Design of a data model for developing laboratory information management and analysis systems for protein production
Identifieur interne : 002604 ( Istex/Corpus ); précédent : 002603; suivant : 002605Design of a data model for developing laboratory information management and analysis systems for protein production
Auteurs : Anne Pajon ; John Ionides ; Jon Diprose ; Joël Fillon ; Rasmus Fogh ; Alun W. Ashton ; Helen Berman ; Wayne Boucher ; Miroslaw Cygler ; Emeline Deleury ; Robert Esnouf ; Joël Janin ; Rosalind Kim ; Isabelle Krimm ; Catherine L. Lawson ; Eric Oeuillet ; Anne Poupon ; Stéphane Raymond ; Tim Stevens ; Herman Van Tilbeurgh ; John Westbrook ; Peter Wood ; Eldon Ulrich ; Wim Vranken ; Li Xueli ; Ernest Laue ; David I. Stuart ; Kim HenrickSource :
- Proteins: Structure, Function, and Bioinformatics [ 0887-3585 ] ; 2005-02-01.
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Abstract
Data management has emerged as one of the central issues in the high‐throughput processes of taking a protein target sequence through to a protein sample. To simplify this task, and following extensive consultation with the international structural genomics community, we describe here a model of the data related to protein production. The model is suitable for both large and small facilities for use in tracking samples, experiments, and results through the many procedures involved. The model is described in Unified Modeling Language (UML). In addition, we present relational database schemas derived from the UML. These relational schemas are already in use in a number of data management projects. Proteins 2005. © 2004 Wiley‐Liss, Inc.
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DOI: 10.1002/prot.20303
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Ashton</name><affiliation><mods:affiliation>Daresbury Laboratory, Daresbury, Warrington, United Kingdom</mods:affiliation></affiliation></author><author><name sortKey="Berman, Helen" sort="Berman, Helen" uniqKey="Berman H" first="Helen" last="Berman">Helen Berman</name><affiliation><mods:affiliation>Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, New Jersey</mods:affiliation></affiliation></author><author><name sortKey="Boucher, Wayne" sort="Boucher, Wayne" uniqKey="Boucher W" first="Wayne" last="Boucher">Wayne Boucher</name><affiliation><mods:affiliation>Department of Biochemistry, University of Cambridge, Cambridge, United Kingdom</mods:affiliation></affiliation></author><author><name sortKey="Cygler, Miroslaw" sort="Cygler, Miroslaw" uniqKey="Cygler M" first="Miroslaw" last="Cygler">Miroslaw Cygler</name><affiliation><mods:affiliation>Biotechnology Research Institute, NRC, Montréal, Québec, Canada</mods:affiliation></affiliation></author><author><name sortKey="Deleury, Emeline" sort="Deleury, Emeline" uniqKey="Deleury E" first="Emeline" last="Deleury">Emeline Deleury</name><affiliation><mods:affiliation>Plateforme Transcriptome CNRS/INRA de Sophia Antipolis, Sophia Antipolis, France</mods:affiliation></affiliation></author><author><name sortKey="Esnouf, Robert" sort="Esnouf, Robert" uniqKey="Esnouf R" first="Robert" last="Esnouf">Robert Esnouf</name><affiliation><mods:affiliation>Oxford Protein Production Facility, Wellcome Trust Centre for Human Genetics, Headington, Oxford, United Kingdom</mods:affiliation></affiliation></author><author><name sortKey="Janin, Joel" sort="Janin, Joel" uniqKey="Janin J" first="Joël" last="Janin">Joël Janin</name><affiliation><mods:affiliation>LEBS, Equipe Génomique Structurale, Gif‐sur‐Yvette, France</mods:affiliation></affiliation></author><author><name sortKey="Kim, Rosalind" sort="Kim, Rosalind" uniqKey="Kim R" first="Rosalind" last="Kim">Rosalind Kim</name><affiliation><mods:affiliation>Lawrence Berkeley National Laboratory, Berkeley, California</mods:affiliation></affiliation></author><author><name sortKey="Krimm, Isabelle" sort="Krimm, Isabelle" uniqKey="Krimm I" first="Isabelle" last="Krimm">Isabelle Krimm</name><affiliation><mods:affiliation>Laboratoire de RMN Biomoléculaire, Université Claude Bernard, Lyon, France</mods:affiliation></affiliation></author><author><name sortKey="Lawson, Catherine L" sort="Lawson, Catherine L" uniqKey="Lawson C" first="Catherine L." last="Lawson">Catherine L. Lawson</name><affiliation><mods:affiliation>Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, New Jersey</mods:affiliation></affiliation></author><author><name sortKey="Oeuillet, Eric" sort="Oeuillet, Eric" uniqKey="Oeuillet E" first="Eric" last="Oeuillet">Eric Oeuillet</name><affiliation><mods:affiliation>LEBS, Equipe Génomique Structurale, Gif‐sur‐Yvette, France</mods:affiliation></affiliation></author><author><name sortKey="Poupon, Anne" sort="Poupon, Anne" uniqKey="Poupon A" first="Anne" last="Poupon">Anne Poupon</name><affiliation><mods:affiliation>LEBS, Equipe Génomique Structurale, Gif‐sur‐Yvette, France</mods:affiliation></affiliation></author><author><name sortKey="Raymond, Stephane" sort="Raymond, Stephane" uniqKey="Raymond S" first="Stéphane" last="Raymond">Stéphane Raymond</name><affiliation><mods:affiliation>Biotechnology Research Institute, NRC, Montréal, Québec, Canada</mods:affiliation></affiliation></author><author><name sortKey="Stevens, Tim" sort="Stevens, Tim" uniqKey="Stevens T" first="Tim" last="Stevens">Tim Stevens</name><affiliation><mods:affiliation>Department of Biochemistry, University of Cambridge, Cambridge, United Kingdom</mods:affiliation></affiliation></author><author><name sortKey="Van Tilbeurgh, Herman" sort="Van Tilbeurgh, Herman" uniqKey="Van Tilbeurgh H" first="Herman" last="Van Tilbeurgh">Herman Van Tilbeurgh</name><affiliation><mods:affiliation>LEBS, Equipe Génomique Structurale, Gif‐sur‐Yvette, France</mods:affiliation></affiliation></author><author><name sortKey="Westbrook, John" sort="Westbrook, John" uniqKey="Westbrook J" first="John" last="Westbrook">John Westbrook</name><affiliation><mods:affiliation>Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, New Jersey</mods:affiliation></affiliation></author><author><name sortKey="Wood, Peter" sort="Wood, Peter" uniqKey="Wood P" first="Peter" last="Wood">Peter Wood</name><affiliation><mods:affiliation>Daresbury Laboratory, Daresbury, Warrington, United Kingdom</mods:affiliation></affiliation></author><author><name sortKey="Ulrich, Eldon" sort="Ulrich, Eldon" uniqKey="Ulrich E" first="Eldon" last="Ulrich">Eldon Ulrich</name><affiliation><mods:affiliation>Department of Biochemistry, University Wisconsin Madison, Madison, Wisconsin</mods:affiliation></affiliation></author><author><name sortKey="Vranken, Wim" sort="Vranken, Wim" uniqKey="Vranken W" first="Wim" last="Vranken">Wim Vranken</name><affiliation><mods:affiliation>EMBL Outstation, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom</mods:affiliation></affiliation></author><author><name sortKey="Xueli, Li" sort="Xueli, Li" uniqKey="Xueli L" first="Li" last="Xueli">Li Xueli</name><affiliation><mods:affiliation>Biotechnology Research Institute, NRC, Montréal, Québec, Canada</mods:affiliation></affiliation></author><author><name sortKey="Laue, Ernest" sort="Laue, Ernest" uniqKey="Laue E" first="Ernest" last="Laue">Ernest Laue</name><affiliation><mods:affiliation>Department of Biochemistry, University of Cambridge, Cambridge, United Kingdom</mods:affiliation></affiliation></author><author><name sortKey="Stuart, David I" sort="Stuart, David I" uniqKey="Stuart D" first="David I." last="Stuart">David I. Stuart</name><affiliation><mods:affiliation>Oxford Protein Production Facility, Wellcome Trust Centre for Human Genetics, Headington, Oxford, United Kingdom</mods:affiliation></affiliation></author><author><name sortKey="Henrick, Kim" sort="Henrick, Kim" uniqKey="Henrick K" first="Kim" last="Henrick">Kim Henrick</name><affiliation><mods:affiliation>EMBL Outstation, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom</mods:affiliation></affiliation><affiliation><mods:affiliation>Macromolecular Structures Database, EMBL‐EBI, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK===</mods:affiliation></affiliation></author></analytic><monogr></monogr><series><title level="j">Proteins: Structure, Function, and Bioinformatics</title><title level="j" type="abbrev">Proteins</title><idno type="ISSN">0887-3585</idno><idno type="eISSN">1097-0134</idno><imprint><publisher>Wiley Subscription Services, Inc., A Wiley Company</publisher><pubPlace>Hoboken</pubPlace><date type="published" when="2005-02-01">2005-02-01</date><biblScope unit="volume">58</biblScope><biblScope unit="issue">2</biblScope><biblScope unit="page" from="278">278</biblScope><biblScope unit="page" to="284">284</biblScope></imprint><idno type="ISSN">0887-3585</idno></series><idno type="istex">8D6E95898AA8051A750541550C87E2FC0D3E47E7</idno><idno type="DOI">10.1002/prot.20303</idno><idno type="ArticleID">PROT20303</idno></biblStruct></sourceDesc><seriesStmt><idno type="ISSN">0887-3585</idno></seriesStmt></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>LIMS</term><term>UML data model</term><term>database schema</term><term>protein production</term></keywords></textClass><langUsage><language ident="en">en</language></langUsage></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Data management has emerged as one of the central issues in the high‐throughput processes of taking a protein target sequence through to a protein sample. To simplify this task, and following extensive consultation with the international structural genomics community, we describe here a model of the data related to protein production. The model is suitable for both large and small facilities for use in tracking samples, experiments, and results through the many procedures involved. The model is described in Unified Modeling Language (UML). In addition, we present relational database schemas derived from the UML. These relational schemas are already in use in a number of data management projects. Proteins 2005. © 2004 Wiley‐Liss, Inc.</div></front></TEI><istex><corpusName>wiley</corpusName><keywords><teeft><json:string>ppdm</json:string><json:string>genomics</json:string><json:string>software</json:string><json:string>data model</json:string><json:string>biol</json:string><json:string>crystallogr</json:string><json:string>ccpn</json:string><json:string>database</json:string><json:string>proteomics</json:string><json:string>expblueprint</json:string><json:string>grant sponsor</json:string><json:string>protein production</json:string><json:string>lims</json:string><json:string>bioinformatics</json:string><json:string>experimental objective</json:string><json:string>acta crystallogr</json:string><json:string>physical samples</json:string><json:string>ccpn data model</json:string><json:string>biol crystallogr</json:string><json:string>grant number</json:string><json:string>protein production data model</json:string><json:string>modeling language</json:string><json:string>structural proteomics</json:string><json:string>data items</json:string><json:string>structural genomics</json:string><json:string>data exchange</json:string><json:string>data management</json:string><json:string>sample components</json:string><json:string>nucleic acids</json:string><json:string>generic description</json:string><json:string>task force</json:string><json:string>laboratory information management</json:string><json:string>structural genomics informatics</json:string><json:string>robotic systems</json:string><json:string>class diagrams</json:string><json:string>ccpn project</json:string><json:string>protein sample</json:string><json:string>single gene</json:string><json:string>sample package</json:string><json:string>travel funds</json:string><json:string>national institutes</json:string><json:string>physical sample</json:string><json:string>software applications</json:string><json:string>output samples</json:string><json:string>inheritance association</json:string><json:string>inheritance tree</json:string><json:string>ccpn framework</json:string><json:string>spine initiative</json:string><json:string>sophia antipolis</json:string><json:string>struct biol</json:string><json:string>protein data bank</json:string><json:string>protein structure</json:string><json:string>oxford protein production facility</json:string><json:string>wellcome trust genome campus</json:string><json:string>microarray data</json:string><json:string>schema</json:string></teeft></keywords><author><json:item><name>Anne Pajon</name><affiliations><json:string>EMBL Outstation, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom</json:string></affiliations></json:item><json:item><name>John Ionides</name><affiliations><json:string>EMBL Outstation, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom</json:string></affiliations></json:item><json:item><name>Jon Diprose</name><affiliations><json:string>Oxford Protein Production Facility, Wellcome Trust Centre for Human Genetics, Headington, Oxford, United Kingdom</json:string></affiliations></json:item><json:item><name>Joël Fillon</name><affiliations><json:string>EMBL Outstation, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom</json:string></affiliations></json:item><json:item><name>Rasmus Fogh</name><affiliations><json:string>Department of Biochemistry, University of Cambridge, Cambridge, United Kingdom</json:string></affiliations></json:item><json:item><name>Alun W. Ashton</name><affiliations><json:string>Daresbury Laboratory, Daresbury, Warrington, United Kingdom</json:string></affiliations></json:item><json:item><name>Helen Berman</name><affiliations><json:string>Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, New Jersey</json:string></affiliations></json:item><json:item><name>Wayne Boucher</name><affiliations><json:string>Department of Biochemistry, University of Cambridge, Cambridge, United Kingdom</json:string></affiliations></json:item><json:item><name>Miroslaw Cygler</name><affiliations><json:string>Biotechnology Research Institute, NRC, Montréal, Québec, Canada</json:string></affiliations></json:item><json:item><name>Emeline Deleury</name><affiliations><json:string>Plateforme Transcriptome CNRS/INRA de Sophia Antipolis, Sophia Antipolis, France</json:string></affiliations></json:item><json:item><name>Robert Esnouf</name><affiliations><json:string>Oxford Protein Production Facility, Wellcome Trust Centre for Human Genetics, Headington, Oxford, United Kingdom</json:string></affiliations></json:item><json:item><name>Joël Janin</name><affiliations><json:string>LEBS, Equipe Génomique Structurale, Gif‐sur‐Yvette, France</json:string></affiliations></json:item><json:item><name>Rosalind Kim</name><affiliations><json:string>Lawrence Berkeley National Laboratory, Berkeley, California</json:string></affiliations></json:item><json:item><name>Isabelle Krimm</name><affiliations><json:string>Laboratoire de RMN Biomoléculaire, Université Claude Bernard, Lyon, France</json:string></affiliations></json:item><json:item><name>Catherine L. 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Biochemistry, University Wisconsin Madison, Madison, Wisconsin</unparsedAffiliation></affiliation></affiliationGroup><keywordGroup xml:lang="en" type="author"><keyword xml:id="kwd1">UML data model</keyword><keyword xml:id="kwd2">protein production</keyword><keyword xml:id="kwd3">database schema</keyword><keyword xml:id="kwd4">LIMS</keyword></keywordGroup><fundingInfo><fundingAgency>European Union (EU) for the TEMBLOR</fundingAgency><fundingNumber>QLRI‐CT‐2001‐00015</fundingNumber></fundingInfo><fundingInfo><fundingAgency>SPINE</fundingAgency><fundingNumber>QLG2‐CT‐2002‐00988</fundingNumber></fundingInfo><fundingInfo><fundingAgency>Biotechnology and Biological Sciences Research Council (BBSRC) UK for the CCPN and eHTPX projects</fundingAgency></fundingInfo><fundingInfo><fundingAgency>BBSRC through the CCP4 grant</fundingAgency></fundingInfo><fundingInfo><fundingAgency>CCLRC Industrial Placement Studentship</fundingAgency></fundingInfo><fundingInfo><fundingAgency>Medical Research Council, UK (funding for the Oxford Protein Production Facility)</fundingAgency></fundingInfo><fundingInfo><fundingAgency>EU MAXINF</fundingAgency><fundingNumber>EU‐HPRI‐CT‐2000‐40021 (travel funds for coordinating activities)</fundingNumber></fundingInfo><fundingInfo><fundingAgency>Autostruct projects</fundingAgency><fundingNumber>QLRI‐CT‐2000‐30398 (travel funds for coordinating activities)</fundingNumber></fundingInfo><fundingInfo><fundingAgency>USA agencies</fundingAgency></fundingInfo><fundingInfo><fundingAgency>National Science Foundation</fundingAgency></fundingInfo><fundingInfo><fundingAgency>Department of Energy</fundingAgency></fundingInfo><fundingInfo><fundingAgency>National Institutes of Health</fundingAgency></fundingInfo><abstractGroup><abstract type="main" xml:lang="en"><title type="main">Abstract</title><p>Data management has emerged as one of the central issues in the high‐throughput processes of taking a protein target sequence through to a protein sample. To simplify this task, and following extensive consultation with the international structural genomics community, we describe here a model of the data related to protein production. The model is suitable for both large and small facilities for use in tracking samples, experiments, and results through the many procedures involved. The model is described in Unified Modeling Language (UML). In addition, we present relational database schemas derived from the UML. These relational schemas are already in use in a number of data management projects. Proteins 2005. © 2004 Wiley‐Liss, Inc.</p></abstract></abstractGroup></contentMeta></header></component></istex:document></istex:metadataXml><mods version="3.6"><titleInfo lang="en"><title>Design of a data model for developing laboratory information management and analysis systems for protein production</title></titleInfo><titleInfo type="abbreviated" lang="en"><title>Design of a Data Model</title></titleInfo><titleInfo type="alternative" contentType="CDATA" lang="en"><title>Design of a data model for developing laboratory information management and analysis systems for protein production</title></titleInfo><name type="personal"><namePart type="given">Anne</namePart><namePart type="family">Pajon</namePart><affiliation>EMBL Outstation, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">John</namePart><namePart type="family">Ionides</namePart><affiliation>EMBL Outstation, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Jon</namePart><namePart type="family">Diprose</namePart><affiliation>Oxford Protein Production Facility, Wellcome Trust Centre for Human Genetics, Headington, Oxford, United Kingdom</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Joël</namePart><namePart type="family">Fillon</namePart><affiliation>EMBL Outstation, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Rasmus</namePart><namePart type="family">Fogh</namePart><affiliation>Department of Biochemistry, University of Cambridge, Cambridge, United Kingdom</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Alun W.</namePart><namePart type="family">Ashton</namePart><affiliation>Daresbury Laboratory, Daresbury, Warrington, United Kingdom</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Helen</namePart><namePart type="family">Berman</namePart><affiliation>Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, New Jersey</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Wayne</namePart><namePart type="family">Boucher</namePart><affiliation>Department of Biochemistry, University of Cambridge, Cambridge, United Kingdom</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Miroslaw</namePart><namePart type="family">Cygler</namePart><affiliation>Biotechnology Research Institute, NRC, Montréal, Québec, Canada</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Emeline</namePart><namePart type="family">Deleury</namePart><affiliation>Plateforme Transcriptome CNRS/INRA de Sophia Antipolis, Sophia Antipolis, France</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Robert</namePart><namePart type="family">Esnouf</namePart><affiliation>Oxford Protein Production Facility, Wellcome Trust Centre for Human Genetics, Headington, Oxford, United Kingdom</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Joël</namePart><namePart type="family">Janin</namePart><affiliation>LEBS, Equipe Génomique Structurale, Gif‐sur‐Yvette, France</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Rosalind</namePart><namePart type="family">Kim</namePart><affiliation>Lawrence Berkeley National Laboratory, Berkeley, California</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Isabelle</namePart><namePart type="family">Krimm</namePart><affiliation>Laboratoire de RMN Biomoléculaire, Université Claude Bernard, Lyon, France</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Catherine L.</namePart><namePart type="family">Lawson</namePart><affiliation>Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, New Jersey</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Eric</namePart><namePart type="family">Oeuillet</namePart><affiliation>LEBS, Equipe Génomique Structurale, Gif‐sur‐Yvette, France</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Anne</namePart><namePart type="family">Poupon</namePart><affiliation>LEBS, Equipe Génomique Structurale, Gif‐sur‐Yvette, France</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Stéphane</namePart><namePart type="family">Raymond</namePart><affiliation>Biotechnology Research Institute, NRC, Montréal, Québec, Canada</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Tim</namePart><namePart type="family">Stevens</namePart><affiliation>Department of Biochemistry, University of Cambridge, Cambridge, United Kingdom</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Herman</namePart><namePart type="family">van Tilbeurgh</namePart><affiliation>LEBS, Equipe Génomique Structurale, Gif‐sur‐Yvette, France</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">John</namePart><namePart type="family">Westbrook</namePart><affiliation>Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, New Jersey</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Peter</namePart><namePart type="family">Wood</namePart><affiliation>Daresbury Laboratory, Daresbury, Warrington, United Kingdom</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Eldon</namePart><namePart type="family">Ulrich</namePart><affiliation>Department of Biochemistry, University Wisconsin Madison, Madison, Wisconsin</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Wim</namePart><namePart type="family">Vranken</namePart><affiliation>EMBL Outstation, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Li</namePart><namePart type="family">Xueli</namePart><affiliation>Biotechnology Research Institute, NRC, Montréal, Québec, Canada</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Ernest</namePart><namePart type="family">Laue</namePart><affiliation>Department of Biochemistry, University of Cambridge, Cambridge, United Kingdom</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">David I.</namePart><namePart type="family">Stuart</namePart><affiliation>Oxford Protein Production Facility, Wellcome Trust Centre for Human Genetics, Headington, Oxford, United Kingdom</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">Kim</namePart><namePart type="family">Henrick</namePart><affiliation>EMBL Outstation, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom</affiliation><affiliation>Macromolecular Structures Database, EMBL‐EBI, The Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK===</affiliation><role><roleTerm type="text">author</roleTerm></role></name><typeOfResource>text</typeOfResource><genre type="article" displayLabel="article"></genre><originInfo><publisher>Wiley Subscription Services, Inc., A Wiley Company</publisher><place><placeTerm type="text">Hoboken</placeTerm></place><dateIssued encoding="w3cdtf">2005-02-01</dateIssued><dateCaptured encoding="w3cdtf">2004-03-22</dateCaptured><dateValid encoding="w3cdtf">2004-07-13</dateValid><copyrightDate encoding="w3cdtf">2005</copyrightDate></originInfo><language><languageTerm type="code" authority="rfc3066">en</languageTerm><languageTerm type="code" authority="iso639-2b">eng</languageTerm></language><physicalDescription><internetMediaType>text/html</internetMediaType><extent unit="figures">1</extent><extent unit="tables">1</extent><extent unit="references">45</extent><extent unit="words">5131</extent></physicalDescription><abstract lang="en">Data management has emerged as one of the central issues in the high‐throughput processes of taking a protein target sequence through to a protein sample. To simplify this task, and following extensive consultation with the international structural genomics community, we describe here a model of the data related to protein production. The model is suitable for both large and small facilities for use in tracking samples, experiments, and results through the many procedures involved. The model is described in Unified Modeling Language (UML). In addition, we present relational database schemas derived from the UML. These relational schemas are already in use in a number of data management projects. Proteins 2005. © 2004 Wiley‐Liss, Inc.</abstract><note type="funding">European Union (EU) for the TEMBLOR - No. QLRI‐CT‐2001‐00015; </note><note type="funding">SPINE - No. QLG2‐CT‐2002‐00988; </note><note type="funding">Biotechnology and Biological Sciences Research Council (BBSRC) UK for the CCPN and eHTPX projects</note><note type="funding">BBSRC through the CCP4 grant</note><note type="funding">CCLRC Industrial Placement Studentship</note><note type="funding">Medical Research Council, UK (funding for the Oxford Protein Production Facility)</note><note type="funding">EU MAXINF - No. EU‐HPRI‐CT‐2000‐40021 (travel funds for coordinating activities); </note><note type="funding">Autostruct projects - No. QLRI‐CT‐2000‐30398 (travel funds for coordinating activities); </note><note type="funding">USA agencies</note><note type="funding">National Science Foundation</note><note type="funding">Department of Energy</note><note type="funding">National Institutes of Health</note><subject lang="en"><genre>keywords</genre><topic>UML data model</topic><topic>protein production</topic><topic>database schema</topic><topic>LIMS</topic></subject><relatedItem type="host"><titleInfo><title>Proteins: Structure, Function, and Bioinformatics</title></titleInfo><titleInfo type="abbreviated"><title>Proteins</title></titleInfo><genre type="journal">journal</genre><subject><genre>article-category</genre><topic>Research Article</topic></subject><identifier type="ISSN">0887-3585</identifier><identifier type="eISSN">1097-0134</identifier><identifier type="DOI">10.1002/(ISSN)1097-0134</identifier><identifier type="PublisherID">PROT</identifier><part><date>2005</date><detail type="volume"><caption>vol.</caption><number>58</number></detail><detail type="issue"><caption>no.</caption><number>2</number></detail><extent unit="pages"><start>278</start><end>284</end><total>7</total></extent></part></relatedItem><identifier type="istex">8D6E95898AA8051A750541550C87E2FC0D3E47E7</identifier><identifier type="DOI">10.1002/prot.20303</identifier><identifier type="ArticleID">PROT20303</identifier><accessCondition type="use and reproduction" contentType="copyright">Copyright © 2004 Wiley‐Liss, Inc.</accessCondition><recordInfo><recordContentSource>WILEY</recordContentSource><recordOrigin>Wiley Subscription Services, Inc., A Wiley Company</recordOrigin></recordInfo></mods></metadata><serie></serie></istex></record>Pour manipuler ce document sous Unix (Dilib)
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