C-ME: A 3D Community-Based, Real-Time Collaboration Tool for Scientific Research and Training
Identifieur interne : 000134 ( Ncbi/Merge ); précédent : 000133; suivant : 000135C-ME: A 3D Community-Based, Real-Time Collaboration Tool for Scientific Research and Training
Auteurs : Anand Kolatkar [États-Unis] ; Kevin Kennedy [États-Unis] ; Dan Halabuk [États-Unis] ; Josh Kunken [États-Unis] ; Dena Marrinucci [États-Unis] ; Kelly Bethel [États-Unis] ; Rodney Guzman [États-Unis] ; Tim Huckaby [États-Unis] ; Peter Kuhn [États-Unis]Source :
- PLoS ONE [ 1932-6203 ] ; 2008.
Abstract
The need for effective collaboration tools is growing as multidisciplinary proteome-wide projects and distributed research teams become more common. The resulting data is often quite disparate, stored in separate locations, and not contextually related. Collaborative Molecular Modeling Environment (C-ME) is an interactive community-based collaboration system that allows researchers to organize information, visualize data on a two-dimensional (2-D) or three-dimensional (3-D) basis, and share and manage that information with collaborators in real time. C-ME stores the information in industry-standard databases that are immediately accessible by appropriate permission within the computer network directory service or anonymously across the internet through the C-ME application or through a web browser. The system addresses two important aspects of collaboration: context and information management. C-ME allows a researcher to use a 3-D atomic structure model or a 2-D image as a contextual basis on which to attach and share annotations to specific atoms or molecules or to specific regions of a 2-D image. These annotations provide additional information about the atomic structure or image data that can then be evaluated, amended or added to by other project members.
Url:
DOI: 10.1371/journal.pone.0001621
PubMed: 18286178
PubMed Central: 2229842
Links toward previous steps (curation, corpus...)
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- to stream Pmc, to step Checkpoint: 000931
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PMC:2229842Le document en format XML
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<front><div type="abstract" xml:lang="en"><p>The need for effective collaboration tools is growing as multidisciplinary proteome-wide projects and distributed research teams become more common. The resulting data is often quite disparate, stored in separate locations, and not contextually related. Collaborative Molecular Modeling Environment (C-ME) is an interactive community-based collaboration system that allows researchers to organize information, visualize data on a two-dimensional (2-D) or three-dimensional (3-D) basis, and share and manage that information with collaborators in real time. C-ME stores the information in industry-standard databases that are immediately accessible by appropriate permission within the computer network directory service or anonymously across the internet through the C-ME application or through a web browser. The system addresses two important aspects of collaboration: context and information management. C-ME allows a researcher to use a 3-D atomic structure model or a 2-D image as a contextual basis on which to attach and share annotations to specific atoms or molecules or to specific regions of a 2-D image. These annotations provide additional information about the atomic structure or image data that can then be evaluated, amended or added to by other project members.</p>
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<title-group><article-title>C-ME: A 3D Community-Based, Real-Time Collaboration Tool for Scientific Research and Training</article-title>
<alt-title alt-title-type="running-head">Scientific 2D/3D Collaboration</alt-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>Kolatkar</surname>
<given-names>Anand</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Kennedy</surname>
<given-names>Kevin</given-names>
</name>
<xref ref-type="aff" rid="aff3"><sup>3</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Halabuk</surname>
<given-names>Dan</given-names>
</name>
<xref ref-type="aff" rid="aff3"><sup>3</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Kunken</surname>
<given-names>Josh</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Marrinucci</surname>
<given-names>Dena</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Bethel</surname>
<given-names>Kelly</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>2</sup>
</xref>
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<contrib contrib-type="author"><name><surname>Guzman</surname>
<given-names>Rodney</given-names>
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<xref ref-type="aff" rid="aff3"><sup>3</sup>
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<contrib contrib-type="author"><name><surname>Huckaby</surname>
<given-names>Tim</given-names>
</name>
<xref ref-type="aff" rid="aff3"><sup>3</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Kuhn</surname>
<given-names>Peter</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup>
</xref>
<xref ref-type="corresp" rid="cor1"><sup>*</sup>
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<aff id="aff1"><label>1</label>
<addr-line>Department of Cell Biology, The Scripps Research Institute, La Jolla, California, United States of America</addr-line>
</aff>
<aff id="aff2"><label>2</label>
<addr-line>Department of Pathology, Scripps Clinic, La Jolla, California, United States of America</addr-line>
</aff>
<aff id="aff3"><label>3</label>
<addr-line>Interknowlogy, Carlsbad, California, United States of America</addr-line>
</aff>
<contrib-group><contrib contrib-type="editor"><name><surname>Futrelle</surname>
<given-names>Robert</given-names>
</name>
<role>Academic Editor</role>
<xref ref-type="aff" rid="edit1"></xref>
</contrib>
</contrib-group>
<aff id="edit1">Northeastern University, United States of America</aff>
<author-notes><corresp id="cor1">*E-mail: <email>pkuhn@scripps.edu</email>
</corresp>
<fn fn-type="con"><p>Conceived and designed the experiments: PK AK TH RG. Analyzed the data: AK JK DM KK DH KB. Wrote the paper: PK AK. Other: Implemented the application: AK KK DH JK.</p>
</fn>
</author-notes>
<pub-date pub-type="collection"><year>2008</year>
</pub-date>
<pub-date pub-type="epub"><day>20</day>
<month>2</month>
<year>2008</year>
</pub-date>
<volume>3</volume>
<issue>2</issue>
<elocation-id>e1621</elocation-id>
<history><date date-type="received"><day>7</day>
<month>11</month>
<year>2007</year>
</date>
<date date-type="accepted"><day>21</day>
<month>1</month>
<year>2008</year>
</date>
</history>
<permissions><copyright-statement>Kolatkar et al.</copyright-statement>
<copyright-year>2008</copyright-year>
<license xlink:href="http://creativecommons.org/licenses/by/4.0/"><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 author and source are properly credited.</license-p>
</license>
</permissions>
<abstract><p>The need for effective collaboration tools is growing as multidisciplinary proteome-wide projects and distributed research teams become more common. The resulting data is often quite disparate, stored in separate locations, and not contextually related. Collaborative Molecular Modeling Environment (C-ME) is an interactive community-based collaboration system that allows researchers to organize information, visualize data on a two-dimensional (2-D) or three-dimensional (3-D) basis, and share and manage that information with collaborators in real time. C-ME stores the information in industry-standard databases that are immediately accessible by appropriate permission within the computer network directory service or anonymously across the internet through the C-ME application or through a web browser. The system addresses two important aspects of collaboration: context and information management. C-ME allows a researcher to use a 3-D atomic structure model or a 2-D image as a contextual basis on which to attach and share annotations to specific atoms or molecules or to specific regions of a 2-D image. These annotations provide additional information about the atomic structure or image data that can then be evaluated, amended or added to by other project members.</p>
</abstract>
<counts><page-count count="9"></page-count>
</counts>
</article-meta>
</front>
</pmc>
<affiliations><list><country><li>États-Unis</li>
</country>
<region><li>Californie</li>
</region>
</list>
<tree><country name="États-Unis"><region name="Californie"><name sortKey="Kolatkar, Anand" sort="Kolatkar, Anand" uniqKey="Kolatkar A" first="Anand" last="Kolatkar">Anand Kolatkar</name>
</region>
<name sortKey="Bethel, Kelly" sort="Bethel, Kelly" uniqKey="Bethel K" first="Kelly" last="Bethel">Kelly Bethel</name>
<name sortKey="Guzman, Rodney" sort="Guzman, Rodney" uniqKey="Guzman R" first="Rodney" last="Guzman">Rodney Guzman</name>
<name sortKey="Halabuk, Dan" sort="Halabuk, Dan" uniqKey="Halabuk D" first="Dan" last="Halabuk">Dan Halabuk</name>
<name sortKey="Huckaby, Tim" sort="Huckaby, Tim" uniqKey="Huckaby T" first="Tim" last="Huckaby">Tim Huckaby</name>
<name sortKey="Kennedy, Kevin" sort="Kennedy, Kevin" uniqKey="Kennedy K" first="Kevin" last="Kennedy">Kevin Kennedy</name>
<name sortKey="Kuhn, Peter" sort="Kuhn, Peter" uniqKey="Kuhn P" first="Peter" last="Kuhn">Peter Kuhn</name>
<name sortKey="Kunken, Josh" sort="Kunken, Josh" uniqKey="Kunken J" first="Josh" last="Kunken">Josh Kunken</name>
<name sortKey="Marrinucci, Dena" sort="Marrinucci, Dena" uniqKey="Marrinucci D" first="Dena" last="Marrinucci">Dena Marrinucci</name>
</country>
</tree>
</affiliations>
</record>
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