Author: Liam P. Shaw

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Preprints

A phylogeny-based metric for estimating changes in transmissibility from recurrent mutations in SARS-CoV-2

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No evidence for increased transmissibility from recurrent mutations in SARS-CoV-2

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Comparison of long-read sequencing technologies in the hybrid assembly of complex bacterial genomes

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Genomic diversity affects the accuracy of bacterial SNP calling pipelines

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Modelling microbiome recovery after antibiotics using a stability landscape framework

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Discordant bioinformatic predictions of antimicrobial resistance from whole-genome sequencing data of bacterial isolates: An inter-laboratory study

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The phylogenetic range of bacterial and viral pathogens of vertebrates

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The impact of sequencing depth on the inferred taxonomic composition and AMR gene content of metagenomic samples

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Niche and local geography shape the pangenome of wastewater- and livestock-associated Enterobacteriaceae

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Whole genome sequencing Mycobacterium tuberculosis directly from sputum identifies more genetic diversity than sequencing from culture

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Flanker: a tool for comparative genomics of gene flanking regions

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Role of the mobilome in the global dissemination of the carbapenem resistance gene blaNDM

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Children with cystic fibrosis are infected with multiple subpopulations of Mycobacterium abscessus with different antimicrobial resistance profiles

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Genomic network analysis of an environmental and livestock IncF plasmid population

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Hospital outbreak of carbapenem-resistant Enterobacteriales associated with an OXA-48 plasmid carried mostly by Escherichia coli ST399

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