Leveraging the national cyberinfrastructure for biomedical research
Identifieur interne : 000310 ( Pmc/Checkpoint ); précédent : 000309; suivant : 000311Leveraging the national cyberinfrastructure for biomedical research
Auteurs : Richard Leduc [États-Unis] ; Matthew Vaughn [États-Unis] ; John M. Fonner [États-Unis] ; Michael Sullivan [États-Unis] ; James G. Williams [États-Unis] ; Philip D. Blood [États-Unis] ; James Taylor [États-Unis] ; William Barnett [États-Unis]Source :
- Journal of the American Medical Informatics Association : JAMIA [ 1067-5027 ] ; 2013.
Abstract
In the USA, the national cyberinfrastructure refers to a system of research supercomputer and other IT facilities and the high speed networks that connect them. These resources have been heavily leveraged by scientists in disciplines such as high energy physics, astronomy, and climatology, but until recently they have been little used by biomedical researchers. We suggest that many of the ‘
Url:
DOI: 10.1136/amiajnl-2013-002059
PubMed: 23964072
PubMed Central: 3932465
Affiliations:
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<front><div type="abstract" xml:lang="en"><p>In the USA, the national cyberinfrastructure refers to a system of research supercomputer and other IT facilities and the high speed networks that connect them. These resources have been heavily leveraged by scientists in disciplines such as high energy physics, astronomy, and climatology, but until recently they have been little used by biomedical researchers. We suggest that many of the ‘<italic>Big Data</italic>
’ challenges facing the medical informatics community can be efficiently handled using national-scale cyberinfrastructure. Resources such as the Extreme Science and Discovery Environment, the Open Science Grid, and Internet2 provide economical and proven infrastructures for <italic>Big Data</italic>
challenges, but these resources can be difficult to approach. Specialized web portals, support centers, and virtual organizations can be constructed on these resources to meet defined computational challenges, specifically for genomics. We provide examples of how this has been done in basic biology as an illustration for the biomedical informatics community.</p>
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<contrib-group><contrib contrib-type="author"><name><surname>LeDuc</surname>
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<addr-line>Department of Biology and Department of Mathematics and Computer Science</addr-line>
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<author-notes><corresp><label>Correspondence to</label>
Dr Richard LeDuc, National Center for Genome Analysis Support, 2709 E. 10th Street, Bloomington, IN 47408, USA; <email>rleduc@iu.edu</email>
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<issue>2</issue>
<fpage>195</fpage>
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<history><date date-type="received"><day>31</day>
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<permissions><copyright-statement>Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://group.bmj.com/group/rights-licensing/permissions</copyright-statement>
<copyright-year>2014</copyright-year>
<license license-type="open-access"><license-p>This is an Open Access article distributed in accordance with the Creative Commons Attribution Non Commercial (CC BY-NC 3.0) license, which permits others to distribute, remix, adapt, build upon this work non-commercially, and license their derivative works on different terms, provided the original work is properly cited and the use is non-commercial. See: <ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by-nc/3.0/">http://creativecommons.org/licenses/by-nc/3.0/</ext-link>
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<abstract><p>In the USA, the national cyberinfrastructure refers to a system of research supercomputer and other IT facilities and the high speed networks that connect them. These resources have been heavily leveraged by scientists in disciplines such as high energy physics, astronomy, and climatology, but until recently they have been little used by biomedical researchers. We suggest that many of the ‘<italic>Big Data</italic>
’ challenges facing the medical informatics community can be efficiently handled using national-scale cyberinfrastructure. Resources such as the Extreme Science and Discovery Environment, the Open Science Grid, and Internet2 provide economical and proven infrastructures for <italic>Big Data</italic>
challenges, but these resources can be difficult to approach. Specialized web portals, support centers, and virtual organizations can be constructed on these resources to meet defined computational challenges, specifically for genomics. We provide examples of how this has been done in basic biology as an illustration for the biomedical informatics community.</p>
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