Literature DB >> 17238407

A web portal that enables collaborative use of advanced medical image processing and informatics tools through the Biomedical Informatics Research Network (BIRN).

Shawn N Murphy1, Michael E Mendis, Jeffrey S Grethe, Randy L Gollub, David Kennedy, Bruce R Rosen.   

Abstract

Launched in 2001, the Biomedical Informatics Research Network (BIRN; http://www.nbirn.net) is an NIH - NCRR initiative that enables researchers to collaborate in an environment for biomedical research and clinical information management, focused particularly upon medical imaging. Although it supports a vast array of programs to transform and calculate upon medical images, three fundamental problems emerged that inhibited collaborations. The first was that the complexity of the programs, and at times legal restrictions, combined to prohibit these programs from being accessible to all members of the teams and indeed the general researcher, although this was a fundamental mission of the BIRN. Second, the calculations that needed to be performed were very complex, and required many steps that often needed to be performed by different groups. Third, many of the analysis programs were not interoperable. These problems combined to created tremendous logistical problems. The solution was to create a portal-based workflow application that allowed the complex, collaborative tasks to take place and enabled new kinds of calculations that had not previously been practical.

Mesh:

Year:  2006        PMID: 17238407      PMCID: PMC1839506     

Source DB:  PubMed          Journal:  AMIA Annu Symp Proc        ISSN: 1559-4076


  3 in total

1.  The LONI Pipeline Processing Environment.

Authors:  David E Rex; Jeffrey Q Ma; Arthur W Toga
Journal:  Neuroimage       Date:  2003-07       Impact factor: 6.556

2.  Data extraction and ad hoc query of an entity-attribute-value database.

Authors:  P M Nadkarni; C Brandt
Journal:  J Am Med Inform Assoc       Date:  1998 Nov-Dec       Impact factor: 4.497

3.  A visual interface designed for novice users to find research patient cohorts in a large biomedical database.

Authors:  Shawn N Murphy; Vivian Gainer; Henry C Chueh
Journal:  AMIA Annu Symp Proc       Date:  2003
  3 in total
  9 in total

Review 1.  Lowering industry firewalls: pre-competitive informatics initiatives in drug discovery.

Authors:  Michael R Barnes; Lee Harland; Steven M Foord; Matthew D Hall; Ian Dix; Scott Thomas; Bryn I Williams-Jones; Cory R Brouwer
Journal:  Nat Rev Drug Discov       Date:  2009-07-17       Impact factor: 84.694

2.  Provenance in neuroimaging.

Authors:  Allan J Mackenzie-Graham; John D Van Horn; Roger P Woods; Karen L Crawford; Arthur W Toga
Journal:  Neuroimage       Date:  2008-04-25       Impact factor: 6.556

3.  MRI-derived measurements of human subcortical, ventricular and intracranial brain volumes: Reliability effects of scan sessions, acquisition sequences, data analyses, scanner upgrade, scanner vendors and field strengths.

Authors:  Jorge Jovicich; Silvester Czanner; Xiao Han; David Salat; Andre van der Kouwe; Brian Quinn; Jenni Pacheco; Marilyn Albert; Ronald Killiany; Deborah Blacker; Paul Maguire; Diana Rosas; Nikos Makris; Randy Gollub; Anders Dale; Bradford C Dickerson; Bruce Fischl
Journal:  Neuroimage       Date:  2009-02-20       Impact factor: 6.556

4.  Detection of cortical thickness correlates of cognitive performance: Reliability across MRI scan sessions, scanners, and field strengths.

Authors:  B C Dickerson; E Fenstermacher; D H Salat; D A Wolk; R P Maguire; R Desikan; J Pacheco; B T Quinn; A Van der Kouwe; D N Greve; D Blacker; M S Albert; R J Killiany; B Fischl
Journal:  Neuroimage       Date:  2007-09-05       Impact factor: 6.556

5.  Cross-domain neurobiology data integration and exploration.

Authors:  Weijian Xuan; Manhong Dai; Josh Buckner; Barbara Mirel; Jean Song; Brian Athey; Stanley J Watson; Fan Meng
Journal:  BMC Genomics       Date:  2010-12-01       Impact factor: 3.969

6.  SMART-on-FHIR implemented over i2b2.

Authors:  Kavishwar B Wagholikar; Joshua C Mandel; Jeffery G Klann; Nich Wattanasin; Michael Mendis; Christopher G Chute; Kenneth D Mandl; Shawn N Murphy
Journal:  J Am Med Inform Assoc       Date:  2017-03-01       Impact factor: 4.497

Review 7.  Automating Installation of the Integrating Biology and the Bedside (i2b2) Platform.

Authors:  Kavishwar B Wagholikar; Michael Mendis; Pralav Dessai; Javier Sanz; Sindy Law; Micheal Gilson; Stephan Sanders; Mahesh Vangala; Douglas S Bell; Shawn N Murphy
Journal:  Biomed Inform Insights       Date:  2018-06-04

8.  The cortical signature of Alzheimer's disease: regionally specific cortical thinning relates to symptom severity in very mild to mild AD dementia and is detectable in asymptomatic amyloid-positive individuals.

Authors:  Bradford C Dickerson; Akram Bakkour; David H Salat; Eric Feczko; Jenni Pacheco; Douglas N Greve; Fran Grodstein; Christopher I Wright; Deborah Blacker; H Diana Rosas; Reisa A Sperling; Alireza Atri; John H Growdon; Bradley T Hyman; John C Morris; Bruce Fischl; Randy L Buckner
Journal:  Cereb Cortex       Date:  2008-07-16       Impact factor: 5.357

9.  Implementation of informatics for integrating biology and the bedside (i2b2) platform as Docker containers.

Authors:  Kavishwar B Wagholikar; Pralav Dessai; Javier Sanz; Michael E Mendis; Douglas S Bell; Shawn N Murphy
Journal:  BMC Med Inform Decis Mak       Date:  2018-07-16       Impact factor: 2.796

  9 in total

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