemistry, material chemistry, method, health, mass spectrometry, electron microscopy, chemical experiment, sample ionization, chromatography, electrophoresis, instrument |
is listed by: BioPortal is listed by: OBO is listed by: Google Code is listed by: Ontobee is related to: Information Artifact Ontology is related to: Ontology for Biomedical Investigations has parent organization: Royal Society of Chemistry |
Free, Available for download, Freely available | nlx_157363 | http://purl.bioontology.org/ontology/CHMO http://purl.obolibrary.org/obo/chmo.owl http://www.ontobee.org/browser/index.php?o=CHMO |
https://code.google.com/p/rsc-cmo/ | SCR_003286 | RSC Chemical Methods Ontology | 2026-02-14 02:00:44 | 1 | |||||
|
FlyBase Controlled Vocabulary Resource Report Resource Website |
FlyBase Controlled Vocabulary (RRID:SCR_003318) | FB-CV, FBcv | data or information resource, controlled vocabulary | A structured controlled vocabulary used for various aspects of annotation by FlyBase. This ontology is maintained by FlyBase for various aspects of annotation not covered, or not yet covered, by other OBO ontologies. If and when community ontologies are available for the domains here covered FlyBase will use them. | obo |
is listed by: BioPortal is listed by: OBO has parent organization: FlyBase |
Free, Available for download, Freely available | nlx_157408 | http://sourceforge.net/p/fbcv/code-0/HEAD/tree/releases/latest/fbcv-simple.obo?format=raw | SCR_003318 | 2026-02-14 02:00:25 | 0 | |||||||
|
Fission Yeast Phenotype Ontology Resource Report Resource Website |
Fission Yeast Phenotype Ontology (RRID:SCR_003315) | FYPO | data or information resource, ontology, controlled vocabulary | A formal ontology of phenotypes observed in fission yeast that is being developed to support the comprehensive and detailed representation of phenotypes in PomBase, the online fission yeast resource. Its scope is similar to that of the Ascomycete Phenotype Ontology (APO), but FYPO includes more detailed pre-composed terms as well as computable definitions. | obo, phenotype |
is listed by: BioPortal is listed by: OBO has parent organization: PomBase |
Free, Available for download, Freely available | nlx_157405 | https://sourceforge.net/p/pombase/code/HEAD/tree/phenotype_ontology/releases/latest/fypo.obo?format=raw | https://sourceforge.net/apps/trac/pombase/wiki/FissionYeastPhenotypeOntology | SCR_003315 | 2026-02-14 02:00:45 | 0 |
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