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Resource:BioPortal

Name: Resource:BioPortal
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), Protégé 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.
Parent Organization: Resource:National Center for Biomedical Ontology, Stanford University; California; USA
Related to: Resource:Biositemaps, Resource:FORCE11
Resource Type(s): Ontology, Data repository, Ontology repository
Keywords: biomedical, thesaurus, ontology mapping, annotation, Metadata standard, ontology repository, Portal, Web service, OBO, OWL, RDF, RRF Protege frame, LexGrid XML
Abbreviation: BioPortal
Resource: Resource
URL: http://bioportal.bioontology.org/
PMID: PMID 19483092, 21672956, 18999306
Publication link: http://www.bioontology.org/sites/default/files/BioPortal_Poster.pdf
Availability: Open unspecified license, Acknowledgement requested, The community can contribute to this resource
Id: nif-0000-23346
Link to OWL / RDF: Download this content as OWL/RDF

Categories related to Resource:BioPortal

Resource:CHEBI, Resource:EDAM Ontology, Resource:EnvO, Resource:Experimental Factor Ontology, Resource:LexGrid, Resource:NIFSTD, Resource:Neurobehavior Ontology, Resource:RightField, Resource:Teleost Anatomy Ontology, Resource:eagle-i research resource ontology

Parts of Resource:BioPortal

Curation status: Curated

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Notes

This page uses this default form:Resource

Alt. URL: https://www.force11.org/node/4646

News & Location

Twitter Handle: @bioontology

Latitude: 37.42, Longitude: -122.17



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Facts about Resource:BioPortalRDF feed
AbbrevBioPortal  +
AvailabilityOpen unspecified license  +, Acknowledgement requested  +, and The community can contribute to this resource  +
CurationStatuscurated  +
DefiningCitationhttp://bioportal.bioontology.org/  +
DefinitionOpen repository of biomedical ontologies t 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), Protégé 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. e is available at: BioPortal Web services.
ExampleImageBioPortal.PNG  +
Has default formThis property is a special property in this wiki.Resource  +
Has roleOntology  +, Data repository  +, and Ontology repository  +
Idnif-0000-23346  +
Is part ofResource:National Center for Biomedical Ontology  +, and Stanford University; California; USA  +
KeywordsBiomedical  +, Thesaurus  +, Ontology mapping  +, Annotation  +, Metadata standard  +, Ontology repository  +, Portal  +, Web service  +, OBO  +, OWL  +, RDF  +, RRF Protege frame  +, and LexGrid XML  +
LabelResource:BioPortal  +
Latitude37.42  +
Longitude-122.17  +
ModifiedDate4 April 2014  +
PMID19483092, 21672956, 18999306  +
Page has default formThis property is a special property in this wiki.Resource  +
PublicationLinkhttp://www.bioontology.org/sites/default/files/BioPortal_Poster.pdf  +
RelatedToResource:Biositemaps  +, and Resource:FORCE11  +
SuperCategoryResource  +
Twitterbioontology  +