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Article

Epoch: an ontological framework to support clinical trials management

Authors:

Ravi D. Shankar,

Susana B. Martins,

Martin J. O'Connor,

David B. Parrish,

Amar K. DasAuthors Info & Claims

HIKM '06: Proceedings of the international workshop on Healthcare information and knowledge management

Pages 25 - 32

https://doi.org/10.1145/1183568.1183574

Published: 11 November 2006 Publication History

Abstract

The increasing complexity of clinical trials has generated an enormous requirement for knowledge and information specification at all stages of the trials, including planning, documentation, implementation, and analysis. We are building a knowledge-based framework (Epoch) to support the management of clinical trials. We are tailoring this approach to the Immune Tolerance Network (ITN), an international research consortium developing new therapeutics in immune-mediated disorders. In the broad spectrum of trial management activities, we currently target two areas that are vital to the successful implementation of a trial: (1) tracking study participants as they advance through the trials, and (2) tracking biological specimens as they are processed at the trial laboratories. The core of our software architecture is a suite of ontologies that conceptualizes relevant clinical trial domain. Our approach can provide ITN and other research organizations a stable and consistent knowledge source for clinical-trial software applications.

References

[1]

BRIDG: http://www.bridgproject.org/

[2]

CDISC: http://www.cdisc.org/standards/

[3]

Cimarron Software, Inc.: http://www.cimsoft.com/

[4]

Crubezy, M., O'Connor, M.J., Buckeridge, D.L., Pincus, Z.S., Musen, M.A. Ontology-Centered Syndromic Surveillance for Bioterrorism. IEEE Intelligent Systems,20(5):26--35 (2005)

Digital Library

[5]

D2RQ: http://www.wiwiss.fu-berlin.de/suhl/bizer/d2rq/

[6]

Das A.K. and Musen M.A. Synchronus: a reusable software module for temporal integration. AMIA Annual Symposium, San Antonio, TX, 2002, 195--199.

[7]

HL7: http://www.hl7.org/

[8]

ITN: http://www.immunetolerance.org/

[9]

Kahn M.G., Broverman C.A., Wu N., Farnsworth W.J., and Manlapaz-Espiritu L. A Model-Based Method for Improving Protocol Quality. Applied Clinical Trials, April 2002.

[10]

Knublauch H., Fergerson R.W., Noy N.F. and Musen M.A. The Protégé OWL Plugin: an open development environment for semantic web applications. Third ISWC (ISWC 2004), Hiroshima, Japan, 2004, 229--243.

Digital Library

[11]

Modgil S. and Hammond P. Decision support tools for clinical trial design, Artificial Intelligence in Medicine. Feb, 27, 2 (Feb 2003), 181--200.

Digital Library

[12]

Musen M.A., Tu S.W., Das A.K., and Shahar Y. EON: A component-based approach to automation of protocol-directed therapy. Journal of the American Medical Informatics Association, 3, 6 (1996), 367--388.

[13]

O'Connor M.J., Shankar R., and Das A. An ontology-driven mediator for querying time-oriented biomedical data. 19th IEEE Symposium on Computer-Based Medical Systems (CBMS2006), Salt Lake City Utah, 2006.

Digital Library

[14]

O'Connor M.J., Tu S.W. Musen M.A. The Chronus II Temporal Database Mediator. Proc AMIA Annual Symposium, San Antonio, TX, 2002.

[15]

OWL Overview: http://www.w3.org/TR/owl-features/

[16]

Rotrosen D., Matthews J.B., and Bluestone J.A. The immune tolerance network: a new paradigm for developing tolerance-inducing therapies. J Allergy Clin Immunol, 110, 1 (Jul 2002) 17--23.

[17]

Sim I., Olasov B., and Carini S. The Trial Bank system: capturing randomized trials for evidence-based medicine. Proceedings of the AMIA Annual Symposium, 2003, 1076.

[18]

SWRL Specification:http://www.w3.org/Submission/SWRL/

[19]

Tu S.W., Kemper C.A., Lane N.M., Carlson R.W., and Musen M.A. A methodology for determining patients' eligibility for clinical trials. Methods of Information in Medicine, 32, 4 (1993), 317--325.

Cited By

Seneviratne ODas AChari SAgu NRashid SMcCusker JFranklin JQi MBennett KChen CHendler JMcGuinness D(2023)Semantically enabling clinical decision support recommendationsJournal of Biomedical Semantics10.1186/s13326-023-00285-914:1Online publication date: 18-Jul-2023
https://doi.org/10.1186/s13326-023-00285-9
Niland JHom JHmwe S(2023)Study Protocol RepresentationClinical Research Informatics10.1007/978-3-031-27173-1_6(91-110)Online publication date: 15-Jun-2023
https://doi.org/10.1007/978-3-031-27173-1_6
Niland JHom J(2019)Study Protocol RepresentationClinical Research Informatics10.1007/978-3-319-98779-8_10(191-211)Online publication date: 8-Feb-2019
https://doi.org/10.1007/978-3-319-98779-8_10
Show More Cited By

Index Terms

Epoch: an ontological framework to support clinical trials management
1. Applied computing
  1. Life and medical sciences
    1. Health care information systems
2. Computing methodologies
  1. Artificial intelligence
    1. Knowledge representation and reasoning
      1. Ontology engineering
      2. Semantic networks
  2. Machine learning
    1. Machine learning approaches
      1. Rule learning

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Published In

cover image ACM Conferences

HIKM '06: Proceedings of the international workshop on Healthcare information and knowledge management

November 2006

66 pages

ISBN:1595935282

DOI:10.1145/1183568

Program Chairs:
Li Xiong
Emory University
,
Yuni Xia
Indiana University - Purdue University Indianapolis

Copyright © 2006 ACM.

Permission to make digital or hard copies of all or part of this work for personal or classroom use is granted without fee provided that copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on the first page. Copyrights for components of this work owned by others than ACM must be honored. Abstracting with credit is permitted. To copy otherwise, or republish, to post on servers or to redistribute to lists, requires prior specific permission and/or a fee. Request permissions from [email protected]

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New York, NY, United States

Publication History

Published: 11 November 2006

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CIKM06

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CIKM06: Conference on Information and Knowledge Management

November 11, 2006

Virginia, Arlington, USA

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Overall Acceptance Rate 32 of 70 submissions, 46%

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Cited By

Seneviratne ODas AChari SAgu NRashid SMcCusker JFranklin JQi MBennett KChen CHendler JMcGuinness D(2023)Semantically enabling clinical decision support recommendationsJournal of Biomedical Semantics10.1186/s13326-023-00285-914:1Online publication date: 18-Jul-2023
https://doi.org/10.1186/s13326-023-00285-9
Niland JHom JHmwe S(2023)Study Protocol RepresentationClinical Research Informatics10.1007/978-3-031-27173-1_6(91-110)Online publication date: 15-Jun-2023
https://doi.org/10.1007/978-3-031-27173-1_6
Niland JHom J(2019)Study Protocol RepresentationClinical Research Informatics10.1007/978-3-319-98779-8_10(191-211)Online publication date: 8-Feb-2019
https://doi.org/10.1007/978-3-319-98779-8_10
Chari SQi MAgu NSeneviratne OMcCusker JBennett KDas AMcGuinness D(2019)Making Study Populations Visible Through Knowledge GraphsThe Semantic Web – ISWC 201910.1007/978-3-030-30796-7_4(53-68)Online publication date: 17-Oct-2019
https://doi.org/10.1007/978-3-030-30796-7_4
Ford RDenker GElenius DMoore WAbi-Lahoud E(2016)Automating Financial Regulatory Compliance Using Ontology+Rules and SunflowerProceedings of the 12th International Conference on Semantic Systems10.1145/2993318.2993329(113-120)Online publication date: 12-Sep-2016
https://dl.acm.org/doi/10.1145/2993318.2993329
Spreckelsen CSchmithausen DRöder PSchmidt RDahl EGeisler SKabino K(2015)Model-based approach for optimizing the storage management of bio-repositoriesSimulation Modelling Practice and Theory10.1016/j.simpat.2015.01.00853(74-87)Online publication date: Apr-2015
https://doi.org/10.1016/j.simpat.2015.01.008
Mulwad VFinin TJoshi A(2014)Interpreting medical tables as linked data for generating meta-analysis reportsProceedings of the 2014 IEEE 15th International Conference on Information Reuse and Integration (IEEE IRI 2014)10.1109/IRI.2014.7051955(677-686)Online publication date: Aug-2014
https://doi.org/10.1109/IRI.2014.7051955
Sjobergh JKuwahara MTanaka Y(2012)Visualizing Clinical Trial Data Using Pluggable Components2012 16th International Conference on Information Visualisation10.1109/IV.2012.56(291-296)Online publication date: Jul-2012
https://doi.org/10.1109/IV.2012.56
Lee YJana SMylavarapu TDinakarpandian DOwens D(2012)MindFlowProceedings of the 2012 45th Hawaii International Conference on System Sciences10.1109/HICSS.2012.430(2779-2788)Online publication date: 4-Jan-2012
https://dl.acm.org/doi/10.1109/HICSS.2012.430
Sim INiland J(2012)Study Protocol RepresentationClinical Research Informatics10.1007/978-1-84882-448-5_9(155-174)Online publication date: 23-Jan-2012
https://doi.org/10.1007/978-1-84882-448-5_9
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