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Conservation of vaccine antigen sequences encoded by sequenced strains of Streptococcus equi subsp. equi.

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Frosth S. et al, (2023), Equine veterinary journal, 55, 92 - 101

Deep clustering of bacterial tree images.

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Hayati M. et al, (2022), Philosophical transactions of the Royal Society of London. Series B, Biological sciences, 377

Genomic population structures of microbial pathogens.

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Holt KE. et al, (2022), Philosophical transactions of the Royal Society of London. Series B, Biological sciences, 377

Phylogenetic and phylodynamic approaches to understanding and combating the early SARS-CoV-2 pandemic

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Attwood SW. et al, (2022), Nature Reviews Genetics, 23, 547 - 562

Europe-wide expansion and eradication of multidrug-resistant Neisseria gonorrhoeae lineages: a genomic surveillance study.

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Sánchez-Busó L. et al, (2022), The Lancet. Microbe, 3, e452 - e463

Spatiotemporal invasion dynamics of SARS-CoV-2 lineage B.1.1.7 emergence

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Kraemer MUG. et al, (2021), Science, 373, 889 - 895

Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK

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du Plessis L. et al, (2021), Science, 371, 708 - 712

Integrated chromosomal and plasmid sequence analyses reveal diverse modes of carbapenemase gene spread among Klebsiella pneumoniae.

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David S. et al, (2020), Proceedings of the National Academy of Sciences of the United States of America, 117, 25043 - 25054

Epidemic of carbapenem-resistant Klebsiella pneumoniae in Europe is driven by nosocomial spread

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David S. et al, (2019), Nature Microbiology, 4, 1919 - 1929

PANINI: Pangenome Neighbour Identification for Bacterial Populations

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Abudahab K. et al, (2019), Microbial Genomics, 5

Genomic epidemiology of the UK outbreak of the emerging human fungal pathogen Candida auris

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Rhodes J. et al, (2018), Emerging Microbes & Infections, 7, 1 - 12

The phylogeography and incidence of multi-drug resistant typhoid fever in sub-Saharan Africa

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Park SE. et al, (2018), Nature Communications, 9

Gene exchange drives the ecological success of a multi-host bacterial pathogen

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Richardson EJ. et al, (2018), Nature Ecology & Evolution, 2, 1468 - 1478

Public health surveillance of multidrug-resistant clones of Neisseria gonorrhoeae in Europe: a genomic survey

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Harris SR. et al, (2018), The Lancet Infectious Diseases, 18, 758 - 768

Recent Asian origin of chytrid fungi causing global amphibian declines

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O’Hanlon SJ. et al, (2018), Science, 360, 621 - 627

Phandango: an interactive viewer for bacterial population genomics

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Hadfield J. et al, (2018), Bioinformatics, 34, 292 - 293

Genomic epidemiology of Candida auris within the United Kingdom, and the future of whole genome sequencing typing

Conference paper

Rhodes J. et al, (2018), MEDICAL MYCOLOGY, 56, S28 - S28

Integrated view of Vibrio cholerae in the Americas

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Domman D. et al, (2017), Science, 358, 789 - 793

Pneumococcal Capsule Synthesis Locus cps as Evolutionary Hotspot with Potential to Generate Novel Serotypes by Recombination

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Mostowy RJ. et al, (2017), Molecular Biology and Evolution, 34, 2537 - 2554

Species Mash-up

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Argimón S. and Aanensen DM., (2016), Nature Reviews Microbiology, 14, 730 - 730

Microreact: visualizing and sharing data for genomic epidemiology and phylogeography

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Argimón S. et al, (2016), Microbial Genomics, 2

Genomic Analysis and Comparison of Two Gonorrhea Outbreaks

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Didelot X. et al, (2016), mBio, 7

EpiCollect+: linking smartphones to web applications for complex data collection projects

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Aanensen DM. et al, (2014), F1000Research, 3, 199 - 199

OutbreakTools: A new platform for disease outbreak analysis using the R software

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Jombart T. et al, (2014), Epidemics, 7, 28 - 34

Dense genomic sampling identifies highways of pneumococcal recombination

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Chewapreecha C. et al, (2014), Nature Genetics, 46, 305 - 309

Melioidosis Caused byBurkholderia pseudomalleiin Drinking Water, Thailand, 2012

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Limmathurotsakul D. et al, (2014), Emerging Infectious Diseases, 20, 265 - 268

Hierarchical and Spatially Explicit Clustering of DNA Sequences with BAPS Software

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Cheng L. et al, (2013), Molecular Biology and Evolution, 30, 1224 - 1228

Mapping the Global Emergence of Batrachochytrium dendrobatidis, the Amphibian Chytrid Fungus

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Olson DH. et al, (2013), PLoS ONE, 8, e56802 - e56802

A Single Multilocus Sequence Typing (MLST) Scheme for Seven Pathogenic Leptospira Species

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Boonsilp S. et al, (2013), PLoS Neglected Tropical Diseases, 7, e1954 - e1954

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