Legume information system (LegumeInfo.org): a key component of a set of federated data resources for the legume family
Identifieur interne : 000098 ( Main/Exploration ); précédent : 000097; suivant : 000099Legume information system (LegumeInfo.org): a key component of a set of federated data resources for the legume family
Auteurs : Sudhansu Dash [États-Unis] ; Jacqueline D. Campbell [États-Unis] ; Ethalinda K. S. Cannon [États-Unis] ; Alan M. Cleary [États-Unis] ; Wei Huang [États-Unis] ; Scott R. Kalberer [États-Unis] ; Vijay Karingula [États-Unis] ; Alex G. Rice [États-Unis] ; Jugpreet Singh [États-Unis] ; Pooja E. Umale [États-Unis] ; Nathan T. Weeks [États-Unis] ; Andrew P. Wilkey [États-Unis] ; Andrew D. Farmer [États-Unis] ; Steven B. Cannon [États-Unis]Source :
- Nucleic Acids Research [ 0305-1048 ] ; 2015.
Abstract
Legume Information System (LIS), at
Url:
DOI: 10.1093/nar/gkv1159
PubMed: 26546515
PubMed Central: 4702835
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Legume information system (<ext-link ext-link-type="uri" xlink:href="http://LegumeInfo.org">LegumeInfo.org</ext-link>): a key component of a set of federated data resources for the legume family</title><author><name sortKey="Dash, Sudhansu" sort="Dash, Sudhansu" uniqKey="Dash S" first="Sudhansu" last="Dash">Sudhansu Dash</name><affiliation wicri:level="2"><nlm:aff id="AFF1">National Center for Genome Resources, Santa Fe, NM 87505, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Genome Resources, Santa Fe, NM 87505</wicri:regionArea><placeName><region type="state">Nouveau-Mexique</region></placeName></affiliation></author><author><name sortKey="Campbell, Jacqueline D" sort="Campbell, Jacqueline D" uniqKey="Campbell J" first="Jacqueline D." last="Campbell">Jacqueline D. Campbell</name><affiliation wicri:level="4"><nlm:aff id="AFF2">Dept. of Agronomy, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Agronomy, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author><author><name sortKey="Cannon, Ethalinda K S" sort="Cannon, Ethalinda K S" uniqKey="Cannon E" first="Ethalinda K. S." last="Cannon">Ethalinda K. S. Cannon</name><affiliation wicri:level="4"><nlm:aff id="AFF3">Dept. of Computer Science, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Computer Science, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author><author><name sortKey="Cleary, Alan M" sort="Cleary, Alan M" uniqKey="Cleary A" first="Alan M." last="Cleary">Alan M. Cleary</name><affiliation wicri:level="2"><nlm:aff id="AFF1">National Center for Genome Resources, Santa Fe, NM 87505, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Genome Resources, Santa Fe, NM 87505</wicri:regionArea><placeName><region type="state">Nouveau-Mexique</region></placeName></affiliation><affiliation wicri:level="2"><nlm:aff id="AFF4">Dept. of Computer Science, Montana State University, Bozeman, MT 59715, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Computer Science, Montana State University, Bozeman, MT 59715</wicri:regionArea><placeName><region type="state">Montana</region></placeName></affiliation></author><author><name sortKey="Huang, Wei" sort="Huang, Wei" uniqKey="Huang W" first="Wei" last="Huang">Wei Huang</name><affiliation wicri:level="4"><nlm:aff id="AFF2">Dept. of Agronomy, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Agronomy, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author><author><name sortKey="Kalberer, Scott R" sort="Kalberer, Scott R" uniqKey="Kalberer S" first="Scott R." last="Kalberer">Scott R. Kalberer</name><affiliation wicri:level="4"><nlm:aff id="AFF5">USDA-ARS Corn Insects and Crop Genetics Research Unit, Crop Genome Informatics Lab, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>USDA-ARS Corn Insects and Crop Genetics Research Unit, Crop Genome Informatics Lab, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author><author><name sortKey="Karingula, Vijay" sort="Karingula, Vijay" uniqKey="Karingula V" first="Vijay" last="Karingula">Vijay Karingula</name><affiliation wicri:level="4"><nlm:aff id="AFF2">Dept. of Agronomy, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Agronomy, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author><author><name sortKey="Rice, Alex G" sort="Rice, Alex G" uniqKey="Rice A" first="Alex G." last="Rice">Alex G. 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Umale</name><affiliation wicri:level="2"><nlm:aff id="AFF1">National Center for Genome Resources, Santa Fe, NM 87505, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Genome Resources, Santa Fe, NM 87505</wicri:regionArea><placeName><region type="state">Nouveau-Mexique</region></placeName></affiliation></author><author><name sortKey="Weeks, Nathan T" sort="Weeks, Nathan T" uniqKey="Weeks N" first="Nathan T." last="Weeks">Nathan T. 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Wilkey</name><affiliation wicri:level="4"><nlm:aff id="AFF2">Dept. of Agronomy, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Agronomy, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author><author><name sortKey="Farmer, Andrew D" sort="Farmer, Andrew D" uniqKey="Farmer A" first="Andrew D." last="Farmer">Andrew D. Farmer</name><affiliation wicri:level="2"><nlm:aff id="AFF1">National Center for Genome Resources, Santa Fe, NM 87505, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Genome Resources, Santa Fe, NM 87505</wicri:regionArea><placeName><region type="state">Nouveau-Mexique</region></placeName></affiliation></author><author><name sortKey="Cannon, Steven B" sort="Cannon, Steven B" uniqKey="Cannon S" first="Steven B." last="Cannon">Steven B. Cannon</name><affiliation wicri:level="4"><nlm:aff id="AFF2">Dept. of Agronomy, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Agronomy, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation><affiliation wicri:level="4"><nlm:aff id="AFF5">USDA-ARS Corn Insects and Crop Genetics Research Unit, Crop Genome Informatics Lab, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>USDA-ARS Corn Insects and Crop Genetics Research Unit, Crop Genome Informatics Lab, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">26546515</idno><idno type="pmc">4702835</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4702835</idno><idno type="RBID">PMC:4702835</idno><idno type="doi">10.1093/nar/gkv1159</idno><date when="2015">2015</date><idno type="wicri:Area/Pmc/Corpus">000064</idno><idno type="wicri:Area/Pmc/Curation">000064</idno><idno type="wicri:Area/Pmc/Checkpoint">000090</idno><idno type="wicri:Area/Ncbi/Merge">000685</idno><idno type="wicri:Area/Ncbi/Curation">000685</idno><idno type="wicri:Area/Ncbi/Checkpoint">000685</idno><idno type="wicri:doubleKey">0305-1048:2015:Dash S:legume:information:system</idno><idno type="wicri:Area/Main/Merge">000098</idno><idno type="wicri:Area/Main/Curation">000098</idno><idno type="wicri:Area/Main/Exploration">000098</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Legume information system (<ext-link ext-link-type="uri" xlink:href="http://LegumeInfo.org">LegumeInfo.org</ext-link>): a key component of a set of federated data resources for the legume family</title><author><name sortKey="Dash, Sudhansu" sort="Dash, Sudhansu" uniqKey="Dash S" first="Sudhansu" last="Dash">Sudhansu Dash</name><affiliation wicri:level="2"><nlm:aff id="AFF1">National Center for Genome Resources, Santa Fe, NM 87505, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Genome Resources, Santa Fe, NM 87505</wicri:regionArea><placeName><region type="state">Nouveau-Mexique</region></placeName></affiliation></author><author><name sortKey="Campbell, Jacqueline D" sort="Campbell, Jacqueline D" uniqKey="Campbell J" first="Jacqueline D." last="Campbell">Jacqueline D. Campbell</name><affiliation wicri:level="4"><nlm:aff id="AFF2">Dept. of Agronomy, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Agronomy, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author><author><name sortKey="Cannon, Ethalinda K S" sort="Cannon, Ethalinda K S" uniqKey="Cannon E" first="Ethalinda K. S." last="Cannon">Ethalinda K. S. Cannon</name><affiliation wicri:level="4"><nlm:aff id="AFF3">Dept. of Computer Science, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Computer Science, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author><author><name sortKey="Cleary, Alan M" sort="Cleary, Alan M" uniqKey="Cleary A" first="Alan M." last="Cleary">Alan M. Cleary</name><affiliation wicri:level="2"><nlm:aff id="AFF1">National Center for Genome Resources, Santa Fe, NM 87505, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Genome Resources, Santa Fe, NM 87505</wicri:regionArea><placeName><region type="state">Nouveau-Mexique</region></placeName></affiliation><affiliation wicri:level="2"><nlm:aff id="AFF4">Dept. of Computer Science, Montana State University, Bozeman, MT 59715, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Computer Science, Montana State University, Bozeman, MT 59715</wicri:regionArea><placeName><region type="state">Montana</region></placeName></affiliation></author><author><name sortKey="Huang, Wei" sort="Huang, Wei" uniqKey="Huang W" first="Wei" last="Huang">Wei Huang</name><affiliation wicri:level="4"><nlm:aff id="AFF2">Dept. of Agronomy, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Agronomy, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author><author><name sortKey="Kalberer, Scott R" sort="Kalberer, Scott R" uniqKey="Kalberer S" first="Scott R." last="Kalberer">Scott R. Kalberer</name><affiliation wicri:level="4"><nlm:aff id="AFF5">USDA-ARS Corn Insects and Crop Genetics Research Unit, Crop Genome Informatics Lab, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>USDA-ARS Corn Insects and Crop Genetics Research Unit, Crop Genome Informatics Lab, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author><author><name sortKey="Karingula, Vijay" sort="Karingula, Vijay" uniqKey="Karingula V" first="Vijay" last="Karingula">Vijay Karingula</name><affiliation wicri:level="4"><nlm:aff id="AFF2">Dept. of Agronomy, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Agronomy, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author><author><name sortKey="Rice, Alex G" sort="Rice, Alex G" uniqKey="Rice A" first="Alex G." last="Rice">Alex G. Rice</name><affiliation wicri:level="2"><nlm:aff id="AFF1">National Center for Genome Resources, Santa Fe, NM 87505, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Genome Resources, Santa Fe, NM 87505</wicri:regionArea><placeName><region type="state">Nouveau-Mexique</region></placeName></affiliation></author><author><name sortKey="Singh, Jugpreet" sort="Singh, Jugpreet" uniqKey="Singh J" first="Jugpreet" last="Singh">Jugpreet Singh</name><affiliation wicri:level="2"><nlm:aff id="AFF6">ORISE Fellow, USDA-Agricultural Research Service, Corn Insects and Crop Genetics Research Unit, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>ORISE Fellow, USDA-Agricultural Research Service, Corn Insects and Crop Genetics Research Unit, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region></placeName></affiliation></author><author><name sortKey="Umale, Pooja E" sort="Umale, Pooja E" uniqKey="Umale P" first="Pooja E." last="Umale">Pooja E. Umale</name><affiliation wicri:level="2"><nlm:aff id="AFF1">National Center for Genome Resources, Santa Fe, NM 87505, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Genome Resources, Santa Fe, NM 87505</wicri:regionArea><placeName><region type="state">Nouveau-Mexique</region></placeName></affiliation></author><author><name sortKey="Weeks, Nathan T" sort="Weeks, Nathan T" uniqKey="Weeks N" first="Nathan T." last="Weeks">Nathan T. Weeks</name><affiliation wicri:level="4"><nlm:aff id="AFF5">USDA-ARS Corn Insects and Crop Genetics Research Unit, Crop Genome Informatics Lab, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>USDA-ARS Corn Insects and Crop Genetics Research Unit, Crop Genome Informatics Lab, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author><author><name sortKey="Wilkey, Andrew P" sort="Wilkey, Andrew P" uniqKey="Wilkey A" first="Andrew P." last="Wilkey">Andrew P. Wilkey</name><affiliation wicri:level="4"><nlm:aff id="AFF2">Dept. of Agronomy, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Agronomy, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation></author><author><name sortKey="Farmer, Andrew D" sort="Farmer, Andrew D" uniqKey="Farmer A" first="Andrew D." last="Farmer">Andrew D. Farmer</name><affiliation wicri:level="2"><nlm:aff id="AFF1">National Center for Genome Resources, Santa Fe, NM 87505, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Genome Resources, Santa Fe, NM 87505</wicri:regionArea><placeName><region type="state">Nouveau-Mexique</region></placeName></affiliation></author><author><name sortKey="Cannon, Steven B" sort="Cannon, Steven B" uniqKey="Cannon S" first="Steven B." last="Cannon">Steven B. Cannon</name><affiliation wicri:level="4"><nlm:aff id="AFF2">Dept. of Agronomy, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Dept. of Agronomy, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></affiliation><affiliation wicri:level="4"><nlm:aff id="AFF5">USDA-ARS Corn Insects and Crop Genetics Research Unit, Crop Genome Informatics Lab, Iowa State University, Ames, IA 50011, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>USDA-ARS Corn Insects and Crop Genetics Research Unit, Crop Genome Informatics Lab, Iowa State University, Ames, IA 50011</wicri:regionArea><placeName><region type="state">Iowa</region><settlement type="city">Ames (Iowa)</settlement></placeName><orgName type="university">Université d'État de l'Iowa</orgName></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="2015">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Legume Information System (LIS), at <ext-link ext-link-type="uri" xlink:href="http://legumeinfo.org">http://legumeinfo.org</ext-link>, is a genomic data portal (GDP) for the legume family. LIS provides access to genetic and genomic information for major crop and model legumes. With more than two-dozen domesticated legume species, there are numerous specialists working on particular species, and also numerous GDPs for these species. LIS has been redesigned in the last three years both to better integrate data sets across the crop and model legumes, and to better accommodate specialized GDPs that serve particular legume species. To integrate data sets, LIS provides genome and map viewers, holds synteny mappings among all sequenced legume species and provides a set of gene families to allow traversal among orthologous and paralogous sequences across the legumes. To better accommodate other specialized GDPs, LIS uses open-source GMOD components where possible, and advocates use of common data templates, formats, schemas and interfaces so that data collected by one legume research community are accessible across all legume GDPs, through similar interfaces and using common APIs. This federated model for the legumes is managed as part of the ‘Legume Federation’ project (accessible via <ext-link ext-link-type="uri" xlink:href="http://legumefederation.org">http://legumefederation.org</ext-link>), which can be thought of as an umbrella project encompassing LIS and other legume GDPs.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Graham, P H" uniqKey="Graham P">P.H. Graham</name></author><author><name sortKey="Vance, C P" uniqKey="Vance C">C.P. Vance</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="O Rourke, J A" uniqKey="O Rourke J">J.A. 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Cannon</name><name sortKey="Cannon, Steven B" sort="Cannon, Steven B" uniqKey="Cannon S" first="Steven B." last="Cannon">Steven B. Cannon</name><name sortKey="Cleary, Alan M" sort="Cleary, Alan M" uniqKey="Cleary A" first="Alan M." last="Cleary">Alan M. Cleary</name><name sortKey="Cleary, Alan M" sort="Cleary, Alan M" uniqKey="Cleary A" first="Alan M." last="Cleary">Alan M. Cleary</name><name sortKey="Farmer, Andrew D" sort="Farmer, Andrew D" uniqKey="Farmer A" first="Andrew D." last="Farmer">Andrew D. Farmer</name><name sortKey="Huang, Wei" sort="Huang, Wei" uniqKey="Huang W" first="Wei" last="Huang">Wei Huang</name><name sortKey="Kalberer, Scott R" sort="Kalberer, Scott R" uniqKey="Kalberer S" first="Scott R." last="Kalberer">Scott R. Kalberer</name><name sortKey="Karingula, Vijay" sort="Karingula, Vijay" uniqKey="Karingula V" first="Vijay" last="Karingula">Vijay Karingula</name><name sortKey="Rice, Alex G" sort="Rice, Alex G" uniqKey="Rice A" first="Alex G." last="Rice">Alex G. Rice</name><name sortKey="Singh, Jugpreet" sort="Singh, Jugpreet" uniqKey="Singh J" first="Jugpreet" last="Singh">Jugpreet Singh</name><name sortKey="Umale, Pooja E" sort="Umale, Pooja E" uniqKey="Umale P" first="Pooja E." last="Umale">Pooja E. Umale</name><name sortKey="Weeks, Nathan T" sort="Weeks, Nathan T" uniqKey="Weeks N" first="Nathan T." last="Weeks">Nathan T. Weeks</name><name sortKey="Wilkey, Andrew P" sort="Wilkey, Andrew P" uniqKey="Wilkey A" first="Andrew P." last="Wilkey">Andrew P. Wilkey</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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