Towards a genomics-informed, real-time, global pathogen surveillance system
Abstract The recent Ebola and Zika epidemics demonstrate the need for the continuous
surveillance, rapid diagnosis and real-time tracking of emerging infectious diseases. Fast …
surveillance, rapid diagnosis and real-time tracking of emerging infectious diseases. Fast …
[HTML][HTML] Next-generation sequencing technologies and their application to the study and control of bacterial infections
J Besser, HA Carleton, P Gerner-Smidt… - Clinical microbiology …, 2018 - Elsevier
Background With the efficiency and the decreasing cost of next-generation sequencing, the
technology is being rapidly introduced into clinical and public health laboratory practice …
technology is being rapidly introduced into clinical and public health laboratory practice …
In Silico Genoty** of Escherichia coli Isolates for Extraintestinal Virulence Genes by Use of Whole-Genome Sequencing Data
AM Malberg Tetzschner, JR Johnson… - Journal of clinical …, 2020 - Am Soc Microbiol
ABSTRACT Extraintestinal pathogenic Escherichia coli (ExPEC) is the leading cause in
humans of urinary tract infection and bacteremia. The previously published web tool …
humans of urinary tract infection and bacteremia. The previously published web tool …
VFDB 2019: a comparative pathogenomic platform with an interactive web interface
The virulence factor database (VFDB, http://www. mgc. ac. cn/VFs/) is devoted to providing
the scientific community with a comprehensive warehouse and online platform for …
the scientific community with a comprehensive warehouse and online platform for …
PointFinder: a novel web tool for WGS-based detection of antimicrobial resistance associated with chromosomal point mutations in bacterial pathogens
Background Antibiotic resistance is a major health problem, as drugs that were once highly
effective no longer cure bacterial infections. WGS has previously been shown to be an …
effective no longer cure bacterial infections. WGS has previously been shown to be an …
MicroScope: an integrated platform for the annotation and exploration of microbial gene functions through genomic, pangenomic and metabolic comparative analysis
Large-scale genome sequencing and the increasingly massive use of high-throughput
approaches produce a vast amount of new information that completely transforms our …
approaches produce a vast amount of new information that completely transforms our …
Whole-genome sequencing of bacterial pathogens: the future of nosocomial outbreak analysis
Outbreaks of multidrug-resistant bacteria present a frequent threat to vulnerable patient
populations in hospitals around the world. Intensive care unit (ICU) patients are particularly …
populations in hospitals around the world. Intensive care unit (ICU) patients are particularly …
The use of next generation sequencing for improving food safety: Translation into practice
Abstract Next Generation Sequencing (NGS) combined with powerful bioinformatic
approaches are revolutionising food microbiology. Whole genome sequencing (WGS) of …
approaches are revolutionising food microbiology. Whole genome sequencing (WGS) of …
Rapid and Easy In Silico Seroty** of Escherichia coli Isolates by Use of Whole-Genome Sequencing Data
KG Joensen, AMM Tetzschner, A Iguchi… - Journal of clinical …, 2015 - Am Soc Microbiol
Accurate and rapid ty** of pathogens is essential for effective surveillance and outbreak
detection. Conventional seroty** of Escherichia coli is a delicate, laborious, time …
detection. Conventional seroty** of Escherichia coli is a delicate, laborious, time …
Solving the problem of comparing whole bacterial genomes across different sequencing platforms
Whole genome sequencing (WGS) shows great potential for real-time monitoring and
identification of infectious disease outbreaks. However, rapid and reliable comparison of …
identification of infectious disease outbreaks. However, rapid and reliable comparison of …