Literature DB >> 21537849

Federated querying architecture with clinical & translational health IT application.

Oren E Livne1, N Dustin Schultz, Scott P Narus.   

Abstract

We present a software architecture that federates data from multiple heterogeneous health informatics data sources owned by multiple organizations. The architecture builds upon state-of-the-art open-source Java and XML frameworks in innovative ways. It consists of (a) federated query engine, which manages federated queries and result set aggregation via a patient identification service; and (b) data source facades, which translate the physical data models into a common model on-the-fly and handle large result set streaming. System modules are connected via reusable Apache Camel integration routes and deployed to an OSGi enterprise service bus. We present an application of our architecture that allows users to construct queries via the i2b2 web front-end, and federates patient data from the University of Utah Enterprise Data Warehouse and the Utah Population database. Our system can be easily adopted, extended and integrated with existing SOA Healthcare and HL7 frameworks such as i2b2 and caGrid.

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Year:  2011        PMID: 21537849     DOI: 10.1007/s10916-011-9720-3

Source DB:  PubMed          Journal:  J Med Syst        ISSN: 0148-5598            Impact factor:   4.460


  8 in total

1.  Architecture of a federated query engine for heterogeneous resources.

Authors:  Richard L Bradshaw; Susan Matney; Oren E Livne; Bruce E Bray; Joyce A Mitchell; Scott P Narus
Journal:  AMIA Annu Symp Proc       Date:  2009-11-14

2.  Integration of clinical and genetic data in the i2b2 architecture.

Authors:  Shawn N Murphy; Michael E Mendis; David A Berkowitz; Isaac Kohane; Henry C Chueh
Journal:  AMIA Annu Symp Proc       Date:  2006

3.  caGrid 1.0: an enterprise Grid infrastructure for biomedical research.

Authors:  Scott Oster; Stephen Langella; Shannon Hastings; David Ervin; Ravi Madduri; Joshua Phillips; Tahsin Kurc; Frank Siebenlist; Peter Covitz; Krishnakant Shanbhag; Ian Foster; Joel Saltz
Journal:  J Am Med Inform Assoc       Date:  2007-12-20       Impact factor: 4.497

4.  Data federation in the Biomedical Informatics Research Network: tools for semantic annotation and query of distributed multiscale brain data.

Authors:  William Bug; Vadim Astahkov; Jyl Boline; Christine Fennema-Notestine; Jeffrey S Grethe; Amarnath Gupta; David N Kennedy; Daniel L Rubin; Brian Sanders; Jessica A Turner; Maryann E Martone
Journal:  AMIA Annu Symp Proc       Date:  2008-11-06

5.  The Shared Health Research Information Network (SHRINE): a prototype federated query tool for clinical data repositories.

Authors:  Griffin M Weber; Shawn N Murphy; Andrew J McMurry; Douglas Macfadden; Daniel J Nigrin; Susanne Churchill; Isaac S Kohane
Journal:  J Am Med Inform Assoc       Date:  2009-06-30       Impact factor: 4.497

6.  Integrating a Federated Healthcare Data Query Platform With Electronic IRB Information Systems.

Authors:  Shan He; John F Hurdle; Jeffrey R Botkin; Scott P Narus
Journal:  AMIA Annu Symp Proc       Date:  2010-11-13

7.  caCORE version 3: Implementation of a model driven, service-oriented architecture for semantic interoperability.

Authors:  George A Komatsoulis; Denise B Warzel; Francis W Hartel; Krishnakant Shanbhag; Ram Chilukuri; Gilberto Fragoso; Sherri de Coronado; Dianne M Reeves; Jillaine B Hadfield; Christophe Ludet; Peter A Covitz
Journal:  J Biomed Inform       Date:  2007-04-02       Impact factor: 6.317

8.  Derived Data Storage and Exchange Workflow for Large-Scale Neuroimaging Analyses on the BIRN Grid.

Authors:  David B Keator; Dingying Wei; Syam Gadde; Jeremy Bockholt; Jeffrey S Grethe; Daniel Marcus; Nicole Aucoin; Ibrahim B Ozyurt
Journal:  Front Neuroinform       Date:  2009-09-07       Impact factor: 4.081

  8 in total
  8 in total

1.  Federating clinical data from six pediatric hospitals: process and initial results for microbiology from the PHIS+ consortium.

Authors:  Ramkiran Gouripeddi; Phillip B Warner; Peter Mo; James E Levin; Rajendu Srivastava; Samir S Shah; David de Regt; Eric Kirkendall; Jonathan Bickel; E Kent Korgenski; Michelle Precourt; Richard L Stepanek; Joyce A Mitchell; Scott P Narus; Ron Keren
Journal:  AMIA Annu Symp Proc       Date:  2012-11-03

2.  Identifying clinical/translational research cohorts: ascertainment via querying an integrated multi-source database.

Authors:  John F Hurdle; Stephen C Haroldsen; Andrew Hammer; Cindy Spigle; Alison M Fraser; Geraldine P Mineau; Samir J Courdy
Journal:  J Am Med Inform Assoc       Date:  2012-10-11       Impact factor: 4.497

3.  Using common table expressions to build a scalable Boolean query generator for clinical data warehouses.

Authors:  Daniel R Harris; Darren W Henderson; Ramakanth Kavuluru; Arnold J Stromberg; Todd R Johnson
Journal:  IEEE J Biomed Health Inform       Date:  2014-09       Impact factor: 5.772

4.  Clinical use of an enterprise data warehouse.

Authors:  R Scott Evans; James F Lloyd; Lee A Pierce
Journal:  AMIA Annu Symp Proc       Date:  2012-11-03

5.  Mission and Sustainability of Informatics for Integrating Biology and the Bedside (i2b2).

Authors:  Shawn Murphy; Adam Wilcox
Journal:  EGEMS (Wash DC)       Date:  2014-09-11

6.  A unified structural/terminological interoperability framework based on LexEVS: application to TRANSFoRm.

Authors:  Jean-François Ethier; Olivier Dameron; Vasa Curcin; Mark M McGilchrist; Robert A Verheij; Theodoros N Arvanitis; Adel Taweel; Brendan C Delaney; Anita Burgun
Journal:  J Am Med Inform Assoc       Date:  2013-04-09       Impact factor: 4.497

7.  A focus area maturity model for a statewide master person index.

Authors:  Jeffrey Duncan; Wu Xu; Scott P Narus; Stephen Clyde; Barry Nangle; Sid Thornton; Julio Facelli
Journal:  Online J Public Health Inform       Date:  2013-07-01

8.  Biobanking informatics infrastructure to support clinical and translational research.

Authors:  Bernie Lasalle; Michael Varner; Jeff Botkin; Marc Jackson; Louisa Stark; Melissa Cessna; Carolyn Orthner; Nathan Hulse; Aldo Bernasconi; Randy Madsen; Dustin Schultz; Richard Bradshaw; Joyce Mitchell
Journal:  AMIA Jt Summits Transl Sci Proc       Date:  2013-03-18
  8 in total

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