Meeting report: Ocean ‘omics science, technology and cyberinfrastructure: current challenges and future requirements (August 20-23, 2013)
Identifieur interne : 000191 ( Pmc/Checkpoint ); précédent : 000190; suivant : 000192Meeting 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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<placeName><region type="state">Illinois</region>
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<wicri:cityArea>Argonne National Laboratory, Argonne, IL, USA & Department of Ecology and Evolution, University of Chicago, Chicago</wicri:cityArea>
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<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>
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<front><journal-meta><journal-id journal-id-type="nlm-ta">Stand Genomic Sci</journal-id>
<journal-id journal-id-type="iso-abbrev">Stand Genomic Sci</journal-id>
<journal-id journal-id-type="publisher-id">SIGS</journal-id>
<journal-title-group><journal-title>Standards in Genomic Sciences</journal-title>
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<issn pub-type="epub">1944-3277</issn>
<publisher><publisher-name>Michigan State University</publisher-name>
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</journal-meta>
<article-meta><article-id pub-id-type="pmid">25197495</article-id>
<article-id pub-id-type="pmc">4149014</article-id>
<article-id pub-id-type="publisher-id">sigs.5749944</article-id>
<article-id pub-id-type="doi">10.4056/sigs.5749944</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Community Dialog</subject>
</subj-group>
</article-categories>
<title-group><article-title>Meeting report: Ocean ‘omics science, technology and cyberinfrastructure: current challenges and future requirements (August 20-23, 2013)</article-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>Gilbert</surname>
<given-names>Jack A</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Dick</surname>
<given-names>Gregory J.</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>2</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Jenkins</surname>
<given-names>Bethany</given-names>
</name>
<xref ref-type="aff" rid="aff3"><sup>3</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Heidelberg</surname>
<given-names>John</given-names>
</name>
<xref ref-type="aff" rid="aff4"><sup>4</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Allen</surname>
<given-names>Eric</given-names>
</name>
<xref ref-type="aff" rid="aff5"><sup>5</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Mackey</surname>
<given-names>Katherine R. M.</given-names>
</name>
<xref ref-type="aff" rid="aff6"><sup>6</sup>
</xref>
</contrib>
<contrib contrib-type="author" corresp="yes"><name><surname>DeLong</surname>
<given-names>Edward F.</given-names>
</name>
<xref ref-type="aff" rid="aff7"><sup>7</sup>
</xref>
</contrib>
<aff id="aff1"><label>1</label>
Argonne National Laboratory, Argonne, IL, USA & Department of Ecology and Evolution, University of Chicago, Chicago, IL</aff>
<aff id="aff2"><label>2</label>
Department of Earth and Environmental Sciences and Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI,<country>USA</country>
</aff>
<aff id="aff3"><label>3</label>
Depts of Cell and Molecular Biology and Oceanography, University of Rhode Island, RI 02881</aff>
<aff id="aff4"><label>4</label>
University of Southern California, College of Letters, Arts and Sciences, Los Angeles, CA</aff>
<aff id="aff5"><label>5</label>
Scripps Institution of Oceanography and Division of Biological Sciences, University of California, San Diego, CA</aff>
<aff id="aff6"><label>6</label>
Woods Hole Oceanographic Institution, Marine Chemistry and Geochemistry, Woods Hole, MA</aff>
<aff id="aff7"><label>7</label>
Center for Microbial Oceanography, Research and Education (C-MORE), University of Hawaii, Manoa, Honolulu, HI</aff>
</contrib-group>
<author-notes><corresp id="cor1">Correspondence: Ed DeLong (<email xlink:href="edelong@hawaii.edu">edelong@hawaii.edu</email>
)</corresp>
</author-notes>
<pub-date pub-type="epub"><day>15</day>
<month>3</month>
<year>2014</year>
</pub-date>
<pub-date pub-type="collection"><day>15</day>
<month>6</month>
<year>2014</year>
</pub-date>
<pub-date pub-type="pmc-release"><day>15</day>
<month>3</month>
<year>2014</year>
</pub-date>
<pmc-comment> PMC Release delay is 0 months and 0 days and was based on the
. </pmc-comment>
<volume>9</volume>
<issue>3</issue>
<fpage>1252</fpage>
<lpage>1258</lpage>
<permissions><copyright-statement>Copyright © retained by original authors</copyright-statement>
<copyright-year>2014</copyright-year>
<copyright-holder>Gilbert et al.</copyright-holder>
<license license-type="open-access" xlink:href="http://creativecommons.org/licenses/by/2.5/"><license-p>This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.</license-p>
</license>
</permissions>
<abstract><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>
</abstract>
<funding-group><award-group><funding-source id="sp1">Geosciences Division of the U.S. National Science Foundation</funding-source>
</award-group>
</funding-group>
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<affiliations><list><country><li>États-Unis</li>
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<region><li>Californie</li>
<li>Hawaï</li>
<li>Illinois</li>
<li>Massachusetts</li>
<li>Rhode Island</li>
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<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>
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<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>
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