MersV1, Ncbi, Merge, bibRecord, 002090

Fast and flexible bacterial genomic epidemiology with PopPUNK.

Identifieur interne : 002090 ( Ncbi/Merge ); précédent : 002089; suivant : 002091

Fast and flexible bacterial genomic epidemiology with PopPUNK.

Auteurs : John A. Lees [États-Unis] ; Simon R. Harris [Royaume-Uni] ; Gerry Tonkin-Hill [Royaume-Uni] ; Rebecca A. Gladstone [Royaume-Uni] ; Stephanie W. Lo [Royaume-Uni] ; Jeffrey N. Weiser [États-Unis] ; Jukka Corander [Royaume-Uni] ; Stephen D. Bentley [Royaume-Uni] ; Nicholas J. Croucher [Royaume-Uni]

Source :

Genome research [ 1549-5469 ] ; 2019.

RBID : pubmed:30679308

Descripteurs français

KwdFr :
- Bactéries (), Génome bactérien, Génomique (), Infections bactériennes (épidémiologie), Logiciel, Techniques de typage bactérien (), Variation génétique.
MESH :
- épidémiologie : Infections bactériennes.
- Bactéries, Génome bactérien, Génomique, Logiciel, Techniques de typage bactérien, Variation génétique.

English descriptors

KwdEn :
- Bacteria (classification), Bacterial Infections (epidemiology), Bacterial Typing Techniques (methods), Genetic Variation, Genome, Bacterial, Genomics (methods), Software.
MESH :
- classification : Bacteria.
- epidemiology : Bacterial Infections.
- methods : Bacterial Typing Techniques, Genomics.
- Genetic Variation, Genome, Bacterial, Software.

Abstract

The routine use of genomics for disease surveillance provides the opportunity for high-resolution bacterial epidemiology. Current whole-genome clustering and multilocus typing approaches do not fully exploit core and accessory genomic variation, and they cannot both automatically identify, and subsequently expand, clusters of significantly similar isolates in large data sets spanning entire species. Here, we describe PopPUNK (Population Partitioning Using Nucleotide K -mers), a software implementing scalable and expandable annotation- and alignment-free methods for population analysis and clustering. Variable-length k-mer comparisons are used to distinguish isolates' divergence in shared sequence and gene content, which we demonstrate to be accurate over multiple orders of magnitude using data from both simulations and genomic collections representing 10 taxonomically widespread species. Connections between closely related isolates of the same strain are robustly identified, despite interspecies variation in the pairwise distance distributions that reflects species' diverse evolutionary patterns. PopPUNK can process 10³-10⁴ genomes in a single batch, with minimal memory use and runtimes up to 200-fold faster than existing model-based methods. Clusters of strains remain consistent as new batches of genomes are added, which is achieved without needing to reanalyze all genomes de novo. This facilitates real-time surveillance with consistent cluster naming between studies and allows for outbreak detection using hundreds of genomes in minutes. Interactive visualization and online publication is streamlined through the automatic output of results to multiple platforms. PopPUNK has been designed as a flexible platform that addresses important issues with currently used whole-genome clustering and typing methods, and has potential uses across bacterial genetics and public health research.

DOI: 10.1101/gr.241455.118
PubMed: 30679308

Links toward previous steps (curation, corpus...)

to stream PubMed, to step Corpus: 000661
to stream PubMed, to step Curation: 000661
to stream PubMed, to step Checkpoint: 000559

Links to Exploration step

pubmed:30679308

Le document en format XML

<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Fast and flexible bacterial genomic epidemiology with PopPUNK.</title>
<author><name sortKey="Lees, John A" sort="Lees, John A" uniqKey="Lees J" first="John A" last="Lees">John A. Lees</name>
<affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, New York University School of Medicine, New York, New York 10016, USA.</nlm:affiliation>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>Department of Microbiology, New York University School of Medicine, New York, New York 10016</wicri:regionArea>
<wicri:noRegion>New York 10016</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Harris, Simon R" sort="Harris, Simon R" uniqKey="Harris S" first="Simon R" last="Harris">Simon R. Harris</name>
<affiliation wicri:level="1"><nlm:affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA</wicri:regionArea>
<wicri:noRegion>Hinxton CB10 1SA</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Tonkin Hill, Gerry" sort="Tonkin Hill, Gerry" uniqKey="Tonkin Hill G" first="Gerry" last="Tonkin-Hill">Gerry Tonkin-Hill</name>
<affiliation wicri:level="1"><nlm:affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA</wicri:regionArea>
<wicri:noRegion>Hinxton CB10 1SA</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Gladstone, Rebecca A" sort="Gladstone, Rebecca A" uniqKey="Gladstone R" first="Rebecca A" last="Gladstone">Rebecca A. Gladstone</name>
<affiliation wicri:level="1"><nlm:affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA</wicri:regionArea>
<wicri:noRegion>Hinxton CB10 1SA</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Lo, Stephanie W" sort="Lo, Stephanie W" uniqKey="Lo S" first="Stephanie W" last="Lo">Stephanie W. Lo</name>
<affiliation wicri:level="1"><nlm:affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA</wicri:regionArea>
<wicri:noRegion>Hinxton CB10 1SA</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Weiser, Jeffrey N" sort="Weiser, Jeffrey N" uniqKey="Weiser J" first="Jeffrey N" last="Weiser">Jeffrey N. Weiser</name>
<affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, New York University School of Medicine, New York, New York 10016, USA.</nlm:affiliation>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>Department of Microbiology, New York University School of Medicine, New York, New York 10016</wicri:regionArea>
<wicri:noRegion>New York 10016</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Corander, Jukka" sort="Corander, Jukka" uniqKey="Corander J" first="Jukka" last="Corander">Jukka Corander</name>
<affiliation wicri:level="1"><nlm:affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA</wicri:regionArea>
<wicri:noRegion>Hinxton CB10 1SA</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Bentley, Stephen D" sort="Bentley, Stephen D" uniqKey="Bentley S" first="Stephen D" last="Bentley">Stephen D. Bentley</name>
<affiliation wicri:level="1"><nlm:affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA</wicri:regionArea>
<wicri:noRegion>Hinxton CB10 1SA</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Croucher, Nicholas J" sort="Croucher, Nicholas J" uniqKey="Croucher N" first="Nicholas J" last="Croucher">Nicholas J. Croucher</name>
<affiliation wicri:level="1"><nlm:affiliation>MRC Centre for Global Infectious Disease Analysis, Department of Infectious Disease Epidemiology, Imperial College London, London W2 1PG, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>MRC Centre for Global Infectious Disease Analysis, Department of Infectious Disease Epidemiology, Imperial College London, London W2 1PG</wicri:regionArea>
<wicri:noRegion>London W2 1PG</wicri:noRegion>
</affiliation>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">PubMed</idno>
<date when="2019">2019</date>
<idno type="RBID">pubmed:30679308</idno>
<idno type="pmid">30679308</idno>
<idno type="doi">10.1101/gr.241455.118</idno>
<idno type="wicri:Area/PubMed/Corpus">000661</idno>
<idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">000661</idno>
<idno type="wicri:Area/PubMed/Curation">000661</idno>
<idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">000661</idno>
<idno type="wicri:Area/PubMed/Checkpoint">000559</idno>
<idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">000559</idno>
<idno type="wicri:Area/Ncbi/Merge">002090</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en">Fast and flexible bacterial genomic epidemiology with PopPUNK.</title>
<author><name sortKey="Lees, John A" sort="Lees, John A" uniqKey="Lees J" first="John A" last="Lees">John A. Lees</name>
<affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, New York University School of Medicine, New York, New York 10016, USA.</nlm:affiliation>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>Department of Microbiology, New York University School of Medicine, New York, New York 10016</wicri:regionArea>
<wicri:noRegion>New York 10016</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Harris, Simon R" sort="Harris, Simon R" uniqKey="Harris S" first="Simon R" last="Harris">Simon R. Harris</name>
<affiliation wicri:level="1"><nlm:affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA</wicri:regionArea>
<wicri:noRegion>Hinxton CB10 1SA</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Tonkin Hill, Gerry" sort="Tonkin Hill, Gerry" uniqKey="Tonkin Hill G" first="Gerry" last="Tonkin-Hill">Gerry Tonkin-Hill</name>
<affiliation wicri:level="1"><nlm:affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA</wicri:regionArea>
<wicri:noRegion>Hinxton CB10 1SA</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Gladstone, Rebecca A" sort="Gladstone, Rebecca A" uniqKey="Gladstone R" first="Rebecca A" last="Gladstone">Rebecca A. Gladstone</name>
<affiliation wicri:level="1"><nlm:affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA</wicri:regionArea>
<wicri:noRegion>Hinxton CB10 1SA</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Lo, Stephanie W" sort="Lo, Stephanie W" uniqKey="Lo S" first="Stephanie W" last="Lo">Stephanie W. Lo</name>
<affiliation wicri:level="1"><nlm:affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA</wicri:regionArea>
<wicri:noRegion>Hinxton CB10 1SA</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Weiser, Jeffrey N" sort="Weiser, Jeffrey N" uniqKey="Weiser J" first="Jeffrey N" last="Weiser">Jeffrey N. Weiser</name>
<affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, New York University School of Medicine, New York, New York 10016, USA.</nlm:affiliation>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>Department of Microbiology, New York University School of Medicine, New York, New York 10016</wicri:regionArea>
<wicri:noRegion>New York 10016</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Corander, Jukka" sort="Corander, Jukka" uniqKey="Corander J" first="Jukka" last="Corander">Jukka Corander</name>
<affiliation wicri:level="1"><nlm:affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA</wicri:regionArea>
<wicri:noRegion>Hinxton CB10 1SA</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Bentley, Stephen D" sort="Bentley, Stephen D" uniqKey="Bentley S" first="Stephen D" last="Bentley">Stephen D. Bentley</name>
<affiliation wicri:level="1"><nlm:affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA</wicri:regionArea>
<wicri:noRegion>Hinxton CB10 1SA</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Croucher, Nicholas J" sort="Croucher, Nicholas J" uniqKey="Croucher N" first="Nicholas J" last="Croucher">Nicholas J. Croucher</name>
<affiliation wicri:level="1"><nlm:affiliation>MRC Centre for Global Infectious Disease Analysis, Department of Infectious Disease Epidemiology, Imperial College London, London W2 1PG, United Kingdom.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>MRC Centre for Global Infectious Disease Analysis, Department of Infectious Disease Epidemiology, Imperial College London, London W2 1PG</wicri:regionArea>
<wicri:noRegion>London W2 1PG</wicri:noRegion>
</affiliation>
</author>
</analytic>
<series><title level="j">Genome research</title>
<idno type="eISSN">1549-5469</idno>
<imprint><date when="2019" type="published">2019</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Bacteria (classification)</term>
<term>Bacterial Infections (epidemiology)</term>
<term>Bacterial Typing Techniques (methods)</term>
<term>Genetic Variation</term>
<term>Genome, Bacterial</term>
<term>Genomics (methods)</term>
<term>Software</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr"><term>Bactéries ()</term>
<term>Génome bactérien</term>
<term>Génomique ()</term>
<term>Infections bactériennes (épidémiologie)</term>
<term>Logiciel</term>
<term>Techniques de typage bactérien ()</term>
<term>Variation génétique</term>
</keywords>
<keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Bacteria</term>
</keywords>
<keywords scheme="MESH" qualifier="epidemiology" xml:lang="en"><term>Bacterial Infections</term>
</keywords>
<keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Bacterial Typing Techniques</term>
<term>Genomics</term>
</keywords>
<keywords scheme="MESH" qualifier="épidémiologie" xml:lang="fr"><term>Infections bactériennes</term>
</keywords>
<keywords scheme="MESH" xml:lang="en"><term>Genetic Variation</term>
<term>Genome, Bacterial</term>
<term>Software</term>
</keywords>
<keywords scheme="MESH" xml:lang="fr"><term>Bactéries</term>
<term>Génome bactérien</term>
<term>Génomique</term>
<term>Logiciel</term>
<term>Techniques de typage bactérien</term>
<term>Variation génétique</term>
</keywords>
</textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en">The routine use of genomics for disease surveillance provides the opportunity for high-resolution bacterial epidemiology. Current whole-genome clustering and multilocus typing approaches do not fully exploit core and accessory genomic variation, and they cannot both automatically identify, and subsequently expand, clusters of significantly similar isolates in large data sets spanning entire species. Here, we describe PopPUNK (<u>Pop</u>
ulation <u>P</u>
artitioning <u>U</u>
sing <u>N</u>
ucleotide <i><u>K</u>
</i>
 -mers), a software implementing scalable and expandable annotation- and alignment-free methods for population analysis and clustering. Variable-length <i>k</i>
-mer comparisons are used to distinguish isolates' divergence in shared sequence and gene content, which we demonstrate to be accurate over multiple orders of magnitude using data from both simulations and genomic collections representing 10 taxonomically widespread species. Connections between closely related isolates of the same strain are robustly identified, despite interspecies variation in the pairwise distance distributions that reflects species' diverse evolutionary patterns. PopPUNK can process 10<sup>3</sup>
-10<sup>4</sup>
 genomes in a single batch, with minimal memory use and runtimes up to 200-fold faster than existing model-based methods. Clusters of strains remain consistent as new batches of genomes are added, which is achieved without needing to reanalyze all genomes de novo. This facilitates real-time surveillance with consistent cluster naming between studies and allows for outbreak detection using hundreds of genomes in minutes. Interactive visualization and online publication is streamlined through the automatic output of results to multiple platforms. PopPUNK has been designed as a flexible platform that addresses important issues with currently used whole-genome clustering and typing methods, and has potential uses across bacterial genetics and public health research.</div>
</front>
</TEI>
<pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">30679308</PMID>
<DateCompleted><Year>2019</Year>
<Month>05</Month>
<Day>29</Day>
</DateCompleted>
<DateRevised><Year>2020</Year>
<Month>03</Month>
<Day>09</Day>
</DateRevised>
<Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1549-5469</ISSN>
<JournalIssue CitedMedium="Internet"><Volume>29</Volume>
<Issue>2</Issue>
<PubDate><Year>2019</Year>
<Month>02</Month>
</PubDate>
</JournalIssue>
<Title>Genome research</Title>
<ISOAbbreviation>Genome Res.</ISOAbbreviation>
</Journal>
<ArticleTitle>Fast and flexible bacterial genomic epidemiology with PopPUNK.</ArticleTitle>
<Pagination><MedlinePgn>304-316</MedlinePgn>
</Pagination>
<ELocationID EIdType="doi" ValidYN="Y">10.1101/gr.241455.118</ELocationID>
<Abstract><AbstractText>The routine use of genomics for disease surveillance provides the opportunity for high-resolution bacterial epidemiology. Current whole-genome clustering and multilocus typing approaches do not fully exploit core and accessory genomic variation, and they cannot both automatically identify, and subsequently expand, clusters of significantly similar isolates in large data sets spanning entire species. Here, we describe PopPUNK (<u>Pop</u>
ulation <u>P</u>
artitioning <u>U</u>
sing <u>N</u>
ucleotide <i><u>K</u>
</i>
 -mers), a software implementing scalable and expandable annotation- and alignment-free methods for population analysis and clustering. Variable-length <i>k</i>
-mer comparisons are used to distinguish isolates' divergence in shared sequence and gene content, which we demonstrate to be accurate over multiple orders of magnitude using data from both simulations and genomic collections representing 10 taxonomically widespread species. Connections between closely related isolates of the same strain are robustly identified, despite interspecies variation in the pairwise distance distributions that reflects species' diverse evolutionary patterns. PopPUNK can process 10<sup>3</sup>
-10<sup>4</sup>
 genomes in a single batch, with minimal memory use and runtimes up to 200-fold faster than existing model-based methods. Clusters of strains remain consistent as new batches of genomes are added, which is achieved without needing to reanalyze all genomes de novo. This facilitates real-time surveillance with consistent cluster naming between studies and allows for outbreak detection using hundreds of genomes in minutes. Interactive visualization and online publication is streamlined through the automatic output of results to multiple platforms. PopPUNK has been designed as a flexible platform that addresses important issues with currently used whole-genome clustering and typing methods, and has potential uses across bacterial genetics and public health research.</AbstractText>
<CopyrightInformation>© 2019 Lees et al.; Published by Cold Spring Harbor Laboratory Press.</CopyrightInformation>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Lees</LastName>
<ForeName>John A</ForeName>
<Initials>JA</Initials>
<Identifier Source="ORCID">0000-0001-5360-1254</Identifier>
<AffiliationInfo><Affiliation>Department of Microbiology, New York University School of Medicine, New York, New York 10016, USA.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Harris</LastName>
<ForeName>Simon R</ForeName>
<Initials>SR</Initials>
<Identifier Source="ORCID">0000-0003-1512-6194</Identifier>
<AffiliationInfo><Affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Tonkin-Hill</LastName>
<ForeName>Gerry</ForeName>
<Initials>G</Initials>
<Identifier Source="ORCID">0000-0003-4397-2224</Identifier>
<AffiliationInfo><Affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Gladstone</LastName>
<ForeName>Rebecca A</ForeName>
<Initials>RA</Initials>
<Identifier Source="ORCID">0000-0002-7993-3051</Identifier>
<AffiliationInfo><Affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Lo</LastName>
<ForeName>Stephanie W</ForeName>
<Initials>SW</Initials>
<Identifier Source="ORCID">0000-0002-2182-0222</Identifier>
<AffiliationInfo><Affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Weiser</LastName>
<ForeName>Jeffrey N</ForeName>
<Initials>JN</Initials>
<Identifier Source="ORCID">0000-0001-7168-8090</Identifier>
<AffiliationInfo><Affiliation>Department of Microbiology, New York University School of Medicine, New York, New York 10016, USA.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Corander</LastName>
<ForeName>Jukka</ForeName>
<Initials>J</Initials>
<Identifier Source="ORCID">0000-0002-7752-1942</Identifier>
<AffiliationInfo><Affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Department of Biostatistics, University of Oslo, 0372 Oslo, Norway.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Helsinki Institute of Information Technology, Department of Mathematics and Statistics, University of Helsinki, 00014 Helsinki, Finland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Bentley</LastName>
<ForeName>Stephen D</ForeName>
<Initials>SD</Initials>
<Identifier Source="ORCID">0000-0001-8094-3751</Identifier>
<AffiliationInfo><Affiliation>Parasites and Microbes, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Institute of Infection and Global Health, University of Liverpool, Liverpool L7 3EA, United Kingdom.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Department of Pathology, University of Cambridge, Cambridge CB2 1QP, United Kingdom.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Croucher</LastName>
<ForeName>Nicholas J</ForeName>
<Initials>NJ</Initials>
<Identifier Source="ORCID">0000-0001-6303-8768</Identifier>
<AffiliationInfo><Affiliation>MRC Centre for Global Infectious Disease Analysis, Department of Infectious Disease Epidemiology, Imperial College London, London W2 1PG, United Kingdom.</Affiliation>
</AffiliationInfo>
</Author>
</AuthorList>
<Language>eng</Language>
<DataBankList CompleteYN="Y"><DataBank><DataBankName>figshare</DataBankName>
<AccessionNumberList><AccessionNumber>10.6084/m9.figshare.6683624</AccessionNumber>
</AccessionNumberList>
</DataBank>
</DataBankList>
<GrantList CompleteYN="Y"><Grant><GrantID>104169/Z/14/Z</GrantID>
<Acronym>WT_</Acronym>
<Agency>Wellcome Trust</Agency>
<Country>United Kingdom</Country>
</Grant>
<Grant><GrantID>MR/R015600/1</GrantID>
<Acronym>MRC_</Acronym>
<Agency>Medical Research Council</Agency>
<Country>United Kingdom</Country>
</Grant>
<Grant><GrantID>MR/R003076/1</GrantID>
<Acronym>MRC_</Acronym>
<Agency>Medical Research Council</Agency>
<Country>United Kingdom</Country>
</Grant>
<Grant><GrantID>R01 AI038446</GrantID>
<Acronym>AI</Acronym>
<Agency>NIAID NIH HHS</Agency>
<Country>United States</Country>
</Grant>
<Grant><GrantID>R01 AI105168</GrantID>
<Acronym>AI</Acronym>
<Agency>NIAID NIH HHS</Agency>
<Country>United States</Country>
</Grant>
<Grant><GrantID>098051</GrantID>
<Acronym>WT_</Acronym>
<Agency>Wellcome Trust</Agency>
<Country>United Kingdom</Country>
</Grant>
</GrantList>
<PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType>
<PublicationType UI="D052061">Research Support, N.I.H., Extramural</PublicationType>
<PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType>
</PublicationTypeList>
<ArticleDate DateType="Electronic"><Year>2019</Year>
<Month>01</Month>
<Day>24</Day>
</ArticleDate>
</Article>
<MedlineJournalInfo><Country>United States</Country>
<MedlineTA>Genome Res</MedlineTA>
<NlmUniqueID>9518021</NlmUniqueID>
<ISSNLinking>1088-9051</ISSNLinking>
</MedlineJournalInfo>
<CitationSubset>IM</CitationSubset>
<MeshHeadingList><MeshHeading><DescriptorName UI="D001419" MajorTopicYN="N">Bacteria</DescriptorName>
<QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D001424" MajorTopicYN="N">Bacterial Infections</DescriptorName>
<QualifierName UI="Q000453" MajorTopicYN="N">epidemiology</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D015373" MajorTopicYN="N">Bacterial Typing Techniques</DescriptorName>
<QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D014644" MajorTopicYN="N">Genetic Variation</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D016680" MajorTopicYN="Y">Genome, Bacterial</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D023281" MajorTopicYN="N">Genomics</DescriptorName>
<QualifierName UI="Q000379" MajorTopicYN="N">methods</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D012984" MajorTopicYN="Y">Software</DescriptorName>
</MeshHeading>
</MeshHeadingList>
</MedlineCitation>
<PubmedData><History><PubMedPubDate PubStatus="received"><Year>2018</Year>
<Month>07</Month>
<Day>05</Day>
</PubMedPubDate>
<PubMedPubDate PubStatus="accepted"><Year>2018</Year>
<Month>12</Month>
<Day>10</Day>
</PubMedPubDate>
<PubMedPubDate PubStatus="pubmed"><Year>2019</Year>
<Month>1</Month>
<Day>27</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
<PubMedPubDate PubStatus="medline"><Year>2019</Year>
<Month>5</Month>
<Day>30</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
<PubMedPubDate PubStatus="entrez"><Year>2019</Year>
<Month>1</Month>
<Day>26</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
</History>
<PublicationStatus>ppublish</PublicationStatus>
<ArticleIdList><ArticleId IdType="pubmed">30679308</ArticleId>
<ArticleId IdType="pii">gr.241455.118</ArticleId>
<ArticleId IdType="doi">10.1101/gr.241455.118</ArticleId>
<ArticleId IdType="pmc">PMC6360808</ArticleId>
</ArticleIdList>
<ReferenceList><Reference><Citation>Environ Microbiol. 2002 Jan;4(1):10-2</Citation>
<ArticleIdList><ArticleId IdType="pubmed">11966815</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Genome Res. 2003 Nov;13(11):2498-504</Citation>
<ArticleIdList><ArticleId IdType="pubmed">14597658</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>J Bacteriol. 2004 Mar;186(5):1518-30</Citation>
<ArticleIdList><ArticleId IdType="pubmed">14973027</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W728-33</Citation>
<ArticleIdList><ArticleId IdType="pubmed">15980573</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>BMC Microbiol. 2007 Apr 12;7:30</Citation>
<ArticleIdList><ArticleId IdType="pubmed">17430587</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Curr Protoc Bioinformatics. 2003 Feb;Chapter 10:Unit 10.3</Citation>
<ArticleIdList><ArticleId IdType="pubmed">18428693</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Bioinformatics. 2010 Jun 15;26(12):1569-71</Citation>
<ArticleIdList><ArticleId IdType="pubmed">20421198</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Bioinformatics. 2010 Jun 15;26(12):1481-7</Citation>
<ArticleIdList><ArticleId IdType="pubmed">20439257</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Trends Microbiol. 2010 Jul;18(7):315-22</Citation>
<ArticleIdList><ArticleId IdType="pubmed">20452218</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Philos Trans R Soc Lond B Biol Sci. 2012 Mar 19;367(1590):860-7</Citation>
<ArticleIdList><ArticleId IdType="pubmed">22312053</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>MBio. 2012 Jul 17;3(4):e00151-12</Citation>
<ArticleIdList><ArticleId IdType="pubmed">22807567</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Mol Biol Evol. 2013 May;30(5):1224-8</Citation>
<ArticleIdList><ArticleId IdType="pubmed">23408797</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>PLoS Genet. 2013 Apr;9(4):e1003471</Citation>
<ArticleIdList><ArticleId IdType="pubmed">23637636</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Nat Genet. 2013 Jun;45(6):656-63</Citation>
<ArticleIdList><ArticleId IdType="pubmed">23644493</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Proc Natl Acad Sci U S A. 2013 Aug 20;110(34):13880-5</Citation>
<ArticleIdList><ArticleId IdType="pubmed">23898187</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Proc Natl Acad Sci U S A. 2014 Apr 15;111(15):5694-9</Citation>
<ArticleIdList><ArticleId IdType="pubmed">24706808</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Proc Natl Acad Sci U S A. 2014 Apr 29;111(17):E1768-76</Citation>
<ArticleIdList><ArticleId IdType="pubmed">24733896</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Proc Natl Acad Sci U S A. 2014 May 6;111(18):6768-73</Citation>
<ArticleIdList><ArticleId IdType="pubmed">24753568</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Proc Natl Acad Sci U S A. 2014 Aug 19;111(33):12199-204</Citation>
<ArticleIdList><ArticleId IdType="pubmed">25092320</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Proc Natl Acad Sci U S A. 2014 Nov 11;111(45):16112-7</Citation>
<ArticleIdList><ArticleId IdType="pubmed">25313052</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Mol Biol Evol. 2015 Jan;32(1):268-74</Citation>
<ArticleIdList><ArticleId IdType="pubmed">25371430</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Nat Commun. 2014 Nov 19;5:5471</Citation>
<ArticleIdList><ArticleId IdType="pubmed">25407023</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Curr Opin Microbiol. 2015 Feb;23:62-7</Citation>
<ArticleIdList><ArticleId IdType="pubmed">25461574</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>BMC Genomics. 2014 Dec 18;15:1138</Citation>
<ArticleIdList><ArticleId IdType="pubmed">25523208</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>J Clin Microbiol. 2015 May;53(5):1765-7</Citation>
<ArticleIdList><ArticleId IdType="pubmed">25788543</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Nat Commun. 2015 Mar 31;6:6740</Citation>
<ArticleIdList><ArticleId IdType="pubmed">25824154</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Proc Natl Acad Sci U S A. 2015 Jul 7;112(27):E3574-81</Citation>
<ArticleIdList><ArticleId IdType="pubmed">26100894</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>J Clin Microbiol. 2015 Sep;53(9):2869-76</Citation>
<ArticleIdList><ArticleId IdType="pubmed">26135865</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Bioinformatics. 2015 Nov 15;31(22):3691-3</Citation>
<ArticleIdList><ArticleId IdType="pubmed">26198102</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>J Clin Microbiol. 2015 Dec;53(12):3788-97</Citation>
<ArticleIdList><ArticleId IdType="pubmed">26400782</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>PLoS Med. 2015 Sep 29;12(9):e1001880</Citation>
<ArticleIdList><ArticleId IdType="pubmed">26418737</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Sci Data. 2015 Oct 27;2:150058</Citation>
<ArticleIdList><ArticleId IdType="pubmed">26528397</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>PLoS Biol. 2016 Mar 02;14(3):e1002394</Citation>
<ArticleIdList><ArticleId IdType="pubmed">26934590</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>J Clin Microbiol. 2016 Aug;54(8):1949-55</Citation>
<ArticleIdList><ArticleId IdType="pubmed">27098959</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>MBio. 2016 May 05;7(3):</Citation>
<ArticleIdList><ArticleId IdType="pubmed">27150362</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Genome Biol. 2016 Jun 20;17(1):132</Citation>
<ArticleIdList><ArticleId IdType="pubmed">27323842</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Sci Rep. 2016 Jul 06;6:28984</Citation>
<ArticleIdList><ArticleId IdType="pubmed">27381348</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>J Clin Microbiol. 2016 Dec;54(12):2874-2881</Citation>
<ArticleIdList><ArticleId IdType="pubmed">27558178</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Bioinformatics. 2017 Jan 1;33(1):119-121</Citation>
<ArticleIdList><ArticleId IdType="pubmed">27605103</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Nat Commun. 2016 Sep 16;7:12797</Citation>
<ArticleIdList><ArticleId IdType="pubmed">27633831</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>J Infect Dis. 2016 Nov 15;214(10):1579-1587</Citation>
<ArticleIdList><ArticleId IdType="pubmed">27638945</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Clin Microbiol Infect. 2017 Apr;23(4):265.e1-265.e7</Citation>
<ArticleIdList><ArticleId IdType="pubmed">27998823</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Microb Genom. 2015 Nov 5;1(5):e000038</Citation>
<ArticleIdList><ArticleId IdType="pubmed">28348822</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Microb Genom. 2016 Nov 30;2(11):e000093</Citation>
<ArticleIdList><ArticleId IdType="pubmed">28348833</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Microb Genom. 2017 Jan 31;3(1):e000103</Citation>
<ArticleIdList><ArticleId IdType="pubmed">28348877</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Euro Surveill. 2017 Jun 8;22(23):</Citation>
<ArticleIdList><ArticleId IdType="pubmed">28662764</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Genome Res. 2017 Jul 18;:null</Citation>
<ArticleIdList><ArticleId IdType="pubmed">28720578</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Bioinformatics. 2017 Sep 25;:null</Citation>
<ArticleIdList><ArticleId IdType="pubmed">29028899</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Nat Ecol Evol. 2017 Dec;1(12):1950-1960</Citation>
<ArticleIdList><ArticleId IdType="pubmed">29038424</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Proc Natl Acad Sci U S A. 1979 Oct;76(10):5269-73</Citation>
<ArticleIdList><ArticleId IdType="pubmed">291943</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Database (Oxford). 2017 Jan 1;2017:</Citation>
<ArticleIdList><ArticleId IdType="pubmed">29220452</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Front Microbiol. 2017 Nov 29;8:2351</Citation>
<ArticleIdList><ArticleId IdType="pubmed">29238330</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Bioinformatics. 2018 Jul 1;34(13):2308-2310</Citation>
<ArticleIdList><ArticleId IdType="pubmed">29474733</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Microb Genom. 2018 Mar 15;:null</Citation>
<ArticleIdList><ArticleId IdType="pubmed">29543149</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>PLoS Genet. 2018 Apr 5;14(4):e1007261</Citation>
<ArticleIdList><ArticleId IdType="pubmed">29621240</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Wellcome Open Res. 2018 Mar 23;3:33</Citation>
<ArticleIdList><ArticleId IdType="pubmed">29774245</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Genome Res. 2018 Sep;28(9):1395-1404</Citation>
<ArticleIdList><ArticleId IdType="pubmed">30049790</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Wellcome Open Res. 2018 Jul 30;3:93</Citation>
<ArticleIdList><ArticleId IdType="pubmed">30345380</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Microb Genom. 2018 Nov 22;:null</Citation>
<ArticleIdList><ArticleId IdType="pubmed">30465642</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Bioinformatics. 2018 Dec 15;34(24):4310-4312</Citation>
<ArticleIdList><ArticleId IdType="pubmed">30535304</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Mol Biol Evol. 1993 May;10(3):512-26</Citation>
<ArticleIdList><ArticleId IdType="pubmed">8336541</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Int J Syst Bacteriol. 1997 Oct;47(4):1145-56</Citation>
<ArticleIdList><ArticleId IdType="pubmed">9336922</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Proc Natl Acad Sci U S A. 1998 Mar 17;95(6):3140-5</Citation>
<ArticleIdList><ArticleId IdType="pubmed">9501229</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Nature. 1998 Jun 11;393(6685):537-44</Citation>
<ArticleIdList><ArticleId IdType="pubmed">9634230</ArticleId>
</ArticleIdList>
</Reference>
</ReferenceList>
</PubmedData>
</pubmed>
<affiliations><list><country><li>Royaume-Uni</li>
<li>États-Unis</li>
</country>
</list>
<tree><country name="États-Unis"><noRegion><name sortKey="Lees, John A" sort="Lees, John A" uniqKey="Lees J" first="John A" last="Lees">John A. Lees</name>
</noRegion>
<name sortKey="Weiser, Jeffrey N" sort="Weiser, Jeffrey N" uniqKey="Weiser J" first="Jeffrey N" last="Weiser">Jeffrey N. Weiser</name>
</country>
<country name="Royaume-Uni"><noRegion><name sortKey="Harris, Simon R" sort="Harris, Simon R" uniqKey="Harris S" first="Simon R" last="Harris">Simon R. Harris</name>
</noRegion>
<name sortKey="Bentley, Stephen D" sort="Bentley, Stephen D" uniqKey="Bentley S" first="Stephen D" last="Bentley">Stephen D. Bentley</name>
<name sortKey="Corander, Jukka" sort="Corander, Jukka" uniqKey="Corander J" first="Jukka" last="Corander">Jukka Corander</name>
<name sortKey="Croucher, Nicholas J" sort="Croucher, Nicholas J" uniqKey="Croucher N" first="Nicholas J" last="Croucher">Nicholas J. Croucher</name>
<name sortKey="Gladstone, Rebecca A" sort="Gladstone, Rebecca A" uniqKey="Gladstone R" first="Rebecca A" last="Gladstone">Rebecca A. Gladstone</name>
<name sortKey="Lo, Stephanie W" sort="Lo, Stephanie W" uniqKey="Lo S" first="Stephanie W" last="Lo">Stephanie W. Lo</name>
<name sortKey="Tonkin Hill, Gerry" sort="Tonkin Hill, Gerry" uniqKey="Tonkin Hill G" first="Gerry" last="Tonkin-Hill">Gerry Tonkin-Hill</name>
</country>
</tree>
</affiliations>
</record>

Pour manipuler ce document sous Unix (Dilib)

EXPLOR_STEP=$WICRI_ROOT/Sante/explor/MersV1/Data/Ncbi/Merge

HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 002090 | SxmlIndent | more

HfdSelect -h $EXPLOR_AREA/Data/Ncbi/Merge/biblio.hfd -nk 002090 | SxmlIndent | more

Pour mettre un lien sur cette page dans le réseau Wicri

{{Explor lien
   |wiki=    Sante
   |area=    MersV1
   |flux=    Ncbi
   |étape=   Merge
   |type=    RBID
   |clé=     pubmed:30679308
   |texte=   Fast and flexible bacterial genomic epidemiology with PopPUNK.
}}

Pour générer des pages wiki

HfdIndexSelect -h $EXPLOR_AREA/Data/Ncbi/Merge/RBID.i   -Sk "pubmed:30679308" \
       | HfdSelect -Kh $EXPLOR_AREA/Data/Ncbi/Merge/biblio.hfd   \
       | NlmPubMed2Wicri -a MersV1

This area was generated with Dilib version V0.6.33.
Data generation: Mon Apr 20 23:26:43 2020. Site generation: Sat Mar 27 09:06:09 2021

	Serveur d'exploration MERS
	Attention, ce site est en cours de développement ! Attention, site généré par des moyens informatiques à partir de corpus bruts. Les informations ne sont donc pas validées.

Serveur d'exploration MERS

Fast and flexible bacterial genomic epidemiology with PopPUNK.

Fast and flexible bacterial genomic epidemiology with PopPUNK.

Source :

Descripteurs français

English descriptors

Abstract

Links toward previous steps (curation, corpus...)

Links to Exploration step

Le document en format XML

Pour manipuler ce document sous Unix (Dilib)

Pour mettre un lien sur cette page dans le réseau Wicri

Pour générer des pages wiki