Article

Using SPARQL to query bioportal ontologies and metadata

Authors:

Manuel Salvadores,

Matthew Horridge,

Paul R. Alexander,

Ray W. Fergerson,

Mark A. Musen, and

Natalya F. NoyAuthors Info & Claims

ISWC'12: Proceedings of the 11th international conference on The Semantic Web - Volume Part II

November 2012

Pages 180 - 195

https://doi.org/10.1007/978-3-642-35173-0_12

Published: 11 November 2012 Publication History

Abstract

BioPortal is a repository of biomedical ontologies--the largest such repository, with more than 300 ontologies to date. This set includes ontologies that were developed in OWL, OBO and other languages, as well as a large number of medical terminologies that the US National Library of Medicine distributes in its own proprietary format. We have published the RDF based serializations of all these ontologies and their metadata at <ExternalRef><RefSource><Emphasis FontCategory="NonProportional">sparql.bioontology.org</Emphasis> </RefSource> <RefTarget Address="http://sparql.bioontology.org" TargetType="URL"/></ExternalRef> . This dataset contains 203M triples, representing both content and metadata for the 300+ ontologies; and 9M mappings between terms. This endpoint can be queried with SPARQL which opens new usage scenarios for the biomedical domain. This paper presents lessons learned from having redesigned several applications that today use this SPARQL endpoint to consume ontological data.

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Cited By

Acosta MGangemi ALeonardi SPanconesi A(2015)A Hybrid Approach to Perform Efficient and Effective Query Execution Against Public SPARQL EndpointsProceedings of the 24th International Conference on World Wide Web10.1145/2740908.2741750(469-473)Online publication date: 18-May-2015
https://dl.acm.org/doi/10.1145/2740908.2741750
Oberkampf HGojayev TZillner SZühlke DAuer SHammon M(2015)From Symptoms to Diseases --- Creating the Missing LinkProceedings of the 12th European Semantic Web Conference on The Semantic Web. Latest Advances and New Domains - Volume 908810.1007/978-3-319-18818-8_40(652-667)Online publication date: 31-May-2015
https://dl.acm.org/doi/10.1007/978-3-319-18818-8_40
Kim HRavindra PAnyanwu K(2014)A semantics-oriented storage model for big heterogeneous RDF dataProceedings of the 2014 International Conference on Posters & Demonstrations Track - Volume 127210.5555/2878453.2878563(437-440)Online publication date: 21-Oct-2014
https://dl.acm.org/doi/10.5555/2878453.2878563
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Published In

cover image Guide Proceedings

ISWC'12: Proceedings of the 11th international conference on The Semantic Web - Volume Part II

November 2012

464 pages

ISBN:9783642351723

Editors:
Philippe Cudré-Mauroux
University of Fribourg, Switzerland
,
Jeff Heflin
Lehigh University, Bethlehem, PA, Switzerland
,
Evren Sirin
Clark & Parsia, Washington, DC, Switzerland
,
Tania Tudorache
Stanford University, Washington, CA, Switzerland
,
Jérôme Euzenat
INRIA & LIG, Le Cesnay Cedex, CA, France

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Elsevier
Yahoo! Research
ORACLE: ORACLE
AI: Artificial Intelligence
IBM: IBM

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Springer-Verlag

Berlin, Heidelberg

Publication History

Published: 11 November 2012

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Cited By

Acosta MGangemi ALeonardi SPanconesi A(2015)A Hybrid Approach to Perform Efficient and Effective Query Execution Against Public SPARQL EndpointsProceedings of the 24th International Conference on World Wide Web10.1145/2740908.2741750(469-473)Online publication date: 18-May-2015
https://dl.acm.org/doi/10.1145/2740908.2741750
Oberkampf HGojayev TZillner SZühlke DAuer SHammon M(2015)From Symptoms to Diseases --- Creating the Missing LinkProceedings of the 12th European Semantic Web Conference on The Semantic Web. Latest Advances and New Domains - Volume 908810.1007/978-3-319-18818-8_40(652-667)Online publication date: 31-May-2015
https://dl.acm.org/doi/10.1007/978-3-319-18818-8_40
Kim HRavindra PAnyanwu K(2014)A semantics-oriented storage model for big heterogeneous RDF dataProceedings of the 2014 International Conference on Posters & Demonstrations Track - Volume 127210.5555/2878453.2878563(437-440)Online publication date: 21-Oct-2014
https://dl.acm.org/doi/10.5555/2878453.2878563
Kozák JNečaský MDědek JKlímek JPokorný JWeippl EIndrawan-Santiago MSteinbauer MKotsis GKhalil I(2013)Linked Open Data for Healthcare ProfessionalsProceedings of International Conference on Information Integration and Web-based Applications & Services10.1145/2539150.2539195(400-409)Online publication date: 2-Dec-2013
https://dl.acm.org/doi/10.1145/2539150.2539195

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