An emerging cyberinfrastructure for biodefense pathogen and pathogen–host data
Identifieur interne : 000701 ( Pmc/Checkpoint ); précédent : 000700; suivant : 000702An emerging cyberinfrastructure for biodefense pathogen and pathogen–host data
Auteurs : C. Zhang [États-Unis] ; O. Crasta [États-Unis] ; S. Cammer [États-Unis] ; R. Will [États-Unis] ; R. Kenyon [États-Unis] ; D. Sullivan [États-Unis] ; Q. Yu [États-Unis] ; W. Sun [États-Unis] ; R. Jha [États-Unis] ; D. Liu [États-Unis] ; T. Xue [États-Unis] ; Y. Zhang [États-Unis] ; M. Moore [États-Unis] ; P. Mcgarvey [États-Unis] ; H. Huang [États-Unis] ; Y. Chen [États-Unis] ; J. Zhang [États-Unis] ; R. Mazumder [États-Unis] ; C. Wu [États-Unis] ; B. Sobral [États-Unis]Source :
- Nucleic Acids Research [ 0305-1048 ] ; 2007.
Abstract
The NIAID-funded Biodefense Proteomics Resource Center (RC) provides storage, dissemination, visualization and analysis capabilities for the experimental data deposited by seven Proteomics Research Centers (PRCs). The data and its publication is to support researchers working to discover candidates for the next generation of vaccines, therapeutics and diagnostics against NIAID's Category A, B and C priority pathogens. The data includes transcriptional profiles, protein profiles, protein structural data and host–pathogen protein interactions, in the context of the pathogen life cycle
Url:
DOI: 10.1093/nar/gkm903
PubMed: 17984082
PubMed Central: 2239001
Affiliations:
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Chen</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="AFF1">Social & Scientific Systems, Inc., 8757 Georgia Avenue, 12th Floor Silver Spring, MD 20910</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Maryland</region></placeName><wicri:cityArea>Social & Scientific Systems, Inc., 8757 Georgia Avenue, 12th Floor Silver Spring</wicri:cityArea></affiliation><affiliation wicri:level="2"><nlm:aff id="AFF1">Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007</wicri:regionArea><placeName><region type="state">District de Columbia</region></placeName></affiliation></author><author><name sortKey="Zhang, J" sort="Zhang, J" uniqKey="Zhang J" first="J." last="Zhang">J. Zhang</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="AFF1">Social & Scientific Systems, Inc., 8757 Georgia Avenue, 12th Floor Silver Spring, MD 20910</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Maryland</region></placeName><wicri:cityArea>Social & Scientific Systems, Inc., 8757 Georgia Avenue, 12th Floor Silver Spring</wicri:cityArea></affiliation><affiliation wicri:level="2"><nlm:aff id="AFF1">Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007</wicri:regionArea><placeName><region type="state">District de Columbia</region></placeName></affiliation></author><author><name sortKey="Mazumder, R" sort="Mazumder, R" uniqKey="Mazumder R" first="R." last="Mazumder">R. Mazumder</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007</wicri:regionArea><placeName><region type="state">District de Columbia</region></placeName></affiliation></author><author><name sortKey="Wu, C" sort="Wu, C" uniqKey="Wu C" first="C." last="Wu">C. Wu</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007</wicri:regionArea><placeName><region type="state">District de Columbia</region></placeName></affiliation></author><author><name sortKey="Sobral, B" sort="Sobral, B" uniqKey="Sobral B" first="B." last="Sobral">B. Sobral</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">17984082</idno><idno type="pmc">2239001</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2239001</idno><idno type="RBID">PMC:2239001</idno><idno type="doi">10.1093/nar/gkm903</idno><date when="2007">2007</date><idno type="wicri:Area/Pmc/Corpus">000573</idno><idno type="wicri:Area/Pmc/Curation">000573</idno><idno type="wicri:Area/Pmc/Checkpoint">000701</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">An emerging cyberinfrastructure for biodefense pathogen and pathogen–host data</title><author><name sortKey="Zhang, C" sort="Zhang, C" uniqKey="Zhang C" first="C." last="Zhang">C. Zhang</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author><author><name sortKey="Crasta, O" sort="Crasta, O" uniqKey="Crasta O" first="O." last="Crasta">O. Crasta</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author><author><name sortKey="Cammer, S" sort="Cammer, S" uniqKey="Cammer S" first="S." last="Cammer">S. Cammer</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author><author><name sortKey="Will, R" sort="Will, R" uniqKey="Will R" first="R." last="Will">R. Will</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author><author><name sortKey="Kenyon, R" sort="Kenyon, R" uniqKey="Kenyon R" first="R." last="Kenyon">R. Kenyon</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author><author><name sortKey="Sullivan, D" sort="Sullivan, D" uniqKey="Sullivan D" first="D." last="Sullivan">D. Sullivan</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author><author><name sortKey="Yu, Q" sort="Yu, Q" uniqKey="Yu Q" first="Q." last="Yu">Q. Yu</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author><author><name sortKey="Sun, W" sort="Sun, W" uniqKey="Sun W" first="W." last="Sun">W. Sun</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author><author><name sortKey="Jha, R" sort="Jha, R" uniqKey="Jha R" first="R." last="Jha">R. Jha</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author><author><name sortKey="Liu, D" sort="Liu, D" uniqKey="Liu D" first="D." last="Liu">D. Liu</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author><author><name sortKey="Xue, T" sort="Xue, T" uniqKey="Xue T" first="T." last="Xue">T. Xue</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author><author><name sortKey="Zhang, Y" sort="Zhang, Y" uniqKey="Zhang Y" first="Y." last="Zhang">Y. Zhang</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author><author><name sortKey="Moore, M" sort="Moore, M" uniqKey="Moore M" first="M." last="Moore">M. Moore</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="AFF1">Social & Scientific Systems, Inc., 8757 Georgia Avenue, 12th Floor Silver Spring, MD 20910</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Maryland</region></placeName><wicri:cityArea>Social & Scientific Systems, Inc., 8757 Georgia Avenue, 12th Floor Silver Spring</wicri:cityArea></affiliation></author><author><name sortKey="Mcgarvey, P" sort="Mcgarvey, P" uniqKey="Mcgarvey P" first="P." last="Mcgarvey">P. Mcgarvey</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007</wicri:regionArea><placeName><region type="state">District de Columbia</region></placeName></affiliation></author><author><name sortKey="Huang, H" sort="Huang, H" uniqKey="Huang H" first="H." last="Huang">H. Huang</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007</wicri:regionArea><placeName><region type="state">District de Columbia</region></placeName></affiliation></author><author><name sortKey="Chen, Y" sort="Chen, Y" uniqKey="Chen Y" first="Y." last="Chen">Y. Chen</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="AFF1">Social & Scientific Systems, Inc., 8757 Georgia Avenue, 12th Floor Silver Spring, MD 20910</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Maryland</region></placeName><wicri:cityArea>Social & Scientific Systems, Inc., 8757 Georgia Avenue, 12th Floor Silver Spring</wicri:cityArea></affiliation><affiliation wicri:level="2"><nlm:aff id="AFF1">Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007</wicri:regionArea><placeName><region type="state">District de Columbia</region></placeName></affiliation></author><author><name sortKey="Zhang, J" sort="Zhang, J" uniqKey="Zhang J" first="J." last="Zhang">J. Zhang</name><affiliation wicri:level="2"><nlm:aff wicri:cut=" and" id="AFF1">Social & Scientific Systems, Inc., 8757 Georgia Avenue, 12th Floor Silver Spring, MD 20910</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Maryland</region></placeName><wicri:cityArea>Social & Scientific Systems, Inc., 8757 Georgia Avenue, 12th Floor Silver Spring</wicri:cityArea></affiliation><affiliation wicri:level="2"><nlm:aff id="AFF1">Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007</wicri:regionArea><placeName><region type="state">District de Columbia</region></placeName></affiliation></author><author><name sortKey="Mazumder, R" sort="Mazumder, R" uniqKey="Mazumder R" first="R." last="Mazumder">R. Mazumder</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007</wicri:regionArea><placeName><region type="state">District de Columbia</region></placeName></affiliation></author><author><name sortKey="Wu, C" sort="Wu, C" uniqKey="Wu C" first="C." last="Wu">C. Wu</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007</wicri:regionArea><placeName><region type="state">District de Columbia</region></placeName></affiliation></author><author><name sortKey="Sobral, B" sort="Sobral, B" uniqKey="Sobral B" first="B." last="Sobral">B. Sobral</name><affiliation wicri:level="2"><nlm:aff id="AFF1">Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg</wicri:cityArea></affiliation></author></analytic><series><title level="j">Nucleic Acids Research</title><idno type="ISSN">0305-1048</idno><idno type="eISSN">1362-4962</idno><imprint><date when="2007">2007</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>The NIAID-funded Biodefense Proteomics Resource Center (RC) provides storage, dissemination, visualization and analysis capabilities for the experimental data deposited by seven Proteomics Research Centers (PRCs). The data and its publication is to support researchers working to discover candidates for the next generation of vaccines, therapeutics and diagnostics against NIAID's Category A, B and C priority pathogens. The data includes transcriptional profiles, protein profiles, protein structural data and host–pathogen protein interactions, in the context of the pathogen life cycle <italic>in vivo</italic> and <italic>in vitro</italic>. The database has stored and supported host or pathogen data derived from <italic>Bacillus, Brucella, Cryptosporidium</italic>, <italic>Salmonella</italic>, SARS, <italic>Toxoplasma, Vibrio</italic> and <italic>Yersinia</italic>, human tissue libraries, and mouse macrophages. These publicly available data cover diverse data types such as mass spectrometry, yeast two-hybrid (Y2H), gene expression profiles, X-ray and NMR determined protein structures and protein expression clones. The growing database covers over 23 000 unique genes/proteins from different experiments and organisms. All of the genes/proteins are annotated and integrated across experiments using UniProt Knowledgebase (UniProtKB) accession numbers. The web-interface for the database enables searching, querying and downloading at the level of experiment, group and individual gene(s)/protein(s) via UniProtKB accession numbers or protein function keywords. The system is accessible at <ext-link ext-link-type="uri" xlink:href="http://www.proteomicsresource.org/">http://www.proteomicsresource.org/</ext-link>.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Ideker, T" uniqKey="Ideker T">T Ideker</name></author><author><name sortKey="Winslow, Lr" uniqKey="Winslow L">LR Winslow</name></author><author><name sortKey="Lauffenburger, Ad" uniqKey="Lauffenburger A">AD Lauffenburger</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Smith, Jc" uniqKey="Smith J">JC Smith</name></author><author><name sortKey="Figeys, D" uniqKey="Figeys D">D Figeys</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="De Hoog, Cl" uniqKey="De Hoog C">CL de Hoog</name></author><author><name sortKey="Mann, M" uniqKey="Mann M">M Mann</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Waters, Km" uniqKey="Waters K">KM 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uniqKey="Buchmeier M">MJ Buchmeier</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Saikatendu, Ks" uniqKey="Saikatendu K">KS Saikatendu</name></author><author><name sortKey="Joseph, Js" uniqKey="Joseph J">JS Joseph</name></author><author><name sortKey="Subramanian, V" uniqKey="Subramanian V">V Subramanian</name></author><author><name sortKey="Neuman, Bw" uniqKey="Neuman B">BW Neuman</name></author><author><name sortKey="Buchmeier, Mj" uniqKey="Buchmeier M">MJ Buchmeier</name></author><author><name sortKey="Stevens, Rc" uniqKey="Stevens R">RC Stevens</name></author><author><name sortKey="Kuhn, P" uniqKey="Kuhn P">P Kuhn</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Bergman, Nh" uniqKey="Bergman N">NH Bergman</name></author><author><name sortKey="Anderson, Ec" uniqKey="Anderson E">EC Anderson</name></author><author><name sortKey="Swenson, Ee" uniqKey="Swenson E">EE Swenson</name></author><author><name sortKey="Janes, Bk" uniqKey="Janes B">BK Janes</name></author><author><name sortKey="Fisher, N" uniqKey="Fisher N">N Fisher</name></author><author><name sortKey="Niemeyer, Mm" uniqKey="Niemeyer M">MM Niemeyer</name></author><author><name sortKey="Miyoshi, Ad" uniqKey="Miyoshi A">AD Miyoshi</name></author><author><name sortKey="Hanna, Pc" uniqKey="Hanna P">PC Hanna</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Bergman, Nh" uniqKey="Bergman N">NH Bergman</name></author><author><name sortKey="Anderson, Ec" uniqKey="Anderson E">EC Anderson</name></author><author><name sortKey="Swenson, Ee" uniqKey="Swenson E">EE Swenson</name></author><author><name sortKey="Niemeyer, Mm" uniqKey="Niemeyer M">MM Niemeyer</name></author><author><name sortKey="Miyoshi, Ad" uniqKey="Miyoshi A">AD Miyoshi</name></author><author><name sortKey="Hanna, Pc" uniqKey="Hanna P">PC Hanna</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Bergman, Nh" uniqKey="Bergman N">NH Bergman</name></author><author><name sortKey="Passalacqua, Kd" uniqKey="Passalacqua K">KD Passalacqua</name></author><author><name sortKey="Gaspard, R" uniqKey="Gaspard R">R Gaspard</name></author><author><name sortKey="Shetron Rama, Lm" uniqKey="Shetron Rama L">LM Shetron-Rama</name></author><author><name sortKey="Quackenbush, J" uniqKey="Quackenbush J">J Quackenbush</name></author><author><name sortKey="Hanna, Pc" uniqKey="Hanna P">PC Hanna</name></author></analytic></biblStruct></listBibl></div1></back></TEI><pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Nucleic Acids Res</journal-id><journal-id journal-id-type="iso-abbrev">Nucleic Acids Res</journal-id><journal-id journal-id-type="publisher-id">nar</journal-id><journal-id journal-id-type="hwp">nar</journal-id><journal-title-group><journal-title>Nucleic Acids Research</journal-title></journal-title-group><issn pub-type="ppub">0305-1048</issn><issn pub-type="epub">1362-4962</issn><publisher><publisher-name>Oxford University Press</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">17984082</article-id><article-id pub-id-type="pmc">2239001</article-id><article-id pub-id-type="doi">10.1093/nar/gkm903</article-id><article-categories><subj-group subj-group-type="heading"><subject>Articles</subject></subj-group></article-categories><title-group><article-title>An emerging cyberinfrastructure for biodefense pathogen and pathogen–host data</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Zhang</surname><given-names>C.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref></contrib><contrib contrib-type="author"><name><surname>Crasta</surname><given-names>O.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref></contrib><contrib contrib-type="author"><name><surname>Cammer</surname><given-names>S.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref></contrib><contrib contrib-type="author"><name><surname>Will</surname><given-names>R.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref></contrib><contrib contrib-type="author"><name><surname>Kenyon</surname><given-names>R.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref></contrib><contrib contrib-type="author"><name><surname>Sullivan</surname><given-names>D.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref></contrib><contrib contrib-type="author"><name><surname>Yu</surname><given-names>Q.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref></contrib><contrib contrib-type="author"><name><surname>Sun</surname><given-names>W.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref></contrib><contrib contrib-type="author"><name><surname>Jha</surname><given-names>R.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref></contrib><contrib contrib-type="author"><name><surname>Liu</surname><given-names>D.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref></contrib><contrib contrib-type="author"><name><surname>Xue</surname><given-names>T.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref></contrib><contrib contrib-type="author"><name><surname>Zhang</surname><given-names>Y.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref></contrib><contrib contrib-type="author"><name><surname>Moore</surname><given-names>M.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>2</sup></xref></contrib><contrib contrib-type="author"><name><surname>McGarvey</surname><given-names>P.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>3</sup></xref></contrib><contrib contrib-type="author"><name><surname>Huang</surname><given-names>H.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>3</sup></xref></contrib><contrib contrib-type="author"><name><surname>Chen</surname><given-names>Y.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>2</sup></xref><xref ref-type="aff" rid="AFF1"><sup>3</sup></xref></contrib><contrib contrib-type="author"><name><surname>Zhang</surname><given-names>J.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>2</sup></xref><xref ref-type="aff" rid="AFF1"><sup>3</sup></xref></contrib><contrib contrib-type="author"><name><surname>Mazumder</surname><given-names>R.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>3</sup></xref></contrib><contrib contrib-type="author"><name><surname>Wu</surname><given-names>C.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>3</sup></xref></contrib><contrib contrib-type="author"><name><surname>Sobral</surname><given-names>B.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref><xref ref-type="corresp" rid="COR1">*</xref></contrib></contrib-group><aff id="AFF1"><sup>1</sup>Virginia Bioinformatics Institute at Virginia Polytechnic Institute and State University, Washington Street (0477), Blacksburg, VA 24061,<sup>2</sup>Social & Scientific Systems, Inc., 8757 Georgia Avenue, 12th Floor Silver Spring, MD 20910 and<sup>3</sup>Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, 3300 Whitehaven Street NW, Suite 1200, Washington, DC 20007, USA</aff><author-notes><corresp id="COR1">*To whom correspondence should be addressed.<phone>+1 540 231 2100</phone><fax>+1 540 231 2606</fax><email>sobral@vbi.vt.edu</email></corresp></author-notes><pub-date pub-type="ppub"><month>1</month><year>2008</year></pub-date><pub-date pub-type="epub"><day>4</day><month>11</month><year>2007</year></pub-date><pub-date pub-type="pmc-release"><day>4</day><month>11</month><year>2007</year></pub-date><pmc-comment> PMC Release delay is 0 months and 0 days and was based on the
<volume>36</volume><issue>Database issue</issue><issue-title>Database issue</issue-title><fpage>D884</fpage><lpage>D891</lpage><history><date date-type="received"><day>15</day><month>8</month><year>2007</year></date><date date-type="rev-recd"><day>4</day><month>10</month><year>2007</year></date><date date-type="accepted"><day>5</day><month>10</month><year>2007</year></date></history><permissions><copyright-statement>© 2007 The Author(s)</copyright-statement><copyright-year>2007</copyright-year><license license-type="creative-commons" xlink:href="http://creativecommons.org/licenses/by-nc/2.0/uk/"><license-p><pmc-comment>CREATIVE COMMONS</pmc-comment>This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by-nc/2.0/uk/">http://creativecommons.org/licenses/by-nc/2.0/uk/</ext-link>) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.</license-p></license></permissions><abstract><p>The NIAID-funded Biodefense Proteomics Resource Center (RC) provides storage, dissemination, visualization and analysis capabilities for the experimental data deposited by seven Proteomics Research Centers (PRCs). The data and its publication is to support researchers working to discover candidates for the next generation of vaccines, therapeutics and diagnostics against NIAID's Category A, B and C priority pathogens. The data includes transcriptional profiles, protein profiles, protein structural data and host–pathogen protein interactions, in the context of the pathogen life cycle <italic>in vivo</italic> and <italic>in vitro</italic>. The database has stored and supported host or pathogen data derived from <italic>Bacillus, Brucella, Cryptosporidium</italic>, <italic>Salmonella</italic>, SARS, <italic>Toxoplasma, Vibrio</italic> and <italic>Yersinia</italic>, human tissue libraries, and mouse macrophages. These publicly available data cover diverse data types such as mass spectrometry, yeast two-hybrid (Y2H), gene expression profiles, X-ray and NMR determined protein structures and protein expression clones. The growing database covers over 23 000 unique genes/proteins from different experiments and organisms. All of the genes/proteins are annotated and integrated across experiments using UniProt Knowledgebase (UniProtKB) accession numbers. The web-interface for the database enables searching, querying and downloading at the level of experiment, group and individual gene(s)/protein(s) via UniProtKB accession numbers or protein function keywords. The system is accessible at <ext-link ext-link-type="uri" xlink:href="http://www.proteomicsresource.org/">http://www.proteomicsresource.org/</ext-link>.</p></abstract></article-meta></front></pmc><affiliations><list><country><li>États-Unis</li></country><region><li>District de Columbia</li><li>Maryland</li><li>Virginie</li></region></list><tree><country name="États-Unis"><region name="Virginie"><name sortKey="Zhang, C" sort="Zhang, C" uniqKey="Zhang C" first="C." last="Zhang">C. Zhang</name></region><name sortKey="Cammer, S" sort="Cammer, S" uniqKey="Cammer S" first="S." last="Cammer">S. Cammer</name><name sortKey="Chen, Y" sort="Chen, Y" uniqKey="Chen Y" first="Y." last="Chen">Y. Chen</name><name sortKey="Chen, Y" sort="Chen, Y" uniqKey="Chen Y" first="Y." last="Chen">Y. Chen</name><name sortKey="Crasta, O" sort="Crasta, O" uniqKey="Crasta O" first="O." last="Crasta">O. Crasta</name><name sortKey="Huang, H" sort="Huang, H" uniqKey="Huang H" first="H." last="Huang">H. Huang</name><name sortKey="Jha, R" sort="Jha, R" uniqKey="Jha R" first="R." last="Jha">R. Jha</name><name sortKey="Kenyon, R" sort="Kenyon, R" uniqKey="Kenyon R" first="R." last="Kenyon">R. Kenyon</name><name sortKey="Liu, D" sort="Liu, D" uniqKey="Liu D" first="D." last="Liu">D. Liu</name><name sortKey="Mazumder, R" sort="Mazumder, R" uniqKey="Mazumder R" first="R." last="Mazumder">R. Mazumder</name><name sortKey="Mcgarvey, P" sort="Mcgarvey, P" uniqKey="Mcgarvey P" first="P." last="Mcgarvey">P. Mcgarvey</name><name sortKey="Moore, M" sort="Moore, M" uniqKey="Moore M" first="M." last="Moore">M. Moore</name><name sortKey="Sobral, B" sort="Sobral, B" uniqKey="Sobral B" first="B." last="Sobral">B. Sobral</name><name sortKey="Sullivan, D" sort="Sullivan, D" uniqKey="Sullivan D" first="D." last="Sullivan">D. Sullivan</name><name sortKey="Sun, W" sort="Sun, W" uniqKey="Sun W" first="W." last="Sun">W. Sun</name><name sortKey="Will, R" sort="Will, R" uniqKey="Will R" first="R." last="Will">R. Will</name><name sortKey="Wu, C" sort="Wu, C" uniqKey="Wu C" first="C." last="Wu">C. Wu</name><name sortKey="Xue, T" sort="Xue, T" uniqKey="Xue T" first="T." last="Xue">T. Xue</name><name sortKey="Yu, Q" sort="Yu, Q" uniqKey="Yu Q" first="Q." last="Yu">Q. Yu</name><name sortKey="Zhang, J" sort="Zhang, J" uniqKey="Zhang J" first="J." last="Zhang">J. Zhang</name><name sortKey="Zhang, J" sort="Zhang, J" uniqKey="Zhang J" first="J." last="Zhang">J. Zhang</name><name sortKey="Zhang, Y" sort="Zhang, Y" uniqKey="Zhang Y" first="Y." last="Zhang">Y. Zhang</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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