Search Results - "Bentley, D"

pyseer: a comprehensive tool for microbial pangenome-wide association studies by Lees, John A, Galardini, Marco, Bentley, Stephen D, Weiser, Jeffrey N, Corander, Jukka

“…Abstract Summary Genome-wide association studies (GWAS) in microbes have different challenges to GWAS in eukaryotes. These have been addressed by a number of…”
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Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins by Croucher, Nicholas J, Page, Andrew J, Connor, Thomas R, Delaney, Aidan J, Keane, Jacqueline A, Bentley, Stephen D, Parkhill, Julian, Harris, Simon R

“…The emergence of new sequencing technologies has facilitated the use of bacterial whole genome alignments for evolutionary studies and outbreak analyses. These…”
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Bayesian inference of ancestral dates on bacterial phylogenetic trees by Didelot, Xavier, Croucher, Nicholas J, Bentley, Stephen D, Harris, Simon R, Wilson, Daniel J

“…Abstract The sequencing and comparative analysis of a collection of bacterial genomes from a single species or lineage of interest can lead to key insights…”
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Producing polished prokaryotic pangenomes with the Panaroo pipeline by Tonkin-Hill, Gerry, MacAlasdair, Neil, Ruis, Christopher, Weimann, Aaron, Horesh, Gal, Lees, John A., Gladstone, Rebecca A., Lo, Stephanie, Beaudoin, Christopher, Floto, R. Andres, Frost, Simon D.W., Corander, Jukka, Bentley, Stephen D., Parkhill, Julian

“…Abstract Population-level comparisons of prokaryotic genomes must take into account the substantial differences in gene content resulting from horizontal gene…”
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Fast hierarchical Bayesian analysis of population structure by Tonkin-Hill, Gerry, Lees, John A, Bentley, Stephen D, Frost, Simon D W, Corander, Jukka

“…We present fastbaps, a fast solution to the genetic clustering problem. Fastbaps rapidly identifies an approximate fit to a Dirichlet process mixture model…”
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Horizontal DNA Transfer Mechanisms of Bacteria as Weapons of Intragenomic Conflict by Croucher, Nicholas J, Mostowy, Rafal, Wymant, Christopher, Turner, Paul, Bentley, Stephen D, Fraser, Christophe

“…Horizontal DNA transfer (HDT) is a pervasive mechanism of diversification in many microbial species, but its primary evolutionary role remains controversial…”
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Methicillin-resistant Staphylococcus aureus emerged long before the introduction of methicillin into clinical practice by Harkins, Catriona P, Pichon, Bruno, Doumith, Michel, Parkhill, Julian, Westh, Henrik, Tomasz, Alexander, de Lencastre, Herminia, Bentley, Stephen D, Kearns, Angela M, Holden, Matthew T G

“…The spread of drug-resistant bacterial pathogens poses a major threat to global health. It is widely recognised that the widespread use of antibiotics has…”
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Routine use of microbial whole genome sequencing in diagnostic and public health microbiology by Köser, Claudio U, Ellington, Matthew J, Cartwright, Edward J P, Gillespie, Stephen H, Brown, Nicholas M, Farrington, Mark, Holden, Matthew T G, Dougan, Gordon, Bentley, Stephen D, Parkhill, Julian, Peacock, Sharon J

“…According to the current diagnostic paradigm for Mycobacterium tuberculosis complex (MTBC), clinical samples (usually sputum) are first analysed using smear…”
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Genomic Epidemiology of Gonococcal Resistance to Extended-Spectrum Cephalosporins, Macrolides, and Fluoroquinolones in the United States, 2000–2013 by Grad, Yonatan H., Harris, Simon R., Kirkcaldy, Robert D., Green, Anna G., Marks, Debora S., Bentley, Stephen D., Trees, David, Lipsitch, Marc

“…Background. Treatment of Neisseria gonorrhoeae infection is empirical and based on population-wide susceptibilities. Increasing antimicrobial resistance…”
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Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis by Skwark, Marcin J, Croucher, Nicholas J, Puranen, Santeri, Chewapreecha, Claire, Pesonen, Maiju, Xu, Ying Ying, Turner, Paul, Harris, Simon R, Beres, Stephen B, Musser, James M, Parkhill, Julian, Bentley, Stephen D, Aurell, Erik, Corander, Jukka

“…Recent advances in the scale and diversity of population genomic datasets for bacteria now provide the potential for genome-wide patterns of co-evolution to be…”
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The Economic Impact of Space Weather: Where Do We Stand? by Eastwood, J. P., Biffis, E., Hapgood, M. A., Green, L., Bisi, M. M., Bentley, R. D., Wicks, R., McKinnell, L.‐A., Gibbs, M., Burnett, C.

“…Space weather describes the way in which the Sun, and conditions in space more generally, impact human activity and technology both in space and on the ground…”
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Population genomics of post-vaccine changes in pneumococcal epidemiology by Croucher, Nicholas J, Finkelstein, Jonathan A, Pelton, Stephen I, Mitchell, Patrick K, Lee, Grace M, Parkhill, Julian, Bentley, Stephen D, Hanage, William P, Lipsitch, Marc

“…Nicholas Croucher and colleagues report whole-genome sequencing of 616 asymptomatically carried Streptococcus pneumoniae , a major cause of pneumonia,…”
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Fit testing troubles? by Shah, K., Bentley, D.

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Physiological Differences Between Cycling and Running: Lessons from Triathletes by Millet, Gregoire P., Vleck, V. E., Bentley, D. J.

“…The purpose of this review was to provide a synopsis of the literature concerning the physiological differences between cycling and running. By comparing…”
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Genomic evolution of Neisseria gonorrhoeae since the preantibiotic era (1928-2013): antimicrobial use/misuse selects for resistance and drives evolution by Golparian, Daniel, Harris, Simon R, Sánchez-Busó, Leonor, Hoffmann, Steen, Shafer, William M, Bentley, Stephen D, Jensen, Jörgen S, Unemo, Magnus

“…Multidrug-resistant Neisseria gonorrhoeae strains are prevalent, threatening gonorrhoea treatment globally, and understanding of emergence, evolution, and…”
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Sequence element enrichment analysis to determine the genetic basis of bacterial phenotypes by Lees, John A., Vehkala, Minna, Välimäki, Niko, Harris, Simon R., Chewapreecha, Claire, Croucher, Nicholas J., Marttinen, Pekka, Davies, Mark R., Steer, Andrew C., Tong, Steven Y. C., Honkela, Antti, Parkhill, Julian, Bentley, Stephen D., Corander, Jukka

“…Bacterial genomes vary extensively in terms of both gene content and gene sequence. This plasticity hampers the use of traditional SNP-based methods for…”
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Polyoxazoline: Chemistry, Properties, and Applications in Drug Delivery by Viegas, Tacey X, Bentley, Michael D, Harris, J. Milton, Fang, Zhihao, Yoon, Kunsang, Dizman, Bekir, Weimer, Rebecca, Mero, Anna, Pasut, Gianfranco, Veronese, Francesco M

“…Polyoxazoline polymers with methyl (PMOZ), ethyl (PEOZ), and propyl (PPOZ) side chains were prepared by the living cationic polymerization method and purified…”
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Clinical development of a poly(2-oxazoline) (POZ) polymer therapeutic for the treatment of Parkinson’s disease – Proof of concept of POZ as a versatile polymer platform for drug development in multiple therapeutic indications by Moreadith, Randall W., Viegas, Tacey X., Bentley, Michael D., Harris, J. Milton, Fang, Zhihao, Yoon, Kunsang, Dizman, Bekir, Weimer, Rebecca, Rae, Brendan P., Li, Xiuling, Rader, Christoph, Standaert, David, Olanow, Warren

“…[Display omitted] The potential of poly (2-oxazoline) or POZ to be a versatile and broad based platform for drug delivery with wide utility in multiple…”
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Genome-wide association study identifies vitamin B₅ biosynthesis as a host specificity factor in Campylobacter by Sheppard, Samuel K., Didelot, Xavier, Meric, Guillaume, Torralbo, Alicia, Jolley, Keith A., Kelly, David J., Bentley, Stephen D., Maiden, Martin C. J., Parkhill, Julian, Falush, Daniel

“…Genome-wide association studies have the potential to identify causal genetic factors underlying important phenotypes but have rarely been performed in…”
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Diversification of bacterial genome content through distinct mechanisms over different timescales by Croucher, Nicholas J., Coupland, Paul G., Stevenson, Abbie E., Callendrello, Alanna, Bentley, Stephen D., Hanage, William P.

“…Bacterial populations often consist of multiple co-circulating lineages. Determining how such population structures arise requires understanding what drives…”
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