Name: BioPortal
Keywords: biomedical, thesaurus, ontology mapping, annotation, metadata standard, ontology repository, portal, web service, obo, owl, rdf, rrf protege frame, lexgrid xml

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BioPortal

RRID:SCR_002713 RRID Copied

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BioPortal (RRID:SCR_002713)

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URL: http://bioportal.bioontology.org/

Proper Citation: BioPortal (RRID:SCR_002713)

Description: Open repository of biomedical ontologies that provides access via Web browsers and Web services to ontologies. It supports ontologies in OBO format, OWL, RDF, Rich Release Format (RRF), Protege frames, and LexGrid XML. Functionality includes the ability to browse, search and visualize ontologies as well as to comment on, and create mappings for ontologies. Any registered user can submit an ontology. The NCBO Annotator and NCBO Resource Index can also be accessed via BioPortal. Additional features: * Add Reviews: rate the ontology according to several criteria and describe your experience using the ontology. * Add Mappings: submit point-to-point mappings or upload bulk mappings created with external tools. Notification of new Mappings is RSS-enabled and Mappings can be browsed via BioPortal and accessed via Web services. * NCBO Annotator: Tool that tags free text with ontology terms. NCBO uses the Annotator to generate ontology annotations, creating an ontology index of these resources accessible via the NCBO Resource Index. The Annotator can be accessed through BioPortal or directly as a Web service. The annotation workflow is based on syntactic concept recognition (using the preferred name and synonyms for terms) and on a set of semantic expansion algorithms that leverage the ontology structure (e.g., is_a relations). * NCBO Resource Index: The NCBO Resource Index is a system for ontology based annotation and indexing of biomedical data; the key functionality of this system is to enable users to locate biomedical data linked via ontology terms. A set of annotations is generated automatically, using the NCBO Annotator, and presented in BioPortal. This service uses a concept recognizer (developed by the National Center for Integrative Biomedical Informatics, University of Michigan) to produce a set of annotations and expand them using ontology is_a relations. * Web services: Documentation on all Web services and example code is available at: BioPortal Web services.

Abbreviations: BioPortal

Synonyms: BioPortal Knowledgebase

Resource Type: data repository, repository, ontology, controlled vocabulary, data or information resource, storage service resource, service resource

Defining Citation: PMID:19483092, PMID:21672956, PMID:18999306

Keywords: biomedical, thesaurus, ontology mapping, annotation, metadata standard, ontology repository, portal, web service, obo, owl, rdf, rrf protege frame, lexgrid xml

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Funding: NIGMS U24 GM143402

Availability: Open unspecified license, Acknowledgement requested, The community can contribute to this resource

Resource Name: BioPortal

Resource ID: SCR_002713

Alternate IDs: nif-0000-23346

Alternate URLs: https://www.force11.org/node/4646

Record Creation Time: 2022-01-29 12:02:14

Record Last Update: 2025-03-30 11:02:26

This resource

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lists	Ontology of Biological and Clinical Statistics
lists	Ontology of Clinical Research
lists	Ontology of Core Data Mining Entities
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lists	Ontology for Biomedical Investigations
lists	Biological Pathways Exchange
is listed by	Biositemaps
is listed by	FORCE11
is related to	Provisional Cell Ontology
has parent organization	National Center for Biomedical Ontology
has parent organization	Stanford University; Stanford; California
has parent organization	Stanford Center for Biomedical Informatics Research
is parent organization of	NCBO Annotator

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