Real-Time Whole-Genome Sequencing for Routine Typing, Surveillance, and Outbreak Detection of Verotoxigenic Escherichia coli

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VFDB 2019: a comparative pathogenomic platform with an interactive web interface (2018, background): “Several other online resources for bacterial genomic analysis also provide VF screening services, such as PATRIC (19), VRprofile (20) and VirulenceFinder (21).”
In Silico Genotyping of Escherichia coli Isolates for Extraintestinal Virulence Genes by Use of Whole-Genome Sequencing Data (2020, background): “This study’s objective was to enhance the ExPEC-specific virulence gene database of the established web 397 tool VirulenceFinder (9), thereby allowing enhanced in silico virulence genotyping of E.”
Solving the Problem of Comparing Whole Bacterial Genomes across Different Sequencing Platforms (2014, background): “[24] are warranted, but if validated the current or modified procedures may greatly enhance our ability to compare data produced using different sequencing technologies and also provide further comparability with future technologies.”
Towards a genomics-informed, real-time, global pathogen surveillance system (2017, background): “Most transmission-focused investigations to date have been retrospective, with only a subset unfolding in real time, as cases are diagnosed [33] [34] [35] [36] [37] .”