bioregistry 0.13.16__py3-none-any.whl → 0.13.18__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- bioregistry/data/bioregistry.json +308 -149
- bioregistry/data/curated_papers.tsv +2 -0
- bioregistry/external/aberowl/processed.json +40 -22
- bioregistry/external/bartoc/processed.json +47 -19
- bioregistry/external/biolink/processed.json +3 -0
- bioregistry/external/bioportal/agroportal.json +137 -15
- bioregistry/external/bioportal/bioportal.json +155 -56
- bioregistry/external/bioportal/ecoportal.json +21 -0
- bioregistry/external/fairsharing/processed.json +27 -32
- bioregistry/external/go/processed.json +1 -0
- bioregistry/external/integbio/processed.json +158 -27
- bioregistry/external/obofoundry/processed.json +2 -1
- bioregistry/external/ols/processed.json +71 -113
- bioregistry/external/re3data/processed.json +69 -15
- bioregistry/version.py +1 -1
- {bioregistry-0.13.16.dist-info → bioregistry-0.13.18.dist-info}/METADATA +2 -2
- {bioregistry-0.13.16.dist-info → bioregistry-0.13.18.dist-info}/RECORD +19 -19
- {bioregistry-0.13.16.dist-info → bioregistry-0.13.18.dist-info}/WHEEL +2 -2
- {bioregistry-0.13.16.dist-info → bioregistry-0.13.18.dist-info}/entry_points.txt +0 -0
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"homepage": "https://github.com/obophenotype/human-developmental-anatomy-ontology/",
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"name": "Anatomical Entity Ontology",
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"prefix": "aeo",
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"tracker": "https://github.com/obophenotype/human-developmental-anatomy-ontology/issues"
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"tracker": "https://github.com/obophenotype/human-developmental-anatomy-ontology/issues",
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"version": "2022-09-13",
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"version.iri": "http://purl.obolibrary.org/obo/aeo/releases/2022-09-13/aeo.owl"
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"afo": {
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"description": "Allotrope Merged Ontology Suite",
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"name": "Ascomycete Phenotype Ontology (APO)",
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"prefix": "apo",
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"tracker": "https://github.com/obophenotype/ascomycete-phenotype-ontology/issues",
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"version": "
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"version.iri": "http://purl.obolibrary.org/obo/apo/releases/
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"version": "2026-01-12",
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"version.iri": "http://purl.obolibrary.org/obo/apo/releases/2026-01-12/apo.owl"
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"apollo_sv": {
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"description": "An OWL2 ontology of phenomena in infectious disease epidemiology and population biology for use in epidemic simulation.",
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},
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"bcgo": {
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"description": "An application ontology built for beta cell genomics studies.",
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"download_owl": "http://purl.obolibrary.org/obo/bcgo.owl",
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"homepage": "https://github.com/obi-bcgo/bcgo",
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"name": "Beta Cell Genomics Ontology",
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"prefix": "bcgo",
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"version": "2019-08-26",
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"version.iri": "http://purl.obolibrary.org/obo/bfo/2019-08-26/bfo.owl"
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"bila": {
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"homepage": "http://4dx.embl.de/4DXpress",
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"name": "Bilateria anatomy",
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"prefix": "bila",
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"version": "2019-06-12",
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"version.iri": "http://purl.obolibrary.org/obo/bila/releases/2019-06-12/bila.owl"
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"biolink": {
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"download_rdf": "https://w3id.org/biolink/biolink-model.owl.ttl",
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"homepage": "https://biolink.github.io/biolink-model/",
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},
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"caro": {
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"description": "The Common Anatomy Reference Ontology (CARO) is being developed to facilitate interoperability between existing anatomy ontologies for different species, and will provide a template for building new anatomy ontologies.",
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"download_owl": "http://purl.obolibrary.org/obo/caro.owl",
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"homepage": "https://github.com/obophenotype/caro/",
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"name": "Common Anatomy Reference Ontology",
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"prefix": "caro",
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"name": "Chemical Entities of Biological Interest",
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"prefix": "chebi",
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"tracker": "https://github.com/ebi-chebi/ChEBI/issues",
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"cheminf": {
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"description": "Includes terms for the descriptors commonly used in cheminformatics software applications and the algorithms which generate them.",
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"name": "Clinical measurement ontology",
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"prefix": "cmo",
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"tracker": "https://github.com/rat-genome-database/CMO-Clinical-Measurement-Ontology/issues",
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"version": "2.
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"version.iri": "http://purl.obolibrary.org/obo/cmo/2.
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"version": "2.261",
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"version.iri": "http://purl.obolibrary.org/obo/cmo/2.261/cmo.owl"
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"cmpo": {
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"contact": "jupp@ebi.ac.uk",
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"name": "Human Disease Ontology",
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"prefix": "doid",
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"tracker": "https://github.com/DiseaseOntology/HumanDiseaseOntology/issues",
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"version": "2025-
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"version.iri": "http://purl.obolibrary.org/obo/doid/releases/2025-
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"version": "2025-12-23",
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"version.iri": "http://purl.obolibrary.org/obo/doid/releases/2025-12-23/translations/doid-international.owl"
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"dpo": {
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"description": "An ontology of commonly encountered and/or high level Drosophila phenotypes.",
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"name": "Drosophila Phenotype Ontology",
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"prefix": "dpo",
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"tracker": "https://github.com/FlyBase/drosophila-phenotype-ontology/issues",
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"version.iri": "http://purl.obolibrary.org/obo/dpo/releases/
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"version": "2026-01-13",
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"version.iri": "http://purl.obolibrary.org/obo/dpo/releases/2026-01-13/dpo.owl"
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"dron": {
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"description": "An ontology to support comparative effectiveness researchers studying claims data.",
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"name": "Evidence & Conclusion Ontology (ECO)",
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"prefix": "eco",
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"tracker": "https://github.com/evidenceontology/evidenceontology/issues",
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"version.iri": "http://purl.obolibrary.org/obo/eco/releases/
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"version": "2026-01-09",
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"version.iri": "http://purl.obolibrary.org/obo/eco/releases/2026-01-09/eco.owl"
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"ecocore": {
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"description": "Ecocore is a community ontology for the concise and controlled description of ecological traits of organisms.",
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"homepage": "https://github.com/obophenotype/human-developmental-anatomy-ontology",
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"name": "Human developmental anatomy, abstract",
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"prefix": "ehdaa2",
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"tracker": "https://github.com/obophenotype/human-developmental-anatomy-ontology/issues"
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"tracker": "https://github.com/obophenotype/human-developmental-anatomy-ontology/issues",
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"version": "2024-01-11",
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"version.iri": "http://purl.obolibrary.org/obo/ehdaa2/releases/2024-01-11/ehdaa2.owl"
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"emap": {
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"description": "A structured controlled vocabulary of stage-specific anatomical structures of the mouse (Mus).",
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"download_owl": "http://purl.obolibrary.org/obo/emap.owl",
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"homepage": "http://emouseatlas.org",
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"name": "Mouse gross anatomy and development, timed",
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"version": "2020-04-13",
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"version.iri": "http://purl.obolibrary.org/obo/emap/releases/2020-04-13/emap.owl"
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"emapa": {
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"description": "An ontology for mouse anatomy covering embryonic development and postnatal stages.",
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"name": "Mouse Developmental Anatomy Ontology",
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"prefix": "emapa",
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"tracker": "https://github.com/obophenotype/mouse-anatomy-ontology/issues",
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"version.iri": "http://purl.obolibrary.org/obo/emapa/releases/2025-12-30/emapa.owl"
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"emi": {
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"name": "Drosophila gross anatomy",
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"fbcv": {
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"description": "A structured controlled vocabulary used for various aspects of annotation by FlyBase.",
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"name": "FlyBase Controlled Vocabulary",
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"description": "A structured controlled vocabulary of the development of Drosophila melanogaster.",
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"description": "The taxonomy of the family <i>Drosophilidae</i> (largely after Baechli) and of other taxa referred to in FlyBase.",
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"description": "Traits and phenotypes of flowering plants occurring in digitized Floras",
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"description": "These are the terms that are improted for FOVT to describe vertebrate traits.",
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"description": "An ontology to represent genomics cohort attributes.",
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"description": "Life cycle stages for Human",
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"homepage": "https://github.com/obophenotype/mouse-anatomy-ontology",
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"name": "Mouse adult gross anatomy",
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"description": "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.",
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"mmusdv": {
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"description": "Life cycle stages for Mus Musculus",
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"description": "an application ontology for supporting description and annotation of mass-spectrometry and nmr-spectroscopy based metabolomics experiments and fluxomics studies.",
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"name": "Ontology for Biomedical Investigations",
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"obib": {
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"description": "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.",
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"name": "OHMI: Ontology of Host-Microbiome Interactions",
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"tracker": "https://github.com/ohmi-ontology/ohmi/issues",
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"version.iri": "http://purl.obolibrary.org/obo/ohmi/2025-12-28/ohmi.owl"
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"ohpi": {
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"description": "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).",
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},
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"omiabis": {
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"description": "An ontological version of MIABIS (Minimum Information About BIobank data Sharing)",
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"download_owl": "http://purl.obolibrary.org/obo/omiabis.owl",
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"homepage": "https://github.com/OMIABIS/omiabis-dev",
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"name": "Ontologized MIABIS",
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"name": "Ontology for Modeling and Representation of Social Entities",
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"tracker": "https://github.com/mcwdsi/OMRSE/issues",
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"one": {
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"description": "An ontology to standardize research output of nutritional epidemiologic studies.",
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"name": "Plant Ontology",
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},
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"poro": {
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"description": "An ontology describing the anatomical structures and characteristics of Porifera (sponges)",
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"name": "Plant Stress Ontology",
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"prefix": "pso",
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"tracker": "https://github.com/Planteome/plant-stress-ontology/issues",
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"version.iri": "http://purl.obolibrary.org/obo/pso/releases/2026-01-08/pso.owl"
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},
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"pw": {
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"description": "A controlled vocabulary for annotating gene products to pathways.",
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"name": "Pathway ontology",
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"prefix": "pw",
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"tracker": "https://github.com/rat-genome-database/PW-Pathway-Ontology/issues",
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"version.iri": "http://purl.obolibrary.org/obo/pw/7.97/pw.owl"
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},
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"rbo": {
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"description": "RBO is an ontology for the effects of radiation on biota in terrestrial and space environments.",
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"prefix": "reto",
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"uri_format": "http://purl.obolibrary.org/obo/ReTO_$1"
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"rex": {
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"description": "An ontology of physico-chemical processes, i.e. physico-chemical changes occurring in course of time.",
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"download_owl": "http://purl.obolibrary.org/obo/rex.owl",
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"rexo": {
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"contact": "vladimir.n.mironov@gmail.com",
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"description": "Regulation of Gene Expression",
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"name": "Research Organization Registry",
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"uri_format": "https://ror.org/$1",
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"rs": {
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"description": "Ontology of rat strains",
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"name": "Rat Strain Ontology",
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"prefix": "rs",
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"tracker": "https://github.com/rat-genome-database/RS-Rat-Strain-Ontology/issues",
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},
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"rxno": {
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"contact": "chemistry-ontologies@googlegroups.com",
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"tao": {
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"description": "Multispecies fish anatomy ontology. Originally seeded from ZFA, but intended to cover terms relevant to other taxa",
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"download_owl": "http://purl.obolibrary.org/obo/tao.owl",
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"homepage": "http://wiki.phenoscape.org/wiki/Teleost_Anatomy_Ontology",
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"name": "Teleost Anatomy Ontology",
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"prefix": "tao",
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"name": "Plant Trait Ontology",
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"prefix": "to",
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"tracker": "https://github.com/Planteome/plant-trait-ontology/issues",
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"version.iri": "http://purl.obolibrary.org/obo/to/releases/2026-01-14/to.owl"
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"trans": {
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"description": "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.",
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"name": "Units of measurement ontology",
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"prefix": "uo",
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"tracker": "https://github.com/bio-ontology-research-group/unit-ontology/issues",
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"version.iri": "http://purl.obolibrary.org/obo/uo/releases/
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"upa": {
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"description": "A manually curated resource for the representation and annotation of metabolic pathways",
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},
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"vsao": {
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"description": "Vertebrate skeletal anatomy ontology.",
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"homepage": "https://www.nescent.org/phenoscape/Main_Page",
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"name": "Vertebrate Skeletal Anatomy Ontology-",
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"name": "The Vertebrate Trait Ontology",
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"prefix": "vt",
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"tracker": "https://github.com/AnimalGenome/vertebrate-trait-ontology/issues",
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"version.iri": "http://purl.obolibrary.org/obo/vt/releases/2026-01-13/vt.owl"
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"vto": {
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"description": "Comprehensive hierarchy of extinct and extant vertebrate taxa.",
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"name": "Experimental condition ontology",
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"prefix": "xco",
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"tracker": "https://github.com/rat-genome-database/XCO-experimental-condition-ontology/issues",
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"version": "4.
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"version.iri": "http://purl.obolibrary.org/obo/xco/4.
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"xlmod": {
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"contact": "psidev-ms-vocab@lists.sourceforge.net",
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|
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"version": "2025-09-05",
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"version.iri": "http://purl.obolibrary.org/obo/zfa/releases/2025-09-05/zfa.owl"
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},
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"zfs": {
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"description": "Developmental stages of the Zebrafish",
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"download_owl": "http://purl.obolibrary.org/obo/zfs.owl",
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"homepage": "https://wiki.zfin.org/display/general/Anatomy+Atlases+and+Resources",
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"name": "Zebrafish developmental stages ontology",
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"prefix": "zfs",
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"tracker": "https://github.com/cerivs/zebrafish-anatomical-ontology/issues"
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},
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"zp": {
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"description": "The Zebrafish Phenotype Ontology formally defines all phenotypes of the Zebrafish model organism.",
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"download_owl": "http://purl.obolibrary.org/obo/zp.owl",
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