The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery

The Semanticscience Integrated Ontology (SIO) is an ontology to facilitate biomedical knowledge discovery. SIO features a simple upper level comprised of essential types and relations for the rich description of arbitrary (real, hypothesized, virtual, fictional) objects, processes and their attribut...

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Autores: Dumontier, Michel, Baker, Christopher JO, Baran, Joachim, Callahan, Alison, Chepelev, Leonid, Cruz-Toledo, José, Del Rio, Nicholas R., Duck, Geraint, Furlong, Laura I., 1971-, Keath, Nichealla, Klassen, Dana, McCusker, Jamie P., Queralt Rosinach, Núria, Samwald, Matthias, Villanueva-Rosales, Natalia, Wilkinson, Mark, Hoehndorf, Robert
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2014
País:España
Institución:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
Repositorio:Recercat. Dipósit de la Recerca de Catalunya
OAI Identifier:oai:recercat.cat:10230/58541
Acceso en línea:http://hdl.handle.net/10230/58541
http://dx.doi.org/10.1186/2041-1480-5-14
Access Level:acceso abierto
Palabra clave:Resource description framework
SPARQL query
Relation ontology
Open biomedical ontology
Resource description framework data
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spelling The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discoveryDumontier, MichelBaker, Christopher JOBaran, JoachimCallahan, AlisonChepelev, LeonidCruz-Toledo, JoséDel Rio, Nicholas R.Duck, GeraintFurlong, Laura I., 1971-Keath, NicheallaKlassen, DanaMcCusker, Jamie P.Queralt Rosinach, NúriaSamwald, MatthiasVillanueva-Rosales, NataliaWilkinson, MarkHoehndorf, RobertResource description frameworkSPARQL queryRelation ontologyOpen biomedical ontologyResource description framework dataThe Semanticscience Integrated Ontology (SIO) is an ontology to facilitate biomedical knowledge discovery. SIO features a simple upper level comprised of essential types and relations for the rich description of arbitrary (real, hypothesized, virtual, fictional) objects, processes and their attributes. SIO specifies simple design patterns to describe and associate qualities, capabilities, functions, quantities, and informational entities including textual, geometrical, and mathematical entities, and provides specific extensions in the domains of chemistry, biology, biochemistry, and bioinformatics. SIO provides an ontological foundation for the Bio2RDF linked data for the life sciences project and is used for semantic integration and discovery for SADI-based semantic web services. SIO is freely available to all users under a creative commons by attribution license. See website for further information: http://sio.semanticscience.org.This work was funded, in part, by NSERC Discovery Grant to MD, Ontario Early Researcher Award to MD and CANARIE NEP-2 grant to MD, CB and MW. This work has received support from the IMI Joint Undertaking under grant agreement no. 115191, Open PHACTS, resources of which comprise financial contribution from the EU FP7 (FP7/2007-2013) and EFPIA companies’ in kind contribution; and Instituto de Salud Carlos III FEDER [CP10/00524]. The Research Programme on Biomedical Informatics (GRIB) is a node of the Spanish National Institute of Bioinformatics (INB). ELSEWeb is funded by NASA ACCESS grant NNX12AF49A (UTEP) and used resources from Cyber-ShARE Center of Excellence supported by NSF grant HRD-1242122. We would like to thank the following individuals for thoughtful discussions and contributions on and off the mailing list: Jerven Bolleman, Kevin Cohen, Melanie Courtot, Simon Jupp, Jin-Dong Kim, James Malone, Luke McCarthy, Chris Mungall, David Osumi-Sutherland, Alexandre Riazanov and Robert Stevens.BioMed Central202320232014info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfapplication/pdfhttp://hdl.handle.net/10230/58541http://dx.doi.org/10.1186/2041-1480-5-14reponame:Recercat. Dipósit de la Recerca de Catalunyainstname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)InglésJournal of Biomedical Semantics. 2014 Mar 6;5(1):14info:eu-repo/grantAgreement/EC/FP7/115191This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited.http://creativecommons.org/licenses/by/2.0info:eu-repo/semantics/openAccessoai:recercat.cat:10230/585412026-05-29T05:05:01Z
dc.title.none.fl_str_mv The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery
title The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery
spellingShingle The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery
Dumontier, Michel
Resource description framework
SPARQL query
Relation ontology
Open biomedical ontology
Resource description framework data
title_short The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery
title_full The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery
title_fullStr The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery
title_full_unstemmed The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery
title_sort The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery
dc.creator.none.fl_str_mv Dumontier, Michel
Baker, Christopher JO
Baran, Joachim
Callahan, Alison
Chepelev, Leonid
Cruz-Toledo, José
Del Rio, Nicholas R.
Duck, Geraint
Furlong, Laura I., 1971-
Keath, Nichealla
Klassen, Dana
McCusker, Jamie P.
Queralt Rosinach, Núria
Samwald, Matthias
Villanueva-Rosales, Natalia
Wilkinson, Mark
Hoehndorf, Robert
author Dumontier, Michel
author_facet Dumontier, Michel
Baker, Christopher JO
Baran, Joachim
Callahan, Alison
Chepelev, Leonid
Cruz-Toledo, José
Del Rio, Nicholas R.
Duck, Geraint
Furlong, Laura I., 1971-
Keath, Nichealla
Klassen, Dana
McCusker, Jamie P.
Queralt Rosinach, Núria
Samwald, Matthias
Villanueva-Rosales, Natalia
Wilkinson, Mark
Hoehndorf, Robert
author_role author
author2 Baker, Christopher JO
Baran, Joachim
Callahan, Alison
Chepelev, Leonid
Cruz-Toledo, José
Del Rio, Nicholas R.
Duck, Geraint
Furlong, Laura I., 1971-
Keath, Nichealla
Klassen, Dana
McCusker, Jamie P.
Queralt Rosinach, Núria
Samwald, Matthias
Villanueva-Rosales, Natalia
Wilkinson, Mark
Hoehndorf, Robert
author2_role author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Resource description framework
SPARQL query
Relation ontology
Open biomedical ontology
Resource description framework data
topic Resource description framework
SPARQL query
Relation ontology
Open biomedical ontology
Resource description framework data
description The Semanticscience Integrated Ontology (SIO) is an ontology to facilitate biomedical knowledge discovery. SIO features a simple upper level comprised of essential types and relations for the rich description of arbitrary (real, hypothesized, virtual, fictional) objects, processes and their attributes. SIO specifies simple design patterns to describe and associate qualities, capabilities, functions, quantities, and informational entities including textual, geometrical, and mathematical entities, and provides specific extensions in the domains of chemistry, biology, biochemistry, and bioinformatics. SIO provides an ontological foundation for the Bio2RDF linked data for the life sciences project and is used for semantic integration and discovery for SADI-based semantic web services. SIO is freely available to all users under a creative commons by attribution license. See website for further information: http://sio.semanticscience.org.
publishDate 2014
dc.date.none.fl_str_mv 2014
2023
2023
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/10230/58541
http://dx.doi.org/10.1186/2041-1480-5-14
url http://hdl.handle.net/10230/58541
http://dx.doi.org/10.1186/2041-1480-5-14
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Journal of Biomedical Semantics. 2014 Mar 6;5(1):14
info:eu-repo/grantAgreement/EC/FP7/115191
dc.rights.none.fl_str_mv http://creativecommons.org/licenses/by/2.0
info:eu-repo/semantics/openAccess
rights_invalid_str_mv http://creativecommons.org/licenses/by/2.0
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv BioMed Central
publisher.none.fl_str_mv BioMed Central
dc.source.none.fl_str_mv reponame:Recercat. Dipósit de la Recerca de Catalunya
instname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
instname_str Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
reponame_str Recercat. Dipósit de la Recerca de Catalunya
collection Recercat. Dipósit de la Recerca de Catalunya
repository.name.fl_str_mv
repository.mail.fl_str_mv
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