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SADI

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For other uses, see Sadi (disambiguation).
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Semantic Automated Discovery and Integration (SADI) is a lightweight set of fully standards-compliant Semantic Web service design patterns that simplify the publication of services of the type commonly found in bioinformatics and other scientific domains. SADI services utilize Semantic Web technologies at every level of the Web services "stack". Services are described in OWL-DL, where the property restrictions in OWL classes are used to define the properties expected of the input and output data. Invocation of SADI Services is achieved through HTTP POST of RDF data representing OWL Individuals ('instances') of the defined input OWL Class, and the resulting output data will be OWL Individuals of the defined output OWL Class.

SADI design patterns place a single unique constraint on the behaviour of the Service, in that the URI of the input individual, and the URI of the output individual must be identical. The consequence of this constraint is that the Service provider must connect the output to the input through a defined predicate; effectively, the output is "about" the input, and the relationship between input and output is explicit. As such, SADI services become the source of new Linked Data, relating the input and output of a service, and chains of SADI services produce uninterrupted Linked Data graphs.

SADI has been used in a number of Bioinformatics data integration case studies and for semantic querying of relational data in Clinical Informatics settings.

Software

  • Java and Perl libraries for building SADI services
  • SHARE - a SPARQL query engine for SADI services

References

  1. Wilkinson, Mark; Vandervalk, Benjamin; McCarthy, Luke (2011). "The Semantic Automated Discovery and Integration (SADI) Web service Design-Pattern, API and Reference Implementation". J Biomed Semantics. 2 (1): 8. doi:10.1186/2041-1480-2-8. PMC 3212890. PMID 22024447.
  2. "SADI framework Web site".
  3. Riazanov, Alexandre; Laurila, Jonas Bergman; Baker, Christopher JO (2011). "Deploying mutation impact text-mining software with the SADI Semantic Web Services framework". BMC Bioinformatics. 12(Supl 4) (Suppl 4): 18. doi:10.1186/1471-2105-12-S4-S6. PMC 3194198. PMID 21992079.
  4. Chepelev, Leonid L; Riazanov, Alexandre; Kouznetsov, Alexandre; Low, Hong Sang; Dumontier, Michel; Baker, Christopher JO (2011). "Prototype semantic infrastructure for automated small molecule classification and annotation in lipidomics". BMC Bioinformatics. 12: 14. doi:10.1186/1471-2105-12-303. PMC 3163564. PMID 21791100.
  5. Riazanov, Alexandre; Hindle, Matthew M; Goudreau, E Scott; Martyniuk, Christopher J; Baker, Christopher JO (2012). Ecotoxicology Data Federation with SADI Semantic Web Services (PDF). Semantic Web Applications and Tools for Life Sciences. p. 18.
  6. Riazanov, Alexandre; Klein, Artjom; Shaban-Nejad, Arash; Rose, Gregory W; Forster, Alan J; Buckeridge, David L; Baker, Christopher JO (2013). "Semantic Querying of Relational Data for Clinical Intelligence: A Semantic Web Services-Based Approach". J Biomed Semantics. 4 (1): 19. doi:10.1186/2041-1480-4-9. PMC 3698140. PMID 23497556.
  7. "SADI framework Web site: Building Services".
  8. Ben Vandervalk. "The SHARE System. A Semantic Web Based Approach for Evaluating Queries Across Distributed Bioinformatics Databases and Software, MSc thesis" (PDF).
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