Meeting report: Ocean ‘omics science, technology and cyberinfrastructure: current challenges and future requirements (August 20-23, 2013)
Identifieur interne : 000203 ( Main/Exploration ); précédent : 000202; suivant : 000204Meeting report: Ocean ‘omics science, technology and cyberinfrastructure: current challenges and future requirements (August 20-23, 2013)
Auteurs : Jack A. Gilbert [États-Unis] ; Gregory J. Dick [États-Unis] ; Bethany Jenkins [États-Unis] ; John Heidelberg [États-Unis] ; Eric Allen [États-Unis] ; Katherine R. M. Mackey [États-Unis] ; Edward F. Delong [États-Unis]Source :
- Standards in Genomic Sciences [ 1944-3277 ] ; 2014.
Abstract
The National Science Foundation’s EarthCube End User Workshop was held at USC Wrigley Marine Science Center on Catalina Island, California in August 2013. The workshop was designed to explore and characterize the needs and tools available to the community that is focusing on microbial and physical oceanography research with a particular emphasis on ‘omic research. The assembled researchers outlined the existing concerns regarding the vast data resources that are being generated, and how we will deal with these resources as their volume and diversity increases. Particular attention was focused on the tools for handling and analyzing the existing data, on the need for the construction and curation of diverse federated databases, as well as development of shared, interoperable, “big-data capable” analytical tools. The key outputs from this workshop include (i) critical scientific challenges and cyber infrastructure constraints, (ii) the current and future ocean ‘omics science grand challenges and questions, and (iii) data management, analytical and associated and cyber-infrastructure capabilities required to meet critical current and future scientific challenges. The main thrust of the meeting and the outcome of this report is a definition of the ‘omics tools, technologies and infrastructures that facilitate continued advance in ocean science biology, marine biogeochemistry, and biological oceanography.
Url:
DOI: 10.4056/sigs.5749944
PubMed: 25197495
PubMed Central: 4149014
Affiliations:
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Gilbert</name><affiliation wicri:level="2"><nlm:aff id="aff1">Argonne National Laboratory, Argonne, IL, USA & Department of Ecology and Evolution, University of Chicago, Chicago, IL</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Illinois</region></placeName><wicri:cityArea>Argonne National Laboratory, Argonne, IL, USA & Department of Ecology and Evolution, University of Chicago, Chicago</wicri:cityArea></affiliation></author><author><name sortKey="Dick, Gregory J" sort="Dick, Gregory J" uniqKey="Dick G" first="Gregory J." last="Dick">Gregory J. Dick</name><affiliation wicri:level="1"><nlm:aff id="aff2">Department of Earth and Environmental Sciences and Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI,<country>USA</country></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation></author><author><name sortKey="Jenkins, Bethany" sort="Jenkins, Bethany" uniqKey="Jenkins B" first="Bethany" last="Jenkins">Bethany Jenkins</name><affiliation wicri:level="2"><nlm:aff id="aff3">Depts of Cell and Molecular Biology and Oceanography, University of Rhode Island, RI 02881</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Rhode Island</region></placeName><wicri:cityArea>Depts of Cell and Molecular Biology and Oceanography, University of Rhode Island</wicri:cityArea></affiliation></author><author><name sortKey="Heidelberg, John" sort="Heidelberg, John" uniqKey="Heidelberg J" first="John" last="Heidelberg">John Heidelberg</name><affiliation wicri:level="2"><nlm:aff id="aff4">University of Southern California, College of Letters, Arts and Sciences, Los Angeles, CA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>University of Southern California, College of Letters, Arts and Sciences, Los Angeles</wicri:cityArea></affiliation></author><author><name sortKey="Allen, Eric" sort="Allen, Eric" uniqKey="Allen E" first="Eric" last="Allen">Eric Allen</name><affiliation wicri:level="2"><nlm:aff id="aff5">Scripps Institution of Oceanography and Division of Biological Sciences, University of California, San Diego, CA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Californie</region></placeName><wicri:cityArea>Scripps Institution of Oceanography and Division of Biological Sciences, University of California, San Diego</wicri:cityArea></affiliation></author><author><name sortKey="Mackey, Katherine R M" sort="Mackey, Katherine R M" uniqKey="Mackey K" first="Katherine R. M." last="Mackey">Katherine R. M. Mackey</name><affiliation wicri:level="2"><nlm:aff id="aff6">Woods Hole Oceanographic Institution, Marine Chemistry and Geochemistry, Woods Hole, MA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Massachusetts</region></placeName><wicri:cityArea>Woods Hole Oceanographic Institution, Marine Chemistry and Geochemistry, Woods Hole</wicri:cityArea></affiliation></author><author><name sortKey="Delong, Edward F" sort="Delong, Edward F" uniqKey="Delong E" first="Edward F." last="Delong">Edward F. Delong</name><affiliation wicri:level="2"><nlm:aff id="aff7">Center for Microbial Oceanography, Research and Education (C-MORE), University of Hawaii, Manoa, Honolulu, HI</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Hawaï</region></placeName><wicri:cityArea>Center for Microbial Oceanography, Research and Education (C-MORE), University of Hawaii, Manoa, Honolulu</wicri:cityArea></affiliation></author></analytic><series><title level="j">Standards in Genomic Sciences</title><idno type="eISSN">1944-3277</idno><imprint><date when="2014">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>The National Science Foundation’s EarthCube End User Workshop was held at USC Wrigley Marine Science Center on Catalina Island, California in August 2013. The workshop was designed to explore and characterize the needs and tools available to the community that is focusing on microbial and physical oceanography research with a particular emphasis on ‘omic research. The assembled researchers outlined the existing concerns regarding the vast data resources that are being generated, and how we will deal with these resources as their volume and diversity increases. Particular attention was focused on the tools for handling and analyzing the existing data, on the need for the construction and curation of diverse federated databases, as well as development of shared, interoperable, “big-data capable” analytical tools. The key outputs from this workshop include (i) critical scientific challenges and cyber infrastructure constraints, (ii) the current and future ocean ‘omics science grand challenges and questions, and (iii) data management, analytical and associated and cyber-infrastructure capabilities required to meet critical current and future scientific challenges. The main thrust of the meeting and the outcome of this report is a definition of the ‘omics tools, technologies and infrastructures that facilitate continued advance in ocean science biology, marine biogeochemistry, and biological oceanography.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Delong, Ef" uniqKey="Delong E">EF DeLong</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Gilbert, Ja" uniqKey="Gilbert J">JA Gilbert</name></author><author><name sortKey="Dupont, Cl" uniqKey="Dupont C">CL Dupont</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Giovannoni, Sj" uniqKey="Giovannoni S">SJ Giovannoni</name></author><author><name sortKey="Vergin, Kl" uniqKey="Vergin K">KL Vergin</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Seshadri, R" uniqKey="Seshadri R">R Seshadri</name></author><author><name sortKey="Kravitz, Sa" uniqKey="Kravitz S">SA Kravitz</name></author><author><name sortKey="Smarr, L" uniqKey="Smarr L">L Smarr</name></author><author><name sortKey="Gilna, P" uniqKey="Gilna P">P Gilna</name></author><author><name sortKey="Frazier, M" uniqKey="Frazier M">M Frazier</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Wilke, A" uniqKey="Wilke A">A Wilke</name></author><author><name sortKey="Glass, Em" uniqKey="Glass E">EM Glass</name></author><author><name sortKey="Bartels, D" uniqKey="Bartels D">D Bartels</name></author><author><name sortKey="Bischof, J" uniqKey="Bischof J">J Bischof</name></author><author><name sortKey="Braithwaite, D" uniqKey="Braithwaite D">D Braithwaite</name></author><author><name sortKey="D Souza, M" uniqKey="D Souza M">M D'Souza</name></author><author><name sortKey="Gerlach, W" uniqKey="Gerlach W">W Gerlach</name></author><author><name sortKey="Harrison, T" uniqKey="Harrison T">T Harrison</name></author><author><name sortKey="Keegan, K" uniqKey="Keegan K">K Keegan</name></author><author><name sortKey="Matthews, H" uniqKey="Matthews H">H Matthews</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Markowitz, Vm" uniqKey="Markowitz V">VM Markowitz</name></author><author><name sortKey="Chen, Im" uniqKey="Chen I">IM Chen</name></author><author><name sortKey="Chu, K" uniqKey="Chu K">K Chu</name></author><author><name sortKey="Szeto, E" uniqKey="Szeto E">E Szeto</name></author><author><name sortKey="Palaniappan, K" uniqKey="Palaniappan K">K Palaniappan</name></author><author><name sortKey="Pillay, M" uniqKey="Pillay M">M Pillay</name></author><author><name sortKey="Ratner, A" uniqKey="Ratner A">A Ratner</name></author><author><name sortKey="Huang, J" uniqKey="Huang J">J Huang</name></author><author><name sortKey="Pagani, I" uniqKey="Pagani I">I Pagani</name></author><author><name sortKey="Tringe, S" uniqKey="Tringe S">S Tringe</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Kultima, Jr" uniqKey="Kultima J">JR Kultima</name></author><author><name sortKey="Sunagawa, S" uniqKey="Sunagawa S">S Sunagawa</name></author><author><name sortKey="Li, J" uniqKey="Li J">J Li</name></author><author><name sortKey="Chen, W" uniqKey="Chen W">W Chen</name></author><author><name sortKey="Chen, H" uniqKey="Chen H">H Chen</name></author><author><name sortKey="Mende, Dr" uniqKey="Mende D">DR Mende</name></author><author><name sortKey="Arumugam, M" uniqKey="Arumugam M">M Arumugam</name></author><author><name sortKey="Pan, Q" uniqKey="Pan Q">Q Pan</name></author><author><name sortKey="Liu, B" uniqKey="Liu B">B Liu</name></author><author><name sortKey="Qin, J" uniqKey="Qin J">J Qin</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Field, D" uniqKey="Field D">D Field</name></author><author><name sortKey="Amaral Zettler, L" uniqKey="Amaral Zettler L">L Amaral-Zettler</name></author><author><name sortKey="Cochrane, G" uniqKey="Cochrane G">G Cochrane</name></author><author><name sortKey="Cole, Jr" uniqKey="Cole J">JR Cole</name></author><author><name sortKey="Dawyndt, P" uniqKey="Dawyndt P">P Dawyndt</name></author><author><name sortKey="Garrity, Gm" uniqKey="Garrity G">GM Garrity</name></author><author><name sortKey="Gilbert, J" uniqKey="Gilbert J">J Gilbert</name></author><author><name sortKey="Glockner, Fo" uniqKey="Glockner F">FO Glockner</name></author><author><name sortKey="Hirschman, L" uniqKey="Hirschman L">L Hirschman</name></author><author><name sortKey="Karsch Mizrachi, I" uniqKey="Karsch Mizrachi I">I Karsch-Mizrachi</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>États-Unis</li></country><region><li>Californie</li><li>Hawaï</li><li>Illinois</li><li>Massachusetts</li><li>Rhode Island</li></region></list><tree><country name="États-Unis"><region name="Illinois"><name sortKey="Gilbert, Jack A" sort="Gilbert, Jack A" uniqKey="Gilbert J" first="Jack A" last="Gilbert">Jack A. Gilbert</name></region><name sortKey="Allen, Eric" sort="Allen, Eric" uniqKey="Allen E" first="Eric" last="Allen">Eric Allen</name><name sortKey="Delong, Edward F" sort="Delong, Edward F" uniqKey="Delong E" first="Edward F." last="Delong">Edward F. Delong</name><name sortKey="Dick, Gregory J" sort="Dick, Gregory J" uniqKey="Dick G" first="Gregory J." last="Dick">Gregory J. Dick</name><name sortKey="Heidelberg, John" sort="Heidelberg, John" uniqKey="Heidelberg J" first="John" last="Heidelberg">John Heidelberg</name><name sortKey="Jenkins, Bethany" sort="Jenkins, Bethany" uniqKey="Jenkins B" first="Bethany" last="Jenkins">Bethany Jenkins</name><name sortKey="Mackey, Katherine R M" sort="Mackey, Katherine R M" uniqKey="Mackey K" first="Katherine R. M." last="Mackey">Katherine R. M. Mackey</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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