Semantic representation and querying of caBIG data services

E. Patrick Shironoshita, Ray M. Bradley, Yves R. Jean-Mary, Thomas J. Taylor, Michael T. Ryan, Mansur R. Kabuka

Research output: Chapter in Book/Report/Conference proceedingConference contribution

2 Citations (Scopus)

Abstract

A computational grid infrastructure for biomedical research, called caGrid, is under development by the National Cancer Institute (NCI) as part of the cancer Biomedical Informatics Grid (caBIG) Initiative. In this paper we present a model that enables users to query an integrated view of caBIG data services at a conceptual semantic level. The model is based on semCDI, a formulation to generate an ontology view of caBIG semantics and pose queries against this view using the SPARQL query language complemented with Horn rules. We present here a mechanism to process these queries algebraically using our semQA query algebra extension for SPARQL, in order to create sub-expressions for each data service. We then show how resulting graphs from these sub-expressions are then merged using Horn rules.

Original languageEnglish
Title of host publicationLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Pages108-115
Number of pages8
Volume5109 LNBI
DOIs
StatePublished - Aug 4 2008
Event5th International Workshop on Data Integration in the Life Sciences, DILS 2008 - Evry, France
Duration: Jun 25 2008Jun 27 2008

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume5109 LNBI
ISSN (Print)03029743
ISSN (Electronic)16113349

Other

Other5th International Workshop on Data Integration in the Life Sciences, DILS 2008
CountryFrance
CityEvry
Period6/25/086/27/08

Fingerprint

Data Grid
Informatics
Semantics
Cancer
Query
Horns
SPARQL
Query languages
Algebra
Ontology
Neoplasms
National Cancer Institute (U.S.)
Semantic Grid
Biomedical Research
Computational Grid
Query Language
Language
Infrastructure
Grid
Formulation

ASJC Scopus subject areas

  • Computer Science(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Theoretical Computer Science

Cite this

Shironoshita, E. P., Bradley, R. M., Jean-Mary, Y. R., Taylor, T. J., Ryan, M. T., & Kabuka, M. R. (2008). Semantic representation and querying of caBIG data services. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (Vol. 5109 LNBI, pp. 108-115). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 5109 LNBI). https://doi.org/10.1007/978-3-540-69828-9_10

Semantic representation and querying of caBIG data services. / Shironoshita, E. Patrick; Bradley, Ray M.; Jean-Mary, Yves R.; Taylor, Thomas J.; Ryan, Michael T.; Kabuka, Mansur R.

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 5109 LNBI 2008. p. 108-115 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 5109 LNBI).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Shironoshita, EP, Bradley, RM, Jean-Mary, YR, Taylor, TJ, Ryan, MT & Kabuka, MR 2008, Semantic representation and querying of caBIG data services. in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). vol. 5109 LNBI, Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 5109 LNBI, pp. 108-115, 5th International Workshop on Data Integration in the Life Sciences, DILS 2008, Evry, France, 6/25/08. https://doi.org/10.1007/978-3-540-69828-9_10
Shironoshita EP, Bradley RM, Jean-Mary YR, Taylor TJ, Ryan MT, Kabuka MR. Semantic representation and querying of caBIG data services. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 5109 LNBI. 2008. p. 108-115. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)). https://doi.org/10.1007/978-3-540-69828-9_10
Shironoshita, E. Patrick ; Bradley, Ray M. ; Jean-Mary, Yves R. ; Taylor, Thomas J. ; Ryan, Michael T. ; Kabuka, Mansur R. / Semantic representation and querying of caBIG data services. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 5109 LNBI 2008. pp. 108-115 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)).
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