Author

Katie M.V. Hopkins

University of OxfordORCID 0009-0000-0063-2575Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:statistical model· 2 Organism:bacteria (other)· 1 Research Focus:benchmarking· 1 Assay:long-read sequencing· 1 Research Focus:phylogenetics / evolution· 1 Research Focus:variant calling· 1 Assay:whole-genome sequencing· 1

Frequent Co-Authors

Ann Sarah WalkeriD· 2 shared Nicole E StoesseriD· 2 shared Alice LeddaiD· 1 shared Bernadette YoungiD· 1 shared Carlos RedingiD· 1 shared Christopher R. JonesiD· 1 shared Colin Stewart BrowniD· 1 shared David F. WilliamsiD· 1 shared

Activity by Year

2026-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 30 mutual co-author links

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2 shared papersGenomics

Ann Sarah WalkerORCID

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2 papers

Recent·Most cited

OxBreaker: species-agnostic pipeline for the analysis of outbreaks using nanopore sequencing

Carlos Reding, Katie M.V. Hopkins, Matthew Colpus, Nicholas D. Sanderson, Jessica Gentry, Sarah J Oakley, Mark Robin Campbell, Drosos E. Karageorgopoulos, Katie JM Jeffery, David W. Eyre, Philip Bejon, Nicole E Stoesser, Ann Sarah Walker, Bernadette Young

OxBreaker is a species-agnostic pipeline for analyzing bacterial and plasmid outbreaks using nanopore sequencing, offering high accuracy and accessibility for real-time genomic surveillance.

bioRxiv · Mar 19, 2026 · PreprintGenomics

Nanopore long-read only genome assembly of clinical Enterobacterales isolates is complete and accurate

Dorottya Nagy, Valentina Pennetta, Gillian Rodger, Katie M.V. Hopkins, Christopher R. Jones, Susan Hopkins, Derrick W. Crook, Ann Sarah Walker, Julie V. Robotham, Katie L. Hopkins, Alice Ledda, David F. Williams, Russell Hope, Colin Stewart Brown, Nicole E Stoesser, Samuel Lipworth

This study evaluates Nanopore long-read only genome assembly for clinical Enterobacterales isolates, finding Autocycler with Medaka polishing achieves accuracy comparable to hybrid assemblies.

Microbial Genomics · Feb 27, 2026Peer-reviewedBioinformatics