Virus Variation Resource - improved response to emergent viral outbreaks.
Identifieur interne : 000E69 ( PubMed/Curation ); précédent : 000E68; suivant : 000E70Virus Variation Resource - improved response to emergent viral outbreaks.
Auteurs : Eneida L. Hatcher [États-Unis] ; Sergey A. Zhdanov [États-Unis] ; Yiming Bao [États-Unis] ; Olga Blinkova [États-Unis] ; Eric P. Nawrocki [États-Unis] ; Yuri Ostapchuck [États-Unis] ; Alejandro A. Sch Ffer [États-Unis] ; J Rodney Brister [Burundi]Source :
- Nucleic acids research [ 1362-4962 ] ; 2017.
Descripteurs français
- KwdFr :
- MESH :
- génétique : Virus.
- virologie : Maladies virales.
- épidémiologie : Maladies virales.
- Bases de données génétiques, Biologie informatique, Flambées de maladies, Logiciel, Variation génétique.
English descriptors
- KwdEn :
- MESH :
- epidemiology : Virus Diseases.
- genetics : Viruses.
- methods : Computational Biology.
- virology : Virus Diseases.
- Databases, Genetic, Disease Outbreaks, Genetic Variation, Software.
Abstract
The Virus Variation Resource is a value-added viral sequence data resource hosted by the National Center for Biotechnology Information. The resource is located at http://www.ncbi.nlm.nih.gov/genome/viruses/variation/ and includes modules for seven viral groups: influenza virus, Dengue virus, West Nile virus, Ebolavirus, MERS coronavirus, Rotavirus A and Zika virus Each module is supported by pipelines that scan newly released GenBank records, annotate genes and proteins and parse sample descriptors and then map them to controlled vocabulary. These processes in turn support a purpose-built search interface where users can select sequences based on standardized gene, protein and metadata terms. Once sequences are selected, a suite of tools for downloading data, multi-sequence alignment and tree building supports a variety of user directed activities. This manuscript describes a series of features and functionalities recently added to the Virus Variation Resource.
DOI: 10.1093/nar/gkw1065
PubMed: 27899678
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Hatcher</name><affiliation wicri:level="1"><nlm:affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894</wicri:regionArea></affiliation></author><author><name sortKey="Zhdanov, Sergey A" sort="Zhdanov, Sergey A" uniqKey="Zhdanov S" first="Sergey A" last="Zhdanov">Sergey A. Zhdanov</name><affiliation wicri:level="1"><nlm:affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894</wicri:regionArea></affiliation></author><author><name sortKey="Bao, Yiming" sort="Bao, Yiming" uniqKey="Bao Y" first="Yiming" last="Bao">Yiming Bao</name><affiliation wicri:level="1"><nlm:affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894</wicri:regionArea></affiliation></author><author><name sortKey="Blinkova, Olga" sort="Blinkova, Olga" uniqKey="Blinkova O" first="Olga" last="Blinkova">Olga Blinkova</name><affiliation wicri:level="1"><nlm:affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894</wicri:regionArea></affiliation></author><author><name sortKey="Nawrocki, Eric P" sort="Nawrocki, Eric P" uniqKey="Nawrocki E" first="Eric P" last="Nawrocki">Eric P. 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Sch Ffer</name><affiliation wicri:level="1"><nlm:affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894</wicri:regionArea></affiliation></author><author><name sortKey="Brister, J Rodney" sort="Brister, J Rodney" uniqKey="Brister J" first="J Rodney" last="Brister">J Rodney Brister</name><affiliation wicri:level="1"><nlm:affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA jamesbr@ncbi.nlm.nih.gov.</nlm:affiliation><country wicri:rule="url">Burundi</country><wicri:regionArea>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894</wicri:regionArea></affiliation></author></analytic><series><title level="j">Nucleic acids research</title><idno type="eISSN">1362-4962</idno><imprint><date when="2017" type="published">2017</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Computational Biology (methods)</term><term>Databases, Genetic</term><term>Disease Outbreaks</term><term>Genetic Variation</term><term>Software</term><term>Virus Diseases (epidemiology)</term><term>Virus Diseases (virology)</term><term>Viruses (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Bases de données génétiques</term><term>Biologie informatique ()</term><term>Flambées de maladies</term><term>Logiciel</term><term>Maladies virales (virologie)</term><term>Maladies virales (épidémiologie)</term><term>Variation génétique</term><term>Virus (génétique)</term></keywords><keywords scheme="MESH" qualifier="epidemiology" xml:lang="en"><term>Virus Diseases</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Viruses</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Virus</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Computational Biology</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Maladies virales</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Virus Diseases</term></keywords><keywords scheme="MESH" qualifier="épidémiologie" xml:lang="fr"><term>Maladies virales</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Databases, Genetic</term><term>Disease Outbreaks</term><term>Genetic Variation</term><term>Software</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Bases de données génétiques</term><term>Biologie informatique</term><term>Flambées de maladies</term><term>Logiciel</term><term>Variation génétique</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The Virus Variation Resource is a value-added viral sequence data resource hosted by the National Center for Biotechnology Information. The resource is located at http://www.ncbi.nlm.nih.gov/genome/viruses/variation/ and includes modules for seven viral groups: influenza virus, Dengue virus, West Nile virus, Ebolavirus, MERS coronavirus, Rotavirus A and Zika virus Each module is supported by pipelines that scan newly released GenBank records, annotate genes and proteins and parse sample descriptors and then map them to controlled vocabulary. These processes in turn support a purpose-built search interface where users can select sequences based on standardized gene, protein and metadata terms. Once sequences are selected, a suite of tools for downloading data, multi-sequence alignment and tree building supports a variety of user directed activities. This manuscript describes a series of features and functionalities recently added to the Virus Variation Resource.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">27899678</PMID><DateCompleted><Year>2017</Year><Month>06</Month><Day>15</Day></DateCompleted><DateRevised><Year>2020</Year><Month>03</Month><Day>06</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1362-4962</ISSN><JournalIssue CitedMedium="Internet"><Volume>45</Volume><Issue>D1</Issue><PubDate><Year>2017</Year><Month>01</Month><Day>04</Day></PubDate></JournalIssue><Title>Nucleic acids research</Title><ISOAbbreviation>Nucleic Acids Res.</ISOAbbreviation></Journal><ArticleTitle>Virus Variation Resource - improved response to emergent viral outbreaks.</ArticleTitle><Pagination><MedlinePgn>D482-D490</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1093/nar/gkw1065</ELocationID><Abstract><AbstractText>The Virus Variation Resource is a value-added viral sequence data resource hosted by the National Center for Biotechnology Information. The resource is located at http://www.ncbi.nlm.nih.gov/genome/viruses/variation/ and includes modules for seven viral groups: influenza virus, Dengue virus, West Nile virus, Ebolavirus, MERS coronavirus, Rotavirus A and Zika virus Each module is supported by pipelines that scan newly released GenBank records, annotate genes and proteins and parse sample descriptors and then map them to controlled vocabulary. These processes in turn support a purpose-built search interface where users can select sequences based on standardized gene, protein and metadata terms. Once sequences are selected, a suite of tools for downloading data, multi-sequence alignment and tree building supports a variety of user directed activities. This manuscript describes a series of features and functionalities recently added to the Virus Variation Resource.</AbstractText><CopyrightInformation>Published by Oxford University Press on behalf of Nucleic Acids Research 2016. This work is written by (a) US Government employee(s) and is in the public domain in the US.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Hatcher</LastName><ForeName>Eneida L</ForeName><Initials>EL</Initials><AffiliationInfo><Affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhdanov</LastName><ForeName>Sergey A</ForeName><Initials>SA</Initials><AffiliationInfo><Affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Bao</LastName><ForeName>Yiming</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Blinkova</LastName><ForeName>Olga</ForeName><Initials>O</Initials><AffiliationInfo><Affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Nawrocki</LastName><ForeName>Eric P</ForeName><Initials>EP</Initials><AffiliationInfo><Affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Ostapchuck</LastName><ForeName>Yuri</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Schäffer</LastName><ForeName>Alejandro A</ForeName><Initials>AA</Initials><AffiliationInfo><Affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Brister</LastName><ForeName>J Rodney</ForeName><Initials>JR</Initials><AffiliationInfo><Affiliation>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA jamesbr@ncbi.nlm.nih.gov.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D052060">Research Support, N.I.H., Intramural</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2016</Year><Month>11</Month><Day>28</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Nucleic Acids Res</MedlineTA><NlmUniqueID>0411011</NlmUniqueID><ISSNLinking>0305-1048</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D019295" MajorTopicYN="N">Computational Biology</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D030541" MajorTopicYN="N">Databases, Genetic</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D004196" MajorTopicYN="Y">Disease Outbreaks</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D014644" MajorTopicYN="Y">Genetic Variation</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012984" MajorTopicYN="Y">Software</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D014777" MajorTopicYN="N">Virus 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|texte= Virus Variation Resource - improved response to emergent viral outbreaks.
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HfdIndexSelect -h $EXPLOR_AREA/Data/PubMed/Curation/RBID.i -Sk "pubmed:27899678" \
| HfdSelect -Kh $EXPLOR_AREA/Data/PubMed/Curation/biblio.hfd \
| NlmPubMed2Wicri -a MersV1
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