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

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  • dc.contributor.author Dumontier, Michel
  • dc.contributor.author Baker, Christopher JO
  • dc.contributor.author Baran, Joachim
  • dc.contributor.author Callahan, Alison
  • dc.contributor.author Chepelev, Leonid
  • dc.contributor.author Cruz-Toledo, José
  • dc.contributor.author Del Rio, Nicholas R.
  • dc.contributor.author Duck, Geraint
  • dc.contributor.author Furlong, Laura I., 1971-
  • dc.contributor.author Keath, Nichealla
  • dc.contributor.author Klassen, Dana
  • dc.contributor.author McCusker, Jamie P.
  • dc.contributor.author Queralt Rosinach, Núria
  • dc.contributor.author Samwald, Matthias
  • dc.contributor.author Villanueva-Rosales, Natalia
  • dc.contributor.author Wilkinson, Mark
  • dc.contributor.author Hoehndorf, Robert
  • dc.date.accessioned 2023-12-18T06:50:52Z
  • dc.date.available 2023-12-18T06:50:52Z
  • dc.date.issued 2014
  • dc.description.abstract 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.
  • dc.description.sponsorship 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.
  • dc.format.mimetype application/pdf
  • dc.identifier.citation Dumontier M, Baker CJO, Baran J, Callahan A, Chepelev L, Cruz-Toledo J, et al. The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery. J Biomed Semant. 2014 Mar 6;5(1):14. DOI: 10.1186/2041-1480-5-14
  • dc.identifier.doi http://dx.doi.org/10.1186/2041-1480-5-14
  • dc.identifier.issn 2041-1480
  • dc.identifier.uri http://hdl.handle.net/10230/58541
  • dc.language.iso eng
  • dc.publisher BioMed Central
  • dc.relation.ispartof Journal of Biomedical Semantics. 2014 Mar 6;5(1):14
  • dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/115191
  • dc.rights This 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.
  • dc.rights.accessRights info:eu-repo/semantics/openAccess
  • dc.rights.uri http://creativecommons.org/licenses/by/2.0
  • dc.subject.keyword Resource description framework
  • dc.subject.keyword SPARQL query
  • dc.subject.keyword Relation ontology
  • dc.subject.keyword Open biomedical ontology
  • dc.subject.keyword Resource description framework data
  • dc.title The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery
  • dc.type info:eu-repo/semantics/article
  • dc.type.version info:eu-repo/semantics/publishedVersion

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