ArticleMicrobial genomics2021
Validation strategy of a bioinformatics whole genome sequencing workflow for Shiga toxin-producing
Article in Microbial genomics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
What it found
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Who cites it
36 citing papers in PubMed.
- Fluoroquinolone resistance in Escherichia coli in the broiler production chain: the role of parent stock and hatchery.Poultry science · 2026Article
- A WGS workflow for identifying genetically modified and foodborne-pathogenicFood chemistry. Molecular sciences · 2026Article
- Artificial intelligence for antimicrobial resistance: advancing reproducibility, interpretability, and clinical deployment.Briefings in bioinformatics · 2026Review
- Pathogenic potential and phylogenomic analysis ofMicrobial genomics · 2026Article
- Genomic characterization of non-CC398 methicillin-resistantFrontiers in public health · 2026Article
- MiST: rapid, accurate and flexible (core-genome) multi-locus sequence typing (MLST) allele calling from draft genomes.BMC genomics · 2025Article
- Genotypic Characterization of Virulence Factors in Extended-Spectrum Beta-Lactamase (ESBL)-ProducingAntibiotics (Basel, Switzerland) · 2025Article
- Metagenomics-based tracing of genetically modified microorganism contaminations in commercial fermentation products.Food chemistry. Molecular sciences · 2025Article
- Development of a Simple and Accurate Molecular Protocol Using 16SrRNA for Species-Specific Identification ofPathogens (Basel, Switzerland) · 2025Article
- Galaxy @Sciensano: a comprehensive bioinformatics portal for genomics-based microbial typing, characterization, and outbreak detection.BMC genomics · 2025Article
- Beyond clinical genomics: addressing critical gaps in One Health AMR surveillance.Frontiers in microbiology · 2025Article
- Mapping the spread of fluoroquinolone resistance: continued presence of non-susceptibleFrontiers in veterinary science · 2025Article
- Assessing the authenticity and purity of a commercialFrontiers in microbiology · 2025Article
- Overcoming challenges in metagenomic AMR surveillance with nanopore sequencing: a case study on fluoroquinolone resistance.Frontiers in microbiology · 2025Article
- Risk Factor Analysis for Occurrence of Linezolid-Resistant Bacteria in the Digestive and Respiratory Tract of Food-Producing Animals in Belgium: A Pilot Study.Antibiotics (Basel, Switzerland) · 2024Article
- First Isolation of the Heteropathotype Shiga Toxin-Producing and Extra-Intestinal Pathogenic (STEC-ExPEC)International journal of molecular sciences · 2024Article
- Public health implementation of pathogen genomics: the role for accreditation and application of ISO standards.Microbial genomics · 2023Article
- Whole-Genome Sequencing-Based Screening of MRSA in Patients and Healthcare Workers in Public Hospitals in Benin.Microorganisms · 2023Article
- Retrospective surveillance of viableFrontiers in microbiology · 2023Article
- Transforming Shiga toxin-producingFrontiers in microbiology · 2023Article
Corrections and comments
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Authors and funding
13 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Whole genome sequencing (WGS) enables complete characterization of bacterial pathogenic isolates at single nucleotide resolution, making it the ultimate tool for routine surveillance and outbreak investigation. The lack of standardization, and the variation regarding bioinformatics workflows and parameters, however, complicates interoperability among (inter)national laboratories. We present a validation strategy applied to a bioinformatics workflow for Illumina data that performs complete characterization of Shiga toxin-producing
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.