Rapid whole-genome sequencing for detection and characterization of microorganisms directly from clinical samples (Q37546541)

20 August 2017

Rapid whole-genome sequencing for detection and characterization of microorganisms directly from clinical samples (English)

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20 August 2017

whole genome sequencing

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based on heuristic

inferred from title

author

Thomas Sicheritz-Ponten

object named as

Thomas Sicheritz-Ponten

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Frank Møller Aarestrup

object named as

Frank M Aarestrup

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20 August 2017

Henrik Hasman

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Ole Lund

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Dhany Saputra

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20 August 2017

Christina Aaby Svendsen

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20 August 2017

Niels Frimodt-Møller

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20 August 2017

language of work or name

English

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publication date

30 October 2013

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Journal of Clinical Microbiology

20 August 2017

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20 August 2017

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20 August 2017

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20 August 2017

139-146

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A culture-independent sequence-based metagenomics approach to the investigation of an outbreak of Shiga-toxigenic Escherichia coli O104:H4.

20 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Whole-genome sequences of Chlamydia trachomatis directly from clinical samples without culture

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

snpTree--a web-server to identify and construct SNP trees from whole genome sequence data

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Genotyping using whole-genome sequencing is a realistic alternative to surveillance based on phenotypic antimicrobial susceptibility testing

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Rapid whole-genome sequencing for investigation of a suspected tuberculosis outbreak

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

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

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

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

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Integrating genome-based informatics to modernize global disease monitoring, information sharing, and response

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Routine use of microbial whole genome sequencing in diagnostic and public health microbiology

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Transforming clinical microbiology with bacterial genome sequencing.

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

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

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance

23 August 2017

1 reference

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Evolutionary dynamics of Staphylococcus aureus during progression from carriage to disease

23 August 2017

1 reference

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Staphylococcus aureus CC398: host adaptation and emergence of methicillin resistance in livestock

23 August 2017

1 reference

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Multilocus sequence typing of total-genome-sequenced bacteria

23 August 2017

1 reference

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Applications of MALDI-TOF mass spectrometry in clinical diagnostic microbiology

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Assessing diversity of the female urine microbiota by high throughput sequencing of 16S rDNA amplicons

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Population genetics of Vibrio cholerae from Nepal in 2010: evidence on the origin of the Haitian outbreak

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Prospective genomic characterization of the German enterohemorrhagic Escherichia coli O104:H4 outbreak by rapid next generation sequencing technology

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Three-hour molecular detection of Campylobacter, Salmonella, Yersinia, and Shigella species in feces with accuracy as high as that of culture

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Clinical significance of Aerococcus urinae: a retrospective review

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Culture-independent identification of pathogenic bacteria and polymicrobial infections in the genitourinary tract of renal transplant recipients

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Aerococcus urinae in urinary tract infections

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Prevalence of Gardnerella vaginalis in the urinary tract

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Sequences of multiple bacterial genomes and a Chlamydia trachomatis genotype from direct sequencing of DNA derived from a vaginal swab diagnostic specimen.

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Identification of acquired antimicrobial resistance genes

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

Hidden pathogens uncovered: metagenomic analysis of urinary tract infections.

25 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3911411

1 September 2018

Identifiers

DOI

10.1128/JCM.02452-13

1 reference

20 August 2017

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20 August 2017

PubMed publication ID

24172157

1 reference