Literature DB >> 18348946

A national human neuroimaging collaboratory enabled by the Biomedical Informatics Research Network (BIRN).

David B Keator1, J S Grethe, D Marcus, B Ozyurt, S Gadde, Sean Murphy, S Pieper, D Greve, R Notestine, H J Bockholt, P Papadopoulos.   

Abstract

The aggregation of imaging, clinical, and behavioral data from multiple independent institutions and researchers presents both a great opportunity for biomedical research as well as a formidable challenge. Many research groups have well-established data collection and analysis procedures, as well as data and metadata format requirements that are particular to that group. Moreover, the types of data and metadata collected are quite diverse, including image, physiological, and behavioral data, as well as descriptions of experimental design, and preprocessing and analysis methods. Each of these types of data utilizes a variety of software tools for collection, storage, and processing. Furthermore sites are reluctant to release control over the distribution and access to the data and the tools. To address these needs, the Biomedical Informatics Research Network (BIRN) has developed a federated and distributed infrastructure for the storage, retrieval, analysis, and documentation of biomedical imaging data. The infrastructure consists of distributed data collections hosted on dedicated storage and computational resources located at each participating site, a federated data management system and data integration environment, an Extensible Markup Language (XML) schema for data exchange, and analysis pipelines, designed to leverage both the distributed data management environment and the available grid computing resources.

Entities:  

Mesh:

Year:  2008        PMID: 18348946      PMCID: PMC2763494          DOI: 10.1109/TITB.2008.917893

Source DB:  PubMed          Journal:  IEEE Trans Inf Technol Biomed        ISSN: 1089-7771


  6 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.  E-neuroscience: challenges and triumphs in integrating distributed data from molecules to brains.

Authors:  Maryann E Martone; Amarnath Gupta; Mark H Ellisman
Journal:  Nat Neurosci       Date:  2004-05       Impact factor: 24.884

3.  A general XML schema and SPM toolbox for storage of neuro-imaging results and anatomical labels.

Authors:  David Bryant Keator; Syam Gadde; Jeffrey S Grethe; Derek V Taylor; Steven G Potkin
Journal:  Neuroinformatics       Date:  2006

4.  Reducing interscanner variability of activation in a multicenter fMRI study: controlling for signal-to-fluctuation-noise-ratio (SFNR) differences.

Authors:  Lee Friedman; Gary H Glover
Journal:  Neuroimage       Date:  2006-09-06       Impact factor: 6.556

5.  A technique for the deidentification of structural brain MR images.

Authors:  Amanda Bischoff-Grethe; I Burak Ozyurt; Evelina Busa; Brian T Quinn; Christine Fennema-Notestine; Camellia P Clark; Shaunna Morris; Mark W Bondi; Terry L Jernigan; Anders M Dale; Gregory G Brown; Bruce Fischl
Journal:  Hum Brain Mapp       Date:  2007-09       Impact factor: 5.038

6.  The Extensible Neuroimaging Archive Toolkit: an informatics platform for managing, exploring, and sharing neuroimaging data.

Authors:  Daniel S Marcus; Timothy R Olsen; Mohana Ramaratnam; Randy L Buckner
Journal:  Neuroinformatics       Date:  2007
  6 in total
  62 in total

1.  NeuroLOG: sharing neuroimaging data using an ontology-based federated approach.

Authors:  Bernard Gibaud; Gilles Kassel; Michel Dojat; Bénédicte Batrancourt; Franck Michel; Alban Gaignard; Johan Montagnat
Journal:  AMIA Annu Symp Proc       Date:  2011-10-22

2.  DFBIdb: a software package for neuroimaging data management.

Authors:  Christopher L Adamson; Amanda G Wood
Journal:  Neuroinformatics       Date:  2010-12

3.  Brain structure in young and old East Asians and Westerners: comparisons of structural volume and cortical thickness.

Authors:  Michael Wei Liang Chee; Hui Zheng; Joshua Oon Soo Goh; Denise Park; Bradley P Sutton
Journal:  J Cogn Neurosci       Date:  2010-04-30       Impact factor: 3.225

Review 4.  Function biomedical informatics research network recommendations for prospective multicenter functional MRI studies.

Authors:  Gary H Glover; Bryon A Mueller; Jessica A Turner; Theo G M van Erp; Thomas T Liu; Douglas N Greve; James T Voyvodic; Jerod Rasmussen; Gregory G Brown; David B Keator; Vince D Calhoun; Hyo Jong Lee; Judith M Ford; Daniel H Mathalon; Michele Diaz; Daniel S O'Leary; Syam Gadde; Adrian Preda; Kelvin O Lim; Cynthia G Wible; Hal S Stern; Aysenil Belger; Gregory McCarthy; Burak Ozyurt; Steven G Potkin
Journal:  J Magn Reson Imaging       Date:  2012-02-07       Impact factor: 4.813

5.  Ontology-guided organ detection to retrieve web images of disease manifestation: towards the construction of a consumer-based health image library.

Authors:  Yang Chen; Xiaofeng Ren; Guo-Qiang Zhang; Rong Xu
Journal:  J Am Med Inform Assoc       Date:  2013-06-21       Impact factor: 4.497

6.  The Pediatric Imaging, Neurocognition, and Genetics (PING) Data Repository.

Authors:  Terry L Jernigan; Timothy T Brown; Donald J Hagler; Natacha Akshoomoff; Hauke Bartsch; Erik Newman; Wesley K Thompson; Cinnamon S Bloss; Sarah S Murray; Nicholas Schork; David N Kennedy; Joshua M Kuperman; Connor McCabe; Yoonho Chung; Ondrej Libiger; Melanie Maddox; B J Casey; Linda Chang; Thomas M Ernst; Jean A Frazier; Jeffrey R Gruen; Elizabeth R Sowell; Tal Kenet; Walter E Kaufmann; Stewart Mostofsky; David G Amaral; Anders M Dale
Journal:  Neuroimage       Date:  2015-05-01       Impact factor: 6.556

7.  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

8.  Enabling collaborative research using the Biomedical Informatics Research Network (BIRN).

Authors:  Karl G Helmer; Jose Luis Ambite; Joseph Ames; Rachana Ananthakrishnan; Gully Burns; Ann L Chervenak; Ian Foster; Lee Liming; David Keator; Fabio Macciardi; Ravi Madduri; John-Paul Navarro; Steven Potkin; Bruce Rosen; Seth Ruffins; Robert Schuler; Jessica A Turner; Arthur Toga; Christina Williams; Carl Kesselman
Journal:  J Am Med Inform Assoc       Date:  2011-04-22       Impact factor: 4.497

9.  Pooling FMRI data: meta-analysis, mega-analysis and multi-center studies.

Authors:  Sergi G Costafreda
Journal:  Front Neuroinform       Date:  2009-09-30       Impact factor: 4.081

10.  Distributed XQuery-Based Integration and Visualization of Multimodality Brain Mapping Data.

Authors:  Landon T Detwiler; Dan Suciu; Joshua D Franklin; Eider B Moore; Andrew V Poliakov; Eunjung S Lee; David P Corina; George A Ojemann; James F Brinkley
Journal:  Front Neuroinform       Date:  2009-01-30       Impact factor: 4.081

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