(Q50114269)

http://europepmc.org/abstract/PMC/5821398

6 March 2018

title

When are pathogen genome sequences informative of transmission events? (English)

1 reference

http://europepmc.org/abstract/PMC/5821398

6 March 2018

author

Finlay Campbell

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29420641%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

Camilla Strang

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29420641%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

Anne Cori

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29420641%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

3

Neil Ferguson

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29420641%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

author name string

Thibaut Jombart

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29420641%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

publication date

8 February 2018

1 reference

http://europepmc.org/abstract/PMC/5821398

6 March 2018

published in

PLOS Pathogens

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29420641%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

volume

14

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29420641%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

issue

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29420641%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

page(s)

e1006885

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29420641%20AND%20SRC:MED&resulttype=core&format=json

Creative Commons Attribution 4.0 International

2 June 2020

copyright license

start time

8 February 2018

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

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Within-host bacterial diversity hinders accurate reconstruction of transmission networks from genomic distance data

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22 May 2018

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22 May 2018

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22 May 2018

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22 May 2018

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22 May 2018

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22 May 2018

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22 May 2018

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22 May 2018

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22 May 2018

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22 May 2018

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22 May 2018

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Microevolutionary analysis of Clostridium difficile genomes to investigate transmission

22 May 2018

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A Bayesian inference framework to reconstruct transmission trees using epidemiological and genetic data

22 May 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Whole-genome sequencing for analysis of an outbreak of meticillin-resistant Staphylococcus aureus: a descriptive study.

22 May 2018

1 reference

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Whole-genome sequencing to delineate Mycobacterium tuberculosis outbreaks: a retrospective observational study

22 May 2018

1 reference

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Tracking a hospital outbreak of carbapenem-resistant Klebsiella pneumoniae with whole-genome sequencing

22 May 2018

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Shigella sonnei genome sequencing and phylogenetic analysis indicate recent global dissemination from Europe

22 May 2018

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Transmission dynamics of carbapenemase-producing Klebsiella pneumoniae and anticipated impact of infection control strategies in a surgical unit

22 May 2018

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Rapid whole-genome sequencing for investigation of a neonatal MRSA outbreak

22 May 2018

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Molecular tracing of the emergence, adaptation, and transmission of hospital-associated methicillin-resistant Staphylococcus aureus

22 May 2018

1 reference

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Complete genome sequence of the 2,3-butanediol-producing Klebsiella pneumoniae strain KCTC 2242.

22 May 2018

1 reference

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Complete genome sequence of Klebsiella pneumoniae subsp. pneumoniae HS11286, a multidrug-resistant strain isolated from human sputum.

22 May 2018

1 reference

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Characterisation of Clostridium difficile hospital ward-based transmission using extensive epidemiological data and molecular typing

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Frequent beneficial mutations during single-colony serial transfer of Streptococcus pneumoniae.

22 May 2018

1 reference

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A very early-branching Staphylococcus aureus lineage lacking the carotenoid pigment staphyloxanthin

22 May 2018

1 reference

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Transmission parameters of the A/H1N1 (2009) influenza virus pandemic: a review

22 May 2018

1 reference

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Epidemiological model for Clostridium difficile transmission in healthcare settings.

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Complete genome sequence of a serotype 11A, ST62 Streptococcus pneumoniae invasive isolate

22 May 2018

1 reference

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Rapid pneumococcal evolution in response to clinical interventions

22 May 2018

1 reference

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Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species

22 May 2018

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Evolutionary dynamics of Clostridium difficile over short and long time scales

22 May 2018

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Evolution of MRSA during hospital transmission and intercontinental spread

22 May 2018

1 reference

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Household transmission of 2009 pandemic influenza A (H1N1) virus in the United States.

22 May 2018

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The early molecular epidemiology of the swine-origin A/H1N1 human influenza pandemic.

22 May 2018

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Evolutionary analysis of the dynamics of viral infectious disease

22 May 2018

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Outbreaks of Streptococcus pneumoniae carriage in day care cohorts in Finland - implications for elimination of transmission

22 May 2018

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Origins and evolutionary genomics of the 2009 swine-origin H1N1 influenza A epidemic

22 May 2018

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The influenza virus resource at the National Center for Biotechnology Information

22 May 2018

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Factors associated with nosocomial SARS-CoV transmission among healthcare workers in Hanoi, Vietnam, 2003

22 May 2018

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The multidrug-resistant human pathogen Clostridium difficile has a highly mobile, mosaic genome

22 May 2018

1 reference

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Complete genome sequence of USA300, an epidemic clone of community-acquired meticillin-resistant Staphylococcus aureus

22 May 2018

1 reference

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Superspreading and the effect of individual variation on disease emergence

22 May 2018

1 reference

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Genome dynamics and diversity of Shigella species, the etiologic agents of bacillary dysentery

22 May 2018

1 reference

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Outbreak of infection with a multiresistant Klebsiella pneumoniae strain associated with contaminated roll boards in operating rooms

22 May 2018

1 reference

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Use of the minimum spanning tree model for molecular epidemiological investigation of a nosocomial outbreak of hepatitis C virus infection

22 May 2018

1 reference

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Different epidemic curves for severe acute respiratory syndrome reveal similar impacts of control measures

22 May 2018

1 reference

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Mutational dynamics of the SARS coronavirus in cell culture and human populations isolated in 2003

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Molecular epidemiology of hospital-associated and community-acquired Clostridium difficile infection in a Swedish county

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Moderate mutation rate in the SARS coronavirus genome and its implications

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Complete genomes of two clinical Staphylococcus aureus strains: evidence for the rapid evolution of virulence and drug resistance

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Factors associated with antimicrobial resistance among clinical isolates of Klebsiella pneumoniae: 1-year survey in a French university hospital

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

The interval between successive cases of an infectious disease

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Investigation of a nosocomial outbreak of severe acute respiratory syndrome (SARS) in Toronto, Canada.

22 May 2018

1 reference

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Comparative full-length genome sequence analysis of 14 SARS coronavirus isolates and common mutations associated with putative origins of infection

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Transmission dynamics and control of severe acute respiratory syndrome

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Characterization of a novel coronavirus associated with severe acute respiratory syndrome

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Re-annotation of the genome sequence of Mycobacterium tuberculosis H37Rv

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Transmission intensity and impact of control policies on the foot and mouth epidemic in Great Britain

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Complete Genome Sequence of a Virulent Isolate of Streptococcus pneumoniae

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Criteria for the control of drug-resistant tuberculosis

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

22 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

A Bayesian approach for inferring the dynamics of partially observed endemic infectious diseases from space-time-genetic data.

14 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Genome Sequence of Klebsiella pneumoniae Ecl8, a Reference Strain for Targeted Genetic Manipulation

14 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Risk of secondary cases of Clostridium difficile infection among household contacts of index cases.

14 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Epidemiology and control of influenza A(H1N1)v in the Netherlands: the first 115 cases.

14 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Integrating genetic and epidemiological data to determine transmission pathways of foot-and-mouth disease virus.

14 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Effect of subinhibitory concentrations of antibiotics on mutation frequency in Streptococcus pneumoniae

14 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

First outbreak of multidrug-resistant Klebsiella pneumoniae carrying blaVIM-1 and blaSHV-5 in a French university hospital

14 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

[The genome comparison of SARS-CoV and other coronaviruses].

14 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Halting a pneumococcal pneumonia outbreak among United States Marine Corps trainees

14 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Transmission dynamics of the etiological agent of SARS in Hong Kong: impact of public health interventions.

14 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

A simultaneous outbreak on a neonatal unit of two strains of multiply antibiotic resistant Klebsiella pneumoniae controllable only by ward closure.

14 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Estimation of serial interval and incubation period of tuberculosis using DNA fingerprinting.

14 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Unravelling transmission trees of infectious diseases by combining genetic and epidemiological data

14 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5821398

Shigellosis outbreak associated with swimming

2 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/29420641

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Outbreak of Streptococcus pneumoniae serotype 3 pneumonia in extremely elderly people in a nursing home unit in Kanagawa, Japan, 2013

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/29420641

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PPAT.1006885

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29420641%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29420641%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

1 reference