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

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

doi:http://dx.doi.org/10.1186/2041-1480-5-14

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

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

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.