PATRIC: the Comprehensive Bacterial Bioinformatics Resource with a Focus on Human Pathogenic Species ▿‡#
Identifieur interne : 000672 ( Main/Exploration ); précédent : 000671; suivant : 000673PATRIC: the Comprehensive Bacterial Bioinformatics Resource with a Focus on Human Pathogenic Species ▿‡#
Auteurs : Joseph J. Gillespie [États-Unis] ; Alice R. Wattam [États-Unis] ; Stephen A. Cammer [États-Unis] ; Joseph L. Gabbard [États-Unis] ; Maulik P. Shukla [États-Unis] ; Oral Dalay [États-Unis] ; Timothy Driscoll [États-Unis] ; Deborah Hix [États-Unis] ; Shrinivasrao P. Mane [États-Unis] ; Chunhong Mao [États-Unis] ; Eric K. Nordberg [États-Unis] ; Mark Scott [États-Unis] ; Julie R. Schulman [États-Unis] ; Eric E. Snyder [États-Unis] ; Daniel E. Sullivan [États-Unis] ; Chunxia Wang [États-Unis] ; Andrew Warren [États-Unis] ; Kelly P. Williams [États-Unis] ; Tian Xue [États-Unis] ; Hyun Seung Yoo [États-Unis] ; Chengdong Zhang [États-Unis] ; Yan Zhang [États-Unis] ; Rebecca Will [États-Unis] ; Ronald W. Kenyon [États-Unis] ; Bruno W. Sobral [États-Unis]Source :
- Infection and Immunity [ 0019-9567 ] ; 2011.
Abstract
Funded by the National Institute of Allergy and Infectious Diseases, the
Url:
DOI: 10.1128/IAI.00207-11
PubMed: 21896772
PubMed Central: 3257917
Affiliations:
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<author><name sortKey="Wattam, Alice R" sort="Wattam, Alice R" uniqKey="Wattam A" first="Alice R." last="Wattam">Alice R. Wattam</name>
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<author><name sortKey="Hix, Deborah" sort="Hix, Deborah" uniqKey="Hix D" first="Deborah" last="Hix">Deborah Hix</name>
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<author><name sortKey="Mane, Shrinivasrao P" sort="Mane, Shrinivasrao P" uniqKey="Mane S" first="Shrinivasrao P." last="Mane">Shrinivasrao P. Mane</name>
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<author><name sortKey="Mao, Chunhong" sort="Mao, Chunhong" uniqKey="Mao C" first="Chunhong" last="Mao">Chunhong Mao</name>
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<author><name sortKey="Nordberg, Eric K" sort="Nordberg, Eric K" uniqKey="Nordberg E" first="Eric K." last="Nordberg">Eric K. Nordberg</name>
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<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Schulman, Julie R" sort="Schulman, Julie R" uniqKey="Schulman J" first="Julie R." last="Schulman">Julie R. Schulman</name>
<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Snyder, Eric E" sort="Snyder, Eric E" uniqKey="Snyder E" first="Eric E." last="Snyder">Eric E. Snyder</name>
<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
<affiliation wicri:level="2"><nlm:aff id="aff3">HHS/NIH/NCI SRA International, Inc., Rockville, Maryland 20852-4902</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Maryland</region>
</placeName>
<wicri:cityArea>HHS/NIH/NCI SRA International, Inc., Rockville</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Sullivan, Daniel E" sort="Sullivan, Daniel E" uniqKey="Sullivan D" first="Daniel E." last="Sullivan">Daniel E. Sullivan</name>
<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Wang, Chunxia" sort="Wang, Chunxia" uniqKey="Wang C" first="Chunxia" last="Wang">Chunxia Wang</name>
<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
<affiliation wicri:level="2"><nlm:aff id="aff4">Novozymes Biologicals, Inc., Salem, Virginia 24153</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Novozymes Biologicals, Inc., Salem</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Warren, Andrew" sort="Warren, Andrew" uniqKey="Warren A" first="Andrew" last="Warren">Andrew Warren</name>
<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Williams, Kelly P" sort="Williams, Kelly P" uniqKey="Williams K" first="Kelly P." last="Williams">Kelly P. Williams</name>
<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
<affiliation wicri:level="2"><nlm:aff id="aff5">Sandia National Laboratories, MS 9291, Livermore, California 94551-0969</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Californie</region>
</placeName>
<wicri:cityArea>Sandia National Laboratories, MS 9291, Livermore</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Xue, Tian" sort="Xue, Tian" uniqKey="Xue T" first="Tian" last="Xue">Tian Xue</name>
<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Seung Yoo, Hyun" sort="Seung Yoo, Hyun" uniqKey="Seung Yoo H" first="Hyun" last="Seung Yoo">Hyun Seung Yoo</name>
<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Zhang, Chengdong" sort="Zhang, Chengdong" uniqKey="Zhang C" first="Chengdong" last="Zhang">Chengdong Zhang</name>
<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Zhang, Yan" sort="Zhang, Yan" uniqKey="Zhang Y" first="Yan" last="Zhang">Yan Zhang</name>
<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Will, Rebecca" sort="Will, Rebecca" uniqKey="Will R" first="Rebecca" last="Will">Rebecca Will</name>
<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Kenyon, Ronald W" sort="Kenyon, Ronald W" uniqKey="Kenyon R" first="Ronald W." last="Kenyon">Ronald W. Kenyon</name>
<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Sobral, Bruno W" sort="Sobral, Bruno W" uniqKey="Sobral B" first="Bruno W." last="Sobral">Bruno W. Sobral</name>
<affiliation wicri:level="2"><nlm:aff id="aff1">Virginia Bioinformatics Institute at Virginia Tech, Blacksburg, Virginia 24061</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Virginie</region>
</placeName>
<wicri:cityArea>Virginia Bioinformatics Institute at Virginia Tech, Blacksburg</wicri:cityArea>
</affiliation>
</author>
</analytic>
<series><title level="j">Infection and Immunity</title>
<idno type="ISSN">0019-9567</idno>
<idno type="eISSN">1098-5522</idno>
<imprint><date when="2011">2011</date>
</imprint>
</series>
</biblStruct>
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<front><div type="abstract" xml:lang="en"><p>Funded by the National Institute of Allergy and Infectious Diseases, the <underline>Pat</underline>
hosystems <underline>R</underline>
esource <underline>I</underline>
ntegration <underline>C</underline>
enter (PATRIC) is a genomics-centric relational database and bioinformatics resource designed to assist scientists in infectious-disease research. Specifically, PATRIC provides scientists with (i) a comprehensive bacterial genomics database, (ii) a plethora of associated data relevant to genomic analysis, and (iii) an extensive suite of computational tools and platforms for bioinformatics analysis. While the primary aim of PATRIC is to advance the knowledge underlying the biology of human pathogens, all publicly available genome-scale data for bacteria are compiled and continually updated, thereby enabling comparative analyses to reveal the basis for differences between infectious free-living and commensal species. Herein we summarize the major features available at PATRIC, dividing the resources into two major categories: (i) organisms, genomes, and comparative genomics and (ii) recurrent integration of community-derived associated data. Additionally, we present two experimental designs typical of bacterial genomics research and report on the execution of both projects using only PATRIC data and tools. These applications encompass a broad range of the data and analysis tools available, illustrating practical uses of PATRIC for the biologist. Finally, a summary of PATRIC's outreach activities, collaborative endeavors, and future research directions is provided.</p>
</div>
</front>
</TEI>
<affiliations><list><country><li>États-Unis</li>
</country>
<region><li>Californie</li>
<li>Maryland</li>
<li>Virginie</li>
</region>
</list>
<tree><country name="États-Unis"><region name="Virginie"><name sortKey="Gillespie, Joseph J" sort="Gillespie, Joseph J" uniqKey="Gillespie J" first="Joseph J." last="Gillespie">Joseph J. Gillespie</name>
</region>
<name sortKey="Cammer, Stephen A" sort="Cammer, Stephen A" uniqKey="Cammer S" first="Stephen A." last="Cammer">Stephen A. Cammer</name>
<name sortKey="Dalay, Oral" sort="Dalay, Oral" uniqKey="Dalay O" first="Oral" last="Dalay">Oral Dalay</name>
<name sortKey="Driscoll, Timothy" sort="Driscoll, Timothy" uniqKey="Driscoll T" first="Timothy" last="Driscoll">Timothy Driscoll</name>
<name sortKey="Gabbard, Joseph L" sort="Gabbard, Joseph L" uniqKey="Gabbard J" first="Joseph L." last="Gabbard">Joseph L. Gabbard</name>
<name sortKey="Gillespie, Joseph J" sort="Gillespie, Joseph J" uniqKey="Gillespie J" first="Joseph J." last="Gillespie">Joseph J. Gillespie</name>
<name sortKey="Hix, Deborah" sort="Hix, Deborah" uniqKey="Hix D" first="Deborah" last="Hix">Deborah Hix</name>
<name sortKey="Kenyon, Ronald W" sort="Kenyon, Ronald W" uniqKey="Kenyon R" first="Ronald W." last="Kenyon">Ronald W. Kenyon</name>
<name sortKey="Mane, Shrinivasrao P" sort="Mane, Shrinivasrao P" uniqKey="Mane S" first="Shrinivasrao P." last="Mane">Shrinivasrao P. Mane</name>
<name sortKey="Mao, Chunhong" sort="Mao, Chunhong" uniqKey="Mao C" first="Chunhong" last="Mao">Chunhong Mao</name>
<name sortKey="Nordberg, Eric K" sort="Nordberg, Eric K" uniqKey="Nordberg E" first="Eric K." last="Nordberg">Eric K. Nordberg</name>
<name sortKey="Schulman, Julie R" sort="Schulman, Julie R" uniqKey="Schulman J" first="Julie R." last="Schulman">Julie R. Schulman</name>
<name sortKey="Scott, Mark" sort="Scott, Mark" uniqKey="Scott M" first="Mark" last="Scott">Mark Scott</name>
<name sortKey="Seung Yoo, Hyun" sort="Seung Yoo, Hyun" uniqKey="Seung Yoo H" first="Hyun" last="Seung Yoo">Hyun Seung Yoo</name>
<name sortKey="Shukla, Maulik P" sort="Shukla, Maulik P" uniqKey="Shukla M" first="Maulik P." last="Shukla">Maulik P. Shukla</name>
<name sortKey="Snyder, Eric E" sort="Snyder, Eric E" uniqKey="Snyder E" first="Eric E." last="Snyder">Eric E. Snyder</name>
<name sortKey="Snyder, Eric E" sort="Snyder, Eric E" uniqKey="Snyder E" first="Eric E." last="Snyder">Eric E. Snyder</name>
<name sortKey="Sobral, Bruno W" sort="Sobral, Bruno W" uniqKey="Sobral B" first="Bruno W." last="Sobral">Bruno W. Sobral</name>
<name sortKey="Sullivan, Daniel E" sort="Sullivan, Daniel E" uniqKey="Sullivan D" first="Daniel E." last="Sullivan">Daniel E. Sullivan</name>
<name sortKey="Wang, Chunxia" sort="Wang, Chunxia" uniqKey="Wang C" first="Chunxia" last="Wang">Chunxia Wang</name>
<name sortKey="Wang, Chunxia" sort="Wang, Chunxia" uniqKey="Wang C" first="Chunxia" last="Wang">Chunxia Wang</name>
<name sortKey="Warren, Andrew" sort="Warren, Andrew" uniqKey="Warren A" first="Andrew" last="Warren">Andrew Warren</name>
<name sortKey="Wattam, Alice R" sort="Wattam, Alice R" uniqKey="Wattam A" first="Alice R." last="Wattam">Alice R. Wattam</name>
<name sortKey="Will, Rebecca" sort="Will, Rebecca" uniqKey="Will R" first="Rebecca" last="Will">Rebecca Will</name>
<name sortKey="Williams, Kelly P" sort="Williams, Kelly P" uniqKey="Williams K" first="Kelly P." last="Williams">Kelly P. Williams</name>
<name sortKey="Williams, Kelly P" sort="Williams, Kelly P" uniqKey="Williams K" first="Kelly P." last="Williams">Kelly P. Williams</name>
<name sortKey="Xue, Tian" sort="Xue, Tian" uniqKey="Xue T" first="Tian" last="Xue">Tian Xue</name>
<name sortKey="Zhang, Chengdong" sort="Zhang, Chengdong" uniqKey="Zhang C" first="Chengdong" last="Zhang">Chengdong Zhang</name>
<name sortKey="Zhang, Yan" sort="Zhang, Yan" uniqKey="Zhang Y" first="Yan" last="Zhang">Yan Zhang</name>
</country>
</tree>
</affiliations>
</record>
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