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2024

Exploring real-world vancomycin target attainment in neonatal intensive care in the context of Staphylococcal infections: a retrospective observational cohort study.

Blank, M., Wilson, R. C., Wan, Y., Peters, J., Davies, F., Tyszczuk, L., . . . Rawson, T. M. (2024). Exploring real-world vancomycin target attainment in neonatal intensive care in the context of Staphylococcal infections: a retrospective observational cohort study.. The Journal of infection, 89(2), 106191. doi:10.1016/j.jinf.2024.106191

DOI
10.1016/j.jinf.2024.106191
Journal article

Integrated Analysis of Patient Networks and Plasmid Genomes to Investigate a Regional, Multispecies Outbreak of Carbapenemase-Producing Enterobacterales Carrying Both blaIMP and mcr-9 Genes.

Wan, Y., Myall, A. C., Boonyasiri, A., Bolt, F., Ledda, A., Mookerjee, S., . . . Davies, F. (2024). Integrated Analysis of Patient Networks and Plasmid Genomes to Investigate a Regional, Multispecies Outbreak of Carbapenemase-Producing Enterobacterales Carrying Both blaIMP and mcr-9 Genes.. The Journal of infectious diseases, 230(1), e159-e170. doi:10.1093/infdis/jiae019

DOI
10.1093/infdis/jiae019
Journal article

Running a queer- and trans-inclusive microbiology faculty search

DOI
10.32942/x2j310
Preprint

Clinical outcomes of <i>Staphylococcus capitis</i> isolation from neonates, England, 2015-2021: a retrospective case-control study.

Yuan, J. -M., Nugent, C., Wilson, A., Verlander, N. Q., Alexander, E., Fleming, P., . . . Demirjian, A. (2024). Clinical outcomes of <i>Staphylococcus capitis</i> isolation from neonates, England, 2015-2021: a retrospective case-control study.. Archives of disease in childhood. Fetal and neonatal edition, 109(2), 128-134. doi:10.1136/archdischild-2023-325887

DOI
10.1136/archdischild-2023-325887
Journal article

Integrated analysis of patient networks and plasmid genomes reveals a regional, multi-species outbreak of carbapenemase-producing Enterobacterales carrying both blaIMP and mcr-9 genes.

Wan, Y., Myall, A. C., Boonyasiri, A., Bolt, F., Ledda, A., Mookerjee, S., . . . Davies, F. (2024). Integrated analysis of patient networks and plasmid genomes reveals a regional, multi-species outbreak of carbapenemase-producing Enterobacterales carrying both blaIMP and mcr-9 genes.. The Journal of infectious diseases, jiae019. doi:10.1093/infdis/jiae019

DOI
10.1093/infdis/jiae019
Journal article

2023

Detection, survival, and persistence of Staphylococcus capitis NRCS-A in neonatal units in England.

Moore, G., Barry, A., Carter, J., Ready, J., Wan, Y., Elsayed, M., . . . UK Health Security Agency Staphylococcus capitis Environment Task and Finish Group. (2023). Detection, survival, and persistence of Staphylococcus capitis NRCS-A in neonatal units in England.. The Journal of hospital infection, 140, 8-14. doi:10.1016/j.jhin.2023.06.030

DOI
10.1016/j.jhin.2023.06.030
Journal article

IS&lt;i&gt;1&lt;/i&gt;-related large-scale deletion of chromosomal regions harbouring the oxygen-insensitive nitroreductase gene &lt;i&gt;nfsB&lt;/i&gt; causes nitrofurantoin heteroresistance in &lt;i&gt;Escherichia coli&lt;/i&gt;.

Wan, Y., Sabnis, A., Mumin, Z., Potterill, I., Jauneikaite, E., Brown, C. S., . . . Sriskandan, S. (2023). IS&lt;i&gt;1&lt;/i&gt;-related large-scale deletion of chromosomal regions harbouring the oxygen-insensitive nitroreductase gene &lt;i&gt;nfsB&lt;/i&gt; causes nitrofurantoin heteroresistance in &lt;i&gt;Escherichia coli&lt;/i&gt;.. Microbial genomics, 9(9). doi:10.1099/mgen.0.001102

DOI
10.1099/mgen.0.001102
Journal article

Whole-genome sequencing reveals widespread presence of Staphylococcus capitis NRCS-A clone in neonatal units across the United Kingdom.

Wan, Y., Ganner, M., Mumin, Z., Ready, D., Moore, G., Potterill, I., . . . Pichon, B. (2023). Whole-genome sequencing reveals widespread presence of Staphylococcus capitis NRCS-A clone in neonatal units across the United Kingdom.. The Journal of infection, 87(3), 210-219. doi:10.1016/j.jinf.2023.06.020

DOI
10.1016/j.jinf.2023.06.020
Journal article

RECONSTRUCTING AND PREDICTING THE SPATIAL EVOLUTION OF CARBAPENEMASE-PRODUCING ENTEROBACTERIACEAE OUTBREAKS

Myall, A., Wiedermann, M., Vasikasin, P., Klamser, P., Wan, Y., Zachariae, A., . . . Brockmann, D. (2023). RECONSTRUCTING AND PREDICTING THE SPATIAL EVOLUTION OF CARBAPENEMASE-PRODUCING ENTEROBACTERIACEAE OUTBREAKS. International Journal of Infectious Diseases, 130, S65. doi:10.1016/j.ijid.2023.04.163

DOI
10.1016/j.ijid.2023.04.163
Journal article

Need for standardized vancomycin dosing for coagulase-negative staphylococci in hospitalized infants.

Harvey, E. J., Ashiru-Oredope, D., Hill, L. F., Demirjian, A., & United Kingdom Health Security Agency Staphylococcus capitis Incident Management Team. (2023). Need for standardized vancomycin dosing for coagulase-negative staphylococci in hospitalized infants.. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases, 29(1), 10-12. doi:10.1016/j.cmi.2022.09.016

DOI
10.1016/j.cmi.2022.09.016
Journal article

2022

Improved contact tracing using network analysis and spatial-temporal proximity

Myall, A., Peach, R., Wan, Y., Mookerjee, S., Jauneikaite, E., Bolt, F., . . . Barahona, M. (2022). Improved contact tracing using network analysis and spatial-temporal proximity. International Journal of Infectious Diseases, 116, S20. doi:10.1016/j.ijid.2021.12.047

DOI
10.1016/j.ijid.2021.12.047
Journal article

2021

Alterations in chromosomal genes <i>nfsA</i>, <i>nfsB</i>, and <i>ribE</i> are associated with nitrofurantoin resistance in <i>Escherichia coli</i> from the United Kingdom.

Wan, Y., Mills, E., Leung, R. C. Y., Vieira, A., Zhi, X., Croucher, N. J., . . . Sriskandan, S. (2021). Alterations in chromosomal genes <i>nfsA</i>, <i>nfsB</i>, and <i>ribE</i> are associated with nitrofurantoin resistance in <i>Escherichia coli</i> from the United Kingdom.. Microbial genomics, 7(12). doi:10.1099/mgen.0.000702

DOI
10.1099/mgen.0.000702
Journal article

Characterising contact in disease outbreaks via a network model of spatial-temporal proximity

DOI
10.1101/2021.04.07.21254497
Preprint

2020

GeneMates: an R package for Detecting Horizontal Gene Co-transfer between Bacteria Using Gene-gene Associations Controlled for Population Structure

DOI
10.1101/2020.02.29.970970
Preprint

2019

Search Effectiveness in Nonredundant Sequence Databases: Assessments and Solutions.

Chen, Q., Zhang, X., Wan, Y., Zobel, J., & Verspoor, K. (2019). Search Effectiveness in Nonredundant Sequence Databases: Assessments and Solutions.. Journal of computational biology : a journal of computational molecular cell biology, 26(6), 605-617. doi:10.1089/cmb.2018.0198

DOI
10.1089/cmb.2018.0198
Journal article

2017

Comparative Analysis of Sequence Clustering Methods for Deduplication of Biological Databases

Chen, Q., Wan, Y., Zhang, X., Lei, Y., Zobel, J., & Verspoor, K. (2017). Comparative Analysis of Sequence Clustering Methods for Deduplication of Biological Databases. Journal of Data and Information Quality, 9(3), 1-27. doi:10.1145/3131611

DOI
10.1145/3131611
Journal article

2016

Evaluation of CD-HIT for constructing non-redundant databases

Qingyu Chen., Yu Wan., Yang Lei., Zobel, J., & Verspoor, K. (2016). Evaluation of CD-HIT for constructing non-redundant databases. In 2016 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). IEEE. doi:10.1109/bibm.2016.7822604

DOI
10.1109/bibm.2016.7822604
Conference Paper

2015