Literature DB >> 22531831

A query integrator and manager for the query web.

James F Brinkley1, Landon T Detwiler.   

Abstract

We introduce two concepts: the Query Web as a layer of interconnected queries over the document web and the semantic web, and a Query Web Integrator and Manager (QI) that enables the Query Web to evolve. QI permits users to write, save and reuse queries over any web accessible source, including other queries saved in other installations of QI. The saved queries may be in any language (e.g. SPARQL, XQuery); the only condition for interconnection is that the queries return their results in some form of XML. This condition allows queries to chain off each other, and to be written in whatever language is appropriate for the task. We illustrate the potential use of QI for several biomedical use cases, including ontology view generation using a combination of graph-based and logical approaches, value set generation for clinical data management, image annotation using terminology obtained from an ontology web service, ontology-driven brain imaging data integration, small-scale clinical data integration, and wider-scale clinical data integration. Such use cases illustrate the current range of applications of QI and lead us to speculate about the potential evolution from smaller groups of interconnected queries into a larger query network that layers over the document and semantic web. The resulting Query Web could greatly aid researchers and others who now have to manually navigate through multiple information sources in order to answer specific questions.
Copyright © 2012 Elsevier Inc. All rights reserved.

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Mesh:

Year:  2012        PMID: 22531831      PMCID: PMC3408576          DOI: 10.1016/j.jbi.2012.03.008

Source DB:  PubMed          Journal:  J Biomed Inform        ISSN: 1532-0464            Impact factor:   6.317


  26 in total

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3.  Research electronic data capture (REDCap)--a metadata-driven methodology and workflow process for providing translational research informatics support.

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4.  A terminological and ontological analysis of the NCI Thesaurus.

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Journal:  Methods Inf Med       Date:  2005       Impact factor: 2.176

5.  Survey of modular ontology techniques and their applications in the biomedical domain.

Authors:  Jyotishman Pathak; Thomas M Johnson; Christopher G Chute
Journal:  Integr Comput Aided Eng       Date:  2009-08       Impact factor: 4.827

6.  The FaceBase Consortium: a comprehensive program to facilitate craniofacial research.

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Journal:  Dev Biol       Date:  2011-03-31       Impact factor: 3.582

7.  vSPARQL: a view definition language for the semantic web.

Authors:  Marianne Shaw; Landon T Detwiler; Natalya Noy; James Brinkley; Dan Suciu
Journal:  J Biomed Inform       Date:  2010-08-25       Impact factor: 6.317

8.  BioCatalogue: a universal catalogue of web services for the life sciences.

Authors:  Jiten Bhagat; Franck Tanoh; Eric Nzuobontane; Thomas Laurent; Jerzy Orlowski; Marco Roos; Katy Wolstencroft; Sergejs Aleksejevs; Robert Stevens; Steve Pettifer; Rodrigo Lopez; Carole A Goble
Journal:  Nucleic Acids Res       Date:  2010-05-19       Impact factor: 16.971

9.  The 2011 Nucleic Acids Research Database Issue and the online Molecular Biology Database Collection.

Authors:  Michael Y Galperin; Guy R Cochrane
Journal:  Nucleic Acids Res       Date:  2011-01       Impact factor: 16.971

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  7 in total

1.  The Ontology of Clinical Research (OCRe): an informatics foundation for the science of clinical research.

Authors:  Ida Sim; Samson W Tu; Simona Carini; Harold P Lehmann; Brad H Pollock; Mor Peleg; Knut M Wittkowski
Journal:  J Biomed Inform       Date:  2013-11-13       Impact factor: 6.317

Review 2.  The ontology of craniofacial development and malformation for translational craniofacial research.

Authors:  J F Brinkley; C Borromeo; M Clarkson; T C Cox; M J Cunningham; L T Detwiler; C L Heike; H Hochheiser; J L V Mejino; R S Travillian; L G Shapiro
Journal:  Am J Med Genet C Semin Med Genet       Date:  2013-10-04       Impact factor: 3.908

3.  Ontology-based image navigation: exploring 3.0-T MR neurography of the brachial plexus using AIM and RadLex.

Authors:  Kenneth C Wang; Aditya R Salunkhe; James J Morrison; Pearlene P Lee; José L V Mejino; Landon T Detwiler; James F Brinkley; Eliot L Siegel; Daniel L Rubin; John A Carrino
Journal:  Radiographics       Date:  2015 Jan-Feb       Impact factor: 5.333

4.  From frames to OWL2: Converting the Foundational Model of Anatomy.

Authors:  Landon T Detwiler; Jose L V Mejino; James F Brinkley
Journal:  Artif Intell Med       Date:  2016-04-27       Impact factor: 5.326

5.  Ontology-based federated data access to human studies information.

Authors:  Ida Sim; Simona Carini; Samson W Tu; Landon T Detwiler; James Brinkley; Shamim A Mollah; Karl Burke; Harold P Lehmann; Swati Chakraborty; Knut M Wittkowski; Brad H Pollock; Thomas M Johnson; Vojtech Huser
Journal:  AMIA Annu Symp Proc       Date:  2012-11-03

6.  Neuroanatomical domain of the foundational model of anatomy ontology.

Authors:  B Nolan Nichols; Jose Lv Mejino; Landon T Detwiler; Trond T Nilsen; Maryann E Martone; Jessica A Turner; Daniel L Rubin; James F Brinkley
Journal:  J Biomed Semantics       Date:  2014-01-08

Review 7.  Standard Lexicons, Coding Systems and Ontologies for Interoperability and Semantic Computation in Imaging.

Authors:  Kenneth C Wang
Journal:  J Digit Imaging       Date:  2018-06       Impact factor: 4.056

  7 in total

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