A Network Integration Approach to Predict Conserved Regulators Related to Pathogenicity of Influenza and SARS-CoV Respiratory Viruses
Identifieur interne : 000B23 ( Main/Exploration ); précédent : 000B22; suivant : 000B24A Network Integration Approach to Predict Conserved Regulators Related to Pathogenicity of Influenza and SARS-CoV Respiratory Viruses
Auteurs : Hugh D. Mitchell [États-Unis] ; Amie J. Eisfeld [États-Unis] ; Amy C. Sims [États-Unis] ; Jason E. Mcdermott [États-Unis] ; Melissa M. Matzke [États-Unis] ; Bobbi-Jo M. Webb-Robertson [États-Unis] ; Susan C. Tilton [États-Unis] ; Nicolas Tchitchek [États-Unis] ; Laurence Josset [États-Unis] ; Chengjun Li [États-Unis] ; Amy L. Ellis [États-Unis] ; Jean H. Chang [États-Unis] ; Robert A. Heegel [États-Unis] ; Maria L. Luna [États-Unis] ; Athena A. Schepmoes [États-Unis] ; Anil K. Shukla [États-Unis] ; Thomas O. Metz [États-Unis] ; Gabriele Neumann [États-Unis] ; Arndt G. Benecke [États-Unis, France] ; Richard D. Smith [États-Unis] ; Ralph S. Baric [États-Unis] ; Yoshihiro Kawaoka [États-Unis, Japon] ; Michael G. Katze [États-Unis] ; Katrina M. Waters [États-Unis]Source :
- PLoS ONE [ 1932-6203 ] ; 2013.
Descripteurs français
- KwdFr :
- Animaux, Cellules épithéliales (immunologie), Cellules épithéliales (métabolisme), Cellules épithéliales (virologie), Gènes régulateurs, Humains, Interactions hôte-pathogène (génétique), Modèles statistiques, Muqueuse respiratoire (immunologie), Muqueuse respiratoire (métabolisme), Muqueuse respiratoire (virologie), Orthomyxoviridae (pathogénicité), Orthomyxoviridae (physiologie), Poumon (immunologie), Poumon (métabolisme), Poumon (virologie), Régulation de l'expression des gènes, Réplication virale, Transcriptome, Virulence, Virus du SRAS (pathogénicité), Virus du SRAS (physiologie).
- MESH :
- génétique : Interactions hôte-pathogène.
- immunologie : Cellules épithéliales, Muqueuse respiratoire, Poumon.
- métabolisme : Cellules épithéliales, Muqueuse respiratoire, Poumon.
- pathogénicité : Orthomyxoviridae, Virus du SRAS.
- physiologie : Orthomyxoviridae, Virus du SRAS.
- virologie : Cellules épithéliales, Muqueuse respiratoire, Poumon.
- Animaux, Gènes régulateurs, Humains, Modèles statistiques, Régulation de l'expression des gènes, Réplication virale, Transcriptome, Virulence.
English descriptors
- KwdEn :
- Animals, Epithelial Cells (immunology), Epithelial Cells (metabolism), Epithelial Cells (virology), Gene Expression Regulation, Genes, Regulator, Host-Pathogen Interactions (genetics), Humans, Lung (immunology), Lung (metabolism), Lung (virology), Models, Statistical, Orthomyxoviridae (pathogenicity), Orthomyxoviridae (physiology), Respiratory Mucosa (immunology), Respiratory Mucosa (metabolism), Respiratory Mucosa (virology), SARS Virus (pathogenicity), SARS Virus (physiology), Transcriptome, Virulence, Virus Replication.
- MESH :
- genetics : Host-Pathogen Interactions.
- immunology : Epithelial Cells, Lung, Respiratory Mucosa.
- metabolism : Epithelial Cells, Lung, Respiratory Mucosa.
- pathogenicity : Orthomyxoviridae, SARS Virus.
- physiology : Orthomyxoviridae, SARS Virus.
- virology : Epithelial Cells, Lung, Respiratory Mucosa.
- Animals, Gene Expression Regulation, Genes, Regulator, Humans, Models, Statistical, Transcriptome, Virulence, Virus Replication.
Abstract
Respiratory infections stemming from influenza viruses and the Severe Acute Respiratory Syndrome corona virus (SARS-CoV) represent a serious public health threat as emerging pandemics. Despite efforts to identify the critical interactions of these viruses with host machinery, the key regulatory events that lead to disease pathology remain poorly targeted with therapeutics. Here we implement an integrated network interrogation approach, in which proteome and transcriptome datasets from infection of both viruses in human lung epithelial cells are utilized to predict regulatory genes involved in the host response. We take advantage of a novel “crowd-based” approach to identify and combine ranking metrics that isolate genes/proteins likely related to the pathogenicity of SARS-CoV and influenza virus. Subsequently, a multivariate regression model is used to compare predicted lung epithelial regulatory influences with data derived from other respiratory virus infection models. We predicted a small set of regulatory factors with conserved behavior for consideration as important components of viral pathogenesis that might also serve as therapeutic targets for intervention. Our results demonstrate the utility of integrating diverse ‘omic datasets to predict and prioritize regulatory features conserved across multiple pathogen infection models.
Url:
DOI: 10.1371/journal.pone.0069374
PubMed: 23935999
PubMed Central: 3723910
Affiliations:
- France, Japon, États-Unis
- Caroline du Nord, Région de Kantō, Washington (État), Wisconsin, Île-de-France
- Chapel Hill (Caroline du Nord), Paris, Seattle, Tokyo
- Université Pierre-et-Marie-Curie, Université de Caroline du Nord à Chapel Hill, Université de Tokyo, Université de Washington
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Le document en format XML
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Metz</name><affiliation wicri:level="2"><nlm:aff id="aff6"><addr-line>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region></placeName></affiliation></author><author><name sortKey="Neumann, Gabriele" sort="Neumann, Gabriele" uniqKey="Neumann G" first="Gabriele" last="Neumann">Gabriele Neumann</name><affiliation wicri:level="2"><nlm:aff id="aff2"><addr-line>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin</wicri:regionArea><placeName><region type="state">Wisconsin</region></placeName></affiliation></author><author><name sortKey="Benecke, Arndt G" sort="Benecke, Arndt G" uniqKey="Benecke A" first="Arndt G." last="Benecke">Arndt G. Benecke</name><affiliation wicri:level="4"><nlm:aff id="aff4"><addr-line>Department of Microbiology, University of Washington, Seattle, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Microbiology, University of Washington, Seattle, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region><settlement type="city">Seattle</settlement></placeName><orgName type="university">Université de Washington</orgName></affiliation><affiliation wicri:level="4"><nlm:aff id="aff5"><addr-line>Université Pierre et Marie Curie, Centre National de la Recherche Scientifique UMR7224, Paris, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Université Pierre et Marie Curie, Centre National de la Recherche Scientifique UMR7224, Paris</wicri:regionArea><placeName><region type="region">Île-de-France</region><region type="old region">Île-de-France</region><settlement type="city">Paris</settlement></placeName><orgName type="university">Université Pierre-et-Marie-Curie</orgName></affiliation></author><author><name sortKey="Smith, Richard D" sort="Smith, Richard D" uniqKey="Smith R" first="Richard D." last="Smith">Richard D. 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Baric</name><affiliation wicri:level="4"><nlm:aff id="aff3"><addr-line>Department of Epidemiology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Epidemiology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina</wicri:regionArea><placeName><region type="state">Caroline du Nord</region><settlement type="city">Chapel Hill (Caroline du Nord)</settlement></placeName><orgName type="university">Université de Caroline du Nord à Chapel Hill</orgName></affiliation></author><author><name sortKey="Kawaoka, Yoshihiro" sort="Kawaoka, Yoshihiro" uniqKey="Kawaoka Y" first="Yoshihiro" last="Kawaoka">Yoshihiro Kawaoka</name><affiliation wicri:level="2"><nlm:aff id="aff2"><addr-line>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin</wicri:regionArea><placeName><region type="state">Wisconsin</region></placeName></affiliation><affiliation wicri:level="4"><nlm:aff id="aff7"><addr-line>Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, University of Tokyo, Tokyo, Japan</addr-line></nlm:aff><country xml:lang="fr">Japon</country><wicri:regionArea>Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, University of Tokyo, Tokyo</wicri:regionArea><placeName><settlement type="city">Tokyo</settlement><region type="région">Région de Kantō</region></placeName><orgName type="university">Université de Tokyo</orgName></affiliation><affiliation wicri:level="4"><nlm:aff id="aff8"><addr-line>Department of Special Pathogens, International Research Center for Infectious Diseases, Institute of Medical Science, University of Tokyo, Tokyo, Japan</addr-line></nlm:aff><country xml:lang="fr">Japon</country><wicri:regionArea>Department of Special Pathogens, International Research Center for Infectious Diseases, Institute of Medical Science, University of Tokyo, Tokyo</wicri:regionArea><placeName><settlement type="city">Tokyo</settlement><region type="région">Région de Kantō</region></placeName><orgName type="university">Université de Tokyo</orgName></affiliation><affiliation wicri:level="1"><nlm:aff id="aff9"><addr-line>ERATO Infection-Induced Host Responses Project, Saitama, Japan</addr-line></nlm:aff><country xml:lang="fr">Japon</country><wicri:regionArea>ERATO Infection-Induced Host Responses Project, Saitama</wicri:regionArea><wicri:noRegion>Saitama</wicri:noRegion></affiliation></author><author><name sortKey="Katze, Michael G" sort="Katze, Michael G" uniqKey="Katze M" first="Michael G." last="Katze">Michael G. Katze</name><affiliation wicri:level="4"><nlm:aff id="aff4"><addr-line>Department of Microbiology, University of Washington, Seattle, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Microbiology, University of Washington, Seattle, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region><settlement type="city">Seattle</settlement></placeName><orgName type="university">Université de Washington</orgName></affiliation><affiliation wicri:level="4"><nlm:aff id="aff10"><addr-line>Washington National Primate Research Center, University of Washington, Seattle, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Washington National Primate Research Center, University of Washington, Seattle, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region><settlement type="city">Seattle</settlement></placeName><orgName type="university">Université de Washington</orgName></affiliation></author><author><name sortKey="Waters, Katrina M" sort="Waters, Katrina M" uniqKey="Waters K" first="Katrina M." last="Waters">Katrina M. 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Mitchell</name><affiliation wicri:level="2"><nlm:aff id="aff1"><addr-line>Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region></placeName></affiliation></author><author><name sortKey="Eisfeld, Amie J" sort="Eisfeld, Amie J" uniqKey="Eisfeld A" first="Amie J." last="Eisfeld">Amie J. Eisfeld</name><affiliation wicri:level="2"><nlm:aff id="aff2"><addr-line>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin</wicri:regionArea><placeName><region type="state">Wisconsin</region></placeName></affiliation></author><author><name sortKey="Sims, Amy C" sort="Sims, Amy C" uniqKey="Sims A" first="Amy C." last="Sims">Amy C. Sims</name><affiliation wicri:level="4"><nlm:aff id="aff3"><addr-line>Department of Epidemiology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Epidemiology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina</wicri:regionArea><placeName><region type="state">Caroline du Nord</region><settlement type="city">Chapel Hill (Caroline du Nord)</settlement></placeName><orgName type="university">Université de Caroline du Nord à Chapel Hill</orgName></affiliation></author><author><name sortKey="Mcdermott, Jason E" sort="Mcdermott, Jason E" uniqKey="Mcdermott J" first="Jason E." last="Mcdermott">Jason E. Mcdermott</name><affiliation wicri:level="2"><nlm:aff id="aff1"><addr-line>Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region></placeName></affiliation></author><author><name sortKey="Matzke, Melissa M" sort="Matzke, Melissa M" uniqKey="Matzke M" first="Melissa M." last="Matzke">Melissa M. Matzke</name><affiliation wicri:level="2"><nlm:aff id="aff1"><addr-line>Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region></placeName></affiliation></author><author><name sortKey="Webb Robertson, Bobbi Jo M" sort="Webb Robertson, Bobbi Jo M" uniqKey="Webb Robertson B" first="Bobbi-Jo M." last="Webb-Robertson">Bobbi-Jo M. Webb-Robertson</name><affiliation wicri:level="2"><nlm:aff id="aff1"><addr-line>Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region></placeName></affiliation></author><author><name sortKey="Tilton, Susan C" sort="Tilton, Susan C" uniqKey="Tilton S" first="Susan C." last="Tilton">Susan C. Tilton</name><affiliation wicri:level="2"><nlm:aff id="aff1"><addr-line>Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region></placeName></affiliation></author><author><name sortKey="Tchitchek, Nicolas" sort="Tchitchek, Nicolas" uniqKey="Tchitchek N" first="Nicolas" last="Tchitchek">Nicolas Tchitchek</name><affiliation wicri:level="4"><nlm:aff id="aff4"><addr-line>Department of Microbiology, University of Washington, Seattle, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Microbiology, University of Washington, Seattle, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region><settlement type="city">Seattle</settlement></placeName><orgName type="university">Université de Washington</orgName></affiliation></author><author><name sortKey="Josset, Laurence" sort="Josset, Laurence" uniqKey="Josset L" first="Laurence" last="Josset">Laurence Josset</name><affiliation wicri:level="4"><nlm:aff id="aff4"><addr-line>Department of Microbiology, University of Washington, Seattle, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Microbiology, University of Washington, Seattle, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region><settlement type="city">Seattle</settlement></placeName><orgName type="university">Université de Washington</orgName></affiliation></author><author><name sortKey="Li, Chengjun" sort="Li, Chengjun" uniqKey="Li C" first="Chengjun" last="Li">Chengjun Li</name><affiliation wicri:level="2"><nlm:aff id="aff2"><addr-line>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin</wicri:regionArea><placeName><region type="state">Wisconsin</region></placeName></affiliation></author><author><name sortKey="Ellis, Amy L" sort="Ellis, Amy L" uniqKey="Ellis A" first="Amy L." last="Ellis">Amy L. Ellis</name><affiliation wicri:level="2"><nlm:aff id="aff2"><addr-line>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin</wicri:regionArea><placeName><region type="state">Wisconsin</region></placeName></affiliation></author><author><name sortKey="Chang, Jean H" sort="Chang, Jean H" uniqKey="Chang J" first="Jean H." last="Chang">Jean H. Chang</name><affiliation wicri:level="4"><nlm:aff id="aff4"><addr-line>Department of Microbiology, University of Washington, Seattle, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Microbiology, University of Washington, Seattle, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region><settlement type="city">Seattle</settlement></placeName><orgName type="university">Université de Washington</orgName></affiliation></author><author><name sortKey="Heegel, Robert A" sort="Heegel, Robert A" uniqKey="Heegel R" first="Robert A." last="Heegel">Robert A. Heegel</name><affiliation wicri:level="2"><nlm:aff id="aff6"><addr-line>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region></placeName></affiliation></author><author><name sortKey="Luna, Maria L" sort="Luna, Maria L" uniqKey="Luna M" first="Maria L." last="Luna">Maria L. Luna</name><affiliation wicri:level="2"><nlm:aff id="aff6"><addr-line>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region></placeName></affiliation></author><author><name sortKey="Schepmoes, Athena A" sort="Schepmoes, Athena A" uniqKey="Schepmoes A" first="Athena A." last="Schepmoes">Athena A. Schepmoes</name><affiliation wicri:level="2"><nlm:aff id="aff6"><addr-line>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region></placeName></affiliation></author><author><name sortKey="Shukla, Anil K" sort="Shukla, Anil K" uniqKey="Shukla A" first="Anil K." last="Shukla">Anil K. Shukla</name><affiliation wicri:level="2"><nlm:aff id="aff6"><addr-line>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region></placeName></affiliation></author><author><name sortKey="Metz, Thomas O" sort="Metz, Thomas O" uniqKey="Metz T" first="Thomas O." last="Metz">Thomas O. Metz</name><affiliation wicri:level="2"><nlm:aff id="aff6"><addr-line>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region></placeName></affiliation></author><author><name sortKey="Neumann, Gabriele" sort="Neumann, Gabriele" uniqKey="Neumann G" first="Gabriele" last="Neumann">Gabriele Neumann</name><affiliation wicri:level="2"><nlm:aff id="aff2"><addr-line>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin</wicri:regionArea><placeName><region type="state">Wisconsin</region></placeName></affiliation></author><author><name sortKey="Benecke, Arndt G" sort="Benecke, Arndt G" uniqKey="Benecke A" first="Arndt G." last="Benecke">Arndt G. Benecke</name><affiliation wicri:level="4"><nlm:aff id="aff4"><addr-line>Department of Microbiology, University of Washington, Seattle, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Microbiology, University of Washington, Seattle, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region><settlement type="city">Seattle</settlement></placeName><orgName type="university">Université de Washington</orgName></affiliation><affiliation wicri:level="4"><nlm:aff id="aff5"><addr-line>Université Pierre et Marie Curie, Centre National de la Recherche Scientifique UMR7224, Paris, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Université Pierre et Marie Curie, Centre National de la Recherche Scientifique UMR7224, Paris</wicri:regionArea><placeName><region type="region">Île-de-France</region><region type="old region">Île-de-France</region><settlement type="city">Paris</settlement></placeName><orgName type="university">Université Pierre-et-Marie-Curie</orgName></affiliation></author><author><name sortKey="Smith, Richard D" sort="Smith, Richard D" uniqKey="Smith R" first="Richard D." last="Smith">Richard D. Smith</name><affiliation wicri:level="2"><nlm:aff id="aff6"><addr-line>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region></placeName></affiliation></author><author><name sortKey="Baric, Ralph S" sort="Baric, Ralph S" uniqKey="Baric R" first="Ralph S." last="Baric">Ralph S. Baric</name><affiliation wicri:level="4"><nlm:aff id="aff3"><addr-line>Department of Epidemiology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Epidemiology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina</wicri:regionArea><placeName><region type="state">Caroline du Nord</region><settlement type="city">Chapel Hill (Caroline du Nord)</settlement></placeName><orgName type="university">Université de Caroline du Nord à Chapel Hill</orgName></affiliation></author><author><name sortKey="Kawaoka, Yoshihiro" sort="Kawaoka, Yoshihiro" uniqKey="Kawaoka Y" first="Yoshihiro" last="Kawaoka">Yoshihiro Kawaoka</name><affiliation wicri:level="2"><nlm:aff id="aff2"><addr-line>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison, Madison, Wisconsin</wicri:regionArea><placeName><region type="state">Wisconsin</region></placeName></affiliation><affiliation wicri:level="4"><nlm:aff id="aff7"><addr-line>Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, University of Tokyo, Tokyo, Japan</addr-line></nlm:aff><country xml:lang="fr">Japon</country><wicri:regionArea>Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, University of Tokyo, Tokyo</wicri:regionArea><placeName><settlement type="city">Tokyo</settlement><region type="région">Région de Kantō</region></placeName><orgName type="university">Université de Tokyo</orgName></affiliation><affiliation wicri:level="4"><nlm:aff id="aff8"><addr-line>Department of Special Pathogens, International Research Center for Infectious Diseases, Institute of Medical Science, University of Tokyo, Tokyo, Japan</addr-line></nlm:aff><country xml:lang="fr">Japon</country><wicri:regionArea>Department of Special Pathogens, International Research Center for Infectious Diseases, Institute of Medical Science, University of Tokyo, Tokyo</wicri:regionArea><placeName><settlement type="city">Tokyo</settlement><region type="région">Région de Kantō</region></placeName><orgName type="university">Université de Tokyo</orgName></affiliation><affiliation wicri:level="1"><nlm:aff id="aff9"><addr-line>ERATO Infection-Induced Host Responses Project, Saitama, Japan</addr-line></nlm:aff><country xml:lang="fr">Japon</country><wicri:regionArea>ERATO Infection-Induced Host Responses Project, Saitama</wicri:regionArea><wicri:noRegion>Saitama</wicri:noRegion></affiliation></author><author><name sortKey="Katze, Michael G" sort="Katze, Michael G" uniqKey="Katze M" first="Michael G." last="Katze">Michael G. Katze</name><affiliation wicri:level="4"><nlm:aff id="aff4"><addr-line>Department of Microbiology, University of Washington, Seattle, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Microbiology, University of Washington, Seattle, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region><settlement type="city">Seattle</settlement></placeName><orgName type="university">Université de Washington</orgName></affiliation><affiliation wicri:level="4"><nlm:aff id="aff10"><addr-line>Washington National Primate Research Center, University of Washington, Seattle, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Washington National Primate Research Center, University of Washington, Seattle, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region><settlement type="city">Seattle</settlement></placeName><orgName type="university">Université de Washington</orgName></affiliation></author><author><name sortKey="Waters, Katrina M" sort="Waters, Katrina M" uniqKey="Waters K" first="Katrina M." last="Waters">Katrina M. Waters</name><affiliation wicri:level="2"><nlm:aff id="aff1"><addr-line>Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, Washington, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Computational Sciences and Mathematics Division, Pacific Northwest National Laboratory, Richland, Washington</wicri:regionArea><placeName><region type="state">Washington (État)</region></placeName></affiliation></author></analytic><series><title level="j">PLoS ONE</title><idno type="eISSN">1932-6203</idno><imprint><date when="2013">2013</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term><term>Epithelial Cells (immunology)</term><term>Epithelial Cells (metabolism)</term><term>Epithelial Cells (virology)</term><term>Gene Expression Regulation</term><term>Genes, Regulator</term><term>Host-Pathogen Interactions (genetics)</term><term>Humans</term><term>Lung (immunology)</term><term>Lung (metabolism)</term><term>Lung (virology)</term><term>Models, Statistical</term><term>Orthomyxoviridae (pathogenicity)</term><term>Orthomyxoviridae (physiology)</term><term>Respiratory Mucosa (immunology)</term><term>Respiratory Mucosa (metabolism)</term><term>Respiratory Mucosa (virology)</term><term>SARS Virus (pathogenicity)</term><term>SARS Virus (physiology)</term><term>Transcriptome</term><term>Virulence</term><term>Virus Replication</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Animaux</term><term>Cellules épithéliales (immunologie)</term><term>Cellules épithéliales (métabolisme)</term><term>Cellules épithéliales (virologie)</term><term>Gènes régulateurs</term><term>Humains</term><term>Interactions hôte-pathogène (génétique)</term><term>Modèles statistiques</term><term>Muqueuse respiratoire (immunologie)</term><term>Muqueuse respiratoire (métabolisme)</term><term>Muqueuse respiratoire (virologie)</term><term>Orthomyxoviridae (pathogénicité)</term><term>Orthomyxoviridae (physiologie)</term><term>Poumon (immunologie)</term><term>Poumon (métabolisme)</term><term>Poumon (virologie)</term><term>Régulation de l'expression des gènes</term><term>Réplication virale</term><term>Transcriptome</term><term>Virulence</term><term>Virus du SRAS (pathogénicité)</term><term>Virus du SRAS (physiologie)</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Host-Pathogen Interactions</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Interactions hôte-pathogène</term></keywords><keywords scheme="MESH" qualifier="immunologie" xml:lang="fr"><term>Cellules épithéliales</term><term>Muqueuse respiratoire</term><term>Poumon</term></keywords><keywords scheme="MESH" qualifier="immunology" xml:lang="en"><term>Epithelial Cells</term><term>Lung</term><term>Respiratory Mucosa</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Epithelial Cells</term><term>Lung</term><term>Respiratory Mucosa</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Cellules épithéliales</term><term>Muqueuse respiratoire</term><term>Poumon</term></keywords><keywords scheme="MESH" qualifier="pathogenicity" xml:lang="en"><term>Orthomyxoviridae</term><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="pathogénicité" xml:lang="fr"><term>Orthomyxoviridae</term><term>Virus du SRAS</term></keywords><keywords scheme="MESH" qualifier="physiologie" xml:lang="fr"><term>Orthomyxoviridae</term><term>Virus du SRAS</term></keywords><keywords scheme="MESH" qualifier="physiology" xml:lang="en"><term>Orthomyxoviridae</term><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Cellules épithéliales</term><term>Muqueuse respiratoire</term><term>Poumon</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Epithelial Cells</term><term>Lung</term><term>Respiratory Mucosa</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Gene Expression Regulation</term><term>Genes, Regulator</term><term>Humans</term><term>Models, Statistical</term><term>Transcriptome</term><term>Virulence</term><term>Virus Replication</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Animaux</term><term>Gènes régulateurs</term><term>Humains</term><term>Modèles statistiques</term><term>Régulation de l'expression des gènes</term><term>Réplication virale</term><term>Transcriptome</term><term>Virulence</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Respiratory infections stemming from influenza viruses and the Severe Acute Respiratory Syndrome corona virus (SARS-CoV) represent a serious public health threat as emerging pandemics. Despite efforts to identify the critical interactions of these viruses with host machinery, the key regulatory events that lead to disease pathology remain poorly targeted with therapeutics. Here we implement an integrated network interrogation approach, in which proteome and transcriptome datasets from infection of both viruses in human lung epithelial cells are utilized to predict regulatory genes involved in the host response. We take advantage of a novel “crowd-based” approach to identify and combine ranking metrics that isolate genes/proteins likely related to the pathogenicity of SARS-CoV and influenza virus. Subsequently, a multivariate regression model is used to compare predicted lung epithelial regulatory influences with data derived from other respiratory virus infection models. We predicted a small set of regulatory factors with conserved behavior for consideration as important components of viral pathogenesis that might also serve as therapeutic targets for intervention. Our results demonstrate the utility of integrating diverse ‘omic datasets to predict and prioritize regulatory features conserved across multiple pathogen infection models.</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="Krogan, Nj" uniqKey="Krogan N">NJ Krogan</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Mcdermott, Je" uniqKey="Mcdermott J">JE McDermott</name></author><author><name sortKey="Diamond, Dl" uniqKey="Diamond D">DL Diamond</name></author><author><name sortKey="Corley, C" uniqKey="Corley C">C Corley</name></author><author><name sortKey="Rasmussen, Al" uniqKey="Rasmussen A">AL Rasmussen</name></author><author><name sortKey="Katze, Mg" uniqKey="Katze M">MG Katze</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Faith, Jj" uniqKey="Faith J">JJ Faith</name></author><author><name sortKey="Hayete, B" uniqKey="Hayete B">B Hayete</name></author><author><name sortKey="Thaden, Jt" uniqKey="Thaden J">JT Thaden</name></author><author><name sortKey="Mogno, I" uniqKey="Mogno I">I Mogno</name></author><author><name sortKey="Wierzbowski, J" uniqKey="Wierzbowski J">J Wierzbowski</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Mcdermott, Je" uniqKey="Mcdermott J">JE McDermott</name></author><author><name sortKey="Taylor, Rc" uniqKey="Taylor R">RC Taylor</name></author><author><name sortKey="Yoon, H" uniqKey="Yoon H">H Yoon</name></author><author><name sortKey="Heffron, F" uniqKey="Heffron F">F Heffron</name></author></analytic></biblStruct><biblStruct></biblStruct><biblStruct><analytic><author><name sortKey="Yu, H" uniqKey="Yu H">H Yu</name></author><author><name sortKey="Kim, Pm" uniqKey="Kim P">PM Kim</name></author><author><name sortKey="Sprecher, E" uniqKey="Sprecher E">E 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M">MJ Korth</name></author><author><name sortKey="Page, C" uniqKey="Page C">C Page</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Chitra, P" uniqKey="Chitra P">P Chitra</name></author><author><name sortKey="Bakthavatsalam, B" uniqKey="Bakthavatsalam B">B Bakthavatsalam</name></author><author><name sortKey="Palvannan, T" uniqKey="Palvannan T">T Palvannan</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hong, M" uniqKey="Hong M">M Hong</name></author><author><name sortKey="Li, W" uniqKey="Li W">W Li</name></author><author><name sortKey="Wang, L" uniqKey="Wang L">L Wang</name></author><author><name sortKey="Jiang, L" uniqKey="Jiang L">L Jiang</name></author><author><name sortKey="Liu, L" uniqKey="Liu L">L Liu</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Herrero, Lj" uniqKey="Herrero L">LJ Herrero</name></author><author><name sortKey="Nelson, M" uniqKey="Nelson M">M Nelson</name></author><author><name sortKey="Srikiatkhachorn, A" uniqKey="Srikiatkhachorn A">A Srikiatkhachorn</name></author><author><name sortKey="Gu, R" uniqKey="Gu R">R Gu</name></author><author><name sortKey="Anantapreecha, S" uniqKey="Anantapreecha S">S Anantapreecha</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Katoh, N" uniqKey="Katoh N">N Katoh</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Solis, M" uniqKey="Solis M">M Solis</name></author><author><name sortKey="Wilkinson, P" uniqKey="Wilkinson P">P Wilkinson</name></author><author><name sortKey="Romieu, R" uniqKey="Romieu R">R Romieu</name></author><author><name sortKey="Hernandez, E" uniqKey="Hernandez E">E Hernandez</name></author><author><name sortKey="Wainberg, Ma" uniqKey="Wainberg M">MA Wainberg</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>France</li><li>Japon</li><li>États-Unis</li></country><region><li>Caroline du Nord</li><li>Région de Kantō</li><li>Washington (État)</li><li>Wisconsin</li><li>Île-de-France</li></region><settlement><li>Chapel Hill (Caroline du Nord)</li><li>Paris</li><li>Seattle</li><li>Tokyo</li></settlement><orgName><li>Université Pierre-et-Marie-Curie</li><li>Université de Caroline du Nord à Chapel Hill</li><li>Université de Tokyo</li><li>Université de Washington</li></orgName></list><tree><country name="États-Unis"><region name="Washington (État)"><name sortKey="Mitchell, Hugh D" sort="Mitchell, Hugh D" uniqKey="Mitchell H" first="Hugh D." last="Mitchell">Hugh D. Mitchell</name></region><name sortKey="Baric, Ralph S" sort="Baric, Ralph S" uniqKey="Baric R" first="Ralph S." last="Baric">Ralph S. Baric</name><name sortKey="Benecke, Arndt G" sort="Benecke, Arndt G" uniqKey="Benecke A" first="Arndt G." last="Benecke">Arndt G. Benecke</name><name sortKey="Chang, Jean H" sort="Chang, Jean H" uniqKey="Chang J" first="Jean H." last="Chang">Jean H. Chang</name><name sortKey="Eisfeld, Amie J" sort="Eisfeld, Amie J" uniqKey="Eisfeld A" first="Amie J." last="Eisfeld">Amie J. Eisfeld</name><name sortKey="Ellis, Amy L" sort="Ellis, Amy L" uniqKey="Ellis A" first="Amy L." last="Ellis">Amy L. Ellis</name><name sortKey="Heegel, Robert A" sort="Heegel, Robert A" uniqKey="Heegel R" first="Robert A." last="Heegel">Robert A. Heegel</name><name sortKey="Josset, Laurence" sort="Josset, Laurence" uniqKey="Josset L" first="Laurence" last="Josset">Laurence Josset</name><name sortKey="Katze, Michael G" sort="Katze, Michael G" uniqKey="Katze M" first="Michael G." last="Katze">Michael G. Katze</name><name sortKey="Katze, Michael G" sort="Katze, Michael G" uniqKey="Katze M" first="Michael G." last="Katze">Michael G. Katze</name><name sortKey="Kawaoka, Yoshihiro" sort="Kawaoka, Yoshihiro" uniqKey="Kawaoka Y" first="Yoshihiro" last="Kawaoka">Yoshihiro Kawaoka</name><name sortKey="Li, Chengjun" sort="Li, Chengjun" uniqKey="Li C" first="Chengjun" last="Li">Chengjun Li</name><name sortKey="Luna, Maria L" sort="Luna, Maria L" uniqKey="Luna M" first="Maria L." last="Luna">Maria L. Luna</name><name sortKey="Matzke, Melissa M" sort="Matzke, Melissa M" uniqKey="Matzke M" first="Melissa M." last="Matzke">Melissa M. Matzke</name><name sortKey="Mcdermott, Jason E" sort="Mcdermott, Jason E" uniqKey="Mcdermott J" first="Jason E." last="Mcdermott">Jason E. Mcdermott</name><name sortKey="Metz, Thomas O" sort="Metz, Thomas O" uniqKey="Metz T" first="Thomas O." last="Metz">Thomas O. Metz</name><name sortKey="Neumann, Gabriele" sort="Neumann, Gabriele" uniqKey="Neumann G" first="Gabriele" last="Neumann">Gabriele Neumann</name><name sortKey="Schepmoes, Athena A" sort="Schepmoes, Athena A" uniqKey="Schepmoes A" first="Athena A." last="Schepmoes">Athena A. Schepmoes</name><name sortKey="Shukla, Anil K" sort="Shukla, Anil K" uniqKey="Shukla A" first="Anil K." last="Shukla">Anil K. Shukla</name><name sortKey="Sims, Amy C" sort="Sims, Amy C" uniqKey="Sims A" first="Amy C." last="Sims">Amy C. Sims</name><name sortKey="Smith, Richard D" sort="Smith, Richard D" uniqKey="Smith R" first="Richard D." last="Smith">Richard D. Smith</name><name sortKey="Tchitchek, Nicolas" sort="Tchitchek, Nicolas" uniqKey="Tchitchek N" first="Nicolas" last="Tchitchek">Nicolas Tchitchek</name><name sortKey="Tilton, Susan C" sort="Tilton, Susan C" uniqKey="Tilton S" first="Susan C." last="Tilton">Susan C. Tilton</name><name sortKey="Waters, Katrina M" sort="Waters, Katrina M" uniqKey="Waters K" first="Katrina M." last="Waters">Katrina M. Waters</name><name sortKey="Webb Robertson, Bobbi Jo M" sort="Webb Robertson, Bobbi Jo M" uniqKey="Webb Robertson B" first="Bobbi-Jo M." last="Webb-Robertson">Bobbi-Jo M. Webb-Robertson</name></country><country name="France"><region name="Île-de-France"><name sortKey="Benecke, Arndt G" sort="Benecke, Arndt G" uniqKey="Benecke A" first="Arndt G." last="Benecke">Arndt G. Benecke</name></region></country><country name="Japon"><region name="Région de Kantō"><name sortKey="Kawaoka, Yoshihiro" sort="Kawaoka, Yoshihiro" uniqKey="Kawaoka Y" first="Yoshihiro" last="Kawaoka">Yoshihiro Kawaoka</name></region><name sortKey="Kawaoka, Yoshihiro" sort="Kawaoka, Yoshihiro" uniqKey="Kawaoka Y" first="Yoshihiro" last="Kawaoka">Yoshihiro Kawaoka</name><name sortKey="Kawaoka, Yoshihiro" sort="Kawaoka, Yoshihiro" uniqKey="Kawaoka Y" first="Yoshihiro" last="Kawaoka">Yoshihiro Kawaoka</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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