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Castanet: a pipeline for rapid analysis of targeted multi-pathogen genomic data.
Published in:
Bioinformatics, 2024, v. 40, n. 10, p. 1, doi. 10.1093/bioinformatics/btae591
By:
- Mayne, Richard;
- Secret, Shannah;
- Geoghegan, Cyndi;
- Trebes, Amy;
- Kean, Kai;
- Reid, Kaitlin;
- Lin, Gu-Lung;
- Ansari, M Azim;
- Cesare, Mariateresa de;
- Bonsall, David;
- Elliott, Ivo;
- Piazza, Paolo;
- Brown, Anthony;
- Bray, James;
- Knight, Julian C;
- Harvala, Heli;
- Breuer, Judith;
- Simmonds, Peter;
- Bowden, Rory J;
- Golubchik, Tanya
Publication type:
Article
Evolutionary Trade-Offs Underlie the Multi-faceted Virulence of Staphylococcus aureus.
Published in:
PLoS Biology, 2015, v. 13, n. 9, p. 1, doi. 10.1371/journal.pbio.1002229
By:
- Laabei, Maisem;
- Uhlemann, Anne-Catrin;
- Lowy, Franklin D.;
- Austin, Eloise D.;
- Yokoyama, Maho;
- Ouadi, Khadija;
- Feil, Edward;
- Thorpe, Harry A.;
- Williams, Barnabas;
- Perkins, Mark;
- Peacock, Sharon J.;
- Clarke, Stephen R.;
- Dordel, Janina;
- Holden, Matthew;
- Votintseva, Antonina A.;
- Bowden, Rory;
- Crook, Derrick W.;
- Young, Bernadette C.;
- Wilson, Daniel J.;
- Recker, Mario
Publication type:
Article
Prolonged Zika Virus RNA Detection in Semen of Immunosuppressed Patient.
Published in:
2019
By:
- Petridou, Christina;
- Bonsall, David;
- Ahmed, Aleem;
- Roberts, Mark;
- Bell, Carolyn;
- de Cesare, Mariateresa;
- Bowden, Rory;
- Graham, Victoria;
- Bailey, Daniel;
- Simpson, Andrew;
- Aarons, Emma
Publication type:
journal article
Evaluation of Viremia Frequencies of a Novel Human Pegivirus by Using Bioinformatic Screening and PCR.
Published in:
2016
By:
- Bonsall, David;
- Gregory, William F.;
- Ip, Camilla L. C.;
- Donfield, Sharyne;
- Iles, James;
- Ansari, M. Azim;
- Piazza, Paolo;
- Trebes, Amy;
- Brown, Anthony;
- Frater, John;
- Pybus, Oliver G.;
- Goulder, Phillip;
- Klenerman, Paul;
- Bowden, Rory;
- Gomperts, Edward D.;
- Barnes, Eleanor;
- Kapoor, Amit;
- Sharp, Colin P.;
- Simmonds, Peter
Publication type:
journal article
Validation of an HIV whole genome sequencing method for HIV drug resistance testing in an Australian clinical microbiology laboratory.
Published in:
Journal of Medical Virology, 2023, v. 95, n. 12, p. 1, doi. 10.1002/jmv.29273
By:
- Jenkins, Frances;
- Le, Thomas;
- Farhat, Rima;
- Pinto, Angie;
- Anzari, Azim;
- Bonsall, David;
- Golubchik, Tanya;
- Bowden, Rory;
- Lee, Frederick J.;
- van Hal, Sebastiaan J.
Publication type:
Article
Dual RNA sequencing reveals dendritic cell reprogramming in response to typhoidal Salmonella invasion.
Published in:
Communications Biology, 2022, v. 5, n. 1, p. 1, doi. 10.1038/s42003-022-03038-z
By:
- Aulicino, Anna;
- Antanaviciute, Agne;
- Frost, Joe;
- Sousa Geros, Ana;
- Mellado, Esther;
- Attar, Moustafa;
- Jagielowicz, Marta;
- Hublitz, Philip;
- Sinz, Julia;
- Preciado-Llanes, Lorena;
- Napolitani, Giorgio;
- Bowden, Rory;
- Koohy, Hashem;
- Drakesmith, Hal;
- Simmons, Alison
Publication type:
Article
Severe infections emerge from commensal bacteria by adaptive evolution.
Published in:
eLife, 2017, p. 1, doi. 10.7554/eLife.30637
By:
- Young, Bernadette C.;
- Chieh-Hsi Wu;
- Gordon, N. Claire;
- Cole, Kevin;
- Pric, James R.;
- Liu, Elian;
- Sheppard, Anna E.;
- Perera, Sanuki;
- Charlesworth, Jane;
- Golubchik, Tanya;
- Iqbal, Zamin;
- Bowden, Rory;
- Massey, Ruth C.;
- Paul, John;
- Crook, Derrick W.;
- Peto, Timothy E.;
- Walker, A. Sarah;
- Llewelyn, Martin J.;
- Wyllie, David H.;
- Wilson, Daniel J.
Publication type:
Article
Viral genome wide association study identifies novel hepatitis C virus polymorphisms associated with sofosbuvir treatment failure.
Published in:
Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-25649-6
By:
- Smith, David A.;
- Fernandez-Antunez, Carlota;
- Magri, Andrea;
- Bowden, Rory;
- Chaturvedi, Nimisha;
- Fellay, Jacques;
- McLauchlan, John;
- Foster, Graham R.;
- Irving, William L.;
- STOP-HCV Consortium;
- Ball, Jonathan;
- Brainard, Diana;
- Burgess, Gary;
- Cooke, Graham;
- Dillon, John;
- Gore, Charles;
- Guha, Neil;
- Halford, Rachel;
- Herath, Cham;
- Holmes, Chris
Publication type:
Article
Publisher Correction: Distinct patterns of within-host virus populations between two subgroups of human respiratory syncytial virus.
Published in:
2021
By:
- Lin, Gu-Lung;
- Drysdale, Simon B.;
- Snape, Matthew D.;
- O'Connor, Daniel;
- Brown, Anthony;
- MacIntyre-Cockett, George;
- Mellado-Gomez, Esther;
- de Cesare, Mariateresa;
- Bonsall, David;
- Ansari, M. Azim;
- Öner, Deniz;
- Aerssens, Jeroen;
- Butler, Christopher;
- Bont, Louis;
- Openshaw, Peter;
- Martinón-Torres, Federico;
- Nair, Harish;
- Bowden, Rory;
- RESCEU Investigators;
- Campbell, Harry
Publication type:
Correction Notice
Distinct patterns of within-host virus populations between two subgroups of human respiratory syncytial virus.
Published in:
Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-25265-4
By:
- Lin, Gu-Lung;
- Drysdale, Simon B.;
- Snape, Matthew D.;
- O'Connor, Daniel;
- Brown, Anthony;
- MacIntyre-Cockett, George;
- Mellado-Gomez, Esther;
- de Cesare, Mariateresa;
- Bonsall, David;
- Ansari, M. Azim;
- Öner, Deniz;
- Aerssens, Jeroen;
- Butler, Christopher;
- Bont, Louis;
- Openshaw, Peter;
- Martinón-Torres, Federico;
- Nair, Harish;
- Bowden, Rory;
- RESCEU Investigators;
- Campbell, Harry
Publication type:
Article
The global dissemination of hospital clones of Enterococcus faecium.
Published in:
Genome Medicine, 2021, v. 13, n. 1, p. 1, doi. 10.1186/s13073-021-00868-0
By:
- van Hal, Sebastiaan J.;
- Willems, Rob J. L.;
- Gouliouris, Theodore;
- Ballard, Susan A.;
- Coque, Teresa M.;
- Hammerum, Anette M.;
- Hegstad, Kristin;
- Westh, Hendrik T.;
- Howden, Benjamin P.;
- Malhotra-Kumar, Surbhi;
- Werner, Guido;
- Yanagihara, Katsunori;
- Earl, Ashlee M.;
- Raven, Katherine E.;
- Corander, Jukka;
- Bowden, Rory;
- Enterococcal Group;
- Pinholt, Mette;
- Loens, Katherine;
- Xavier, Basil B.
Publication type:
Article
Pneumococcal genome sequencing tracks a vaccine escape variant formed through a multi-fragment recombination event.
Published in:
Nature Genetics, 2012, v. 44, n. 3, p. 352, doi. 10.1038/ng.1072
By:
- Golubchik, Tanya;
- Brueggemann, Angela B;
- Street, Teresa;
- Gertz, Robert E;
- Spencer, Chris C A;
- Ho, Thien;
- Giannoulatou, Eleni;
- Link-Gelles, Ruth;
- Harding, Rosalind M;
- Beall, Bernard;
- Peto, Tim E A;
- Moore, Matthew R;
- Donnelly, Peter;
- Crook, Derrick W;
- Bowden, Rory
Publication type:
Article
Lineage‐specific plasmid acquisition and the evolution of specialized pathogens in <italic>Bacillus thuringiensis</italic> and the <italic>Bacillus cereus</italic> group.
Published in:
Molecular Ecology, 2018, v. 27, n. 7, p. 1524, doi. 10.1111/mec.14546
By:
- Méric, Guillaume;
- Mageiros, Leonardos;
- Pascoe, Ben;
- Woodcock, Dan J.;
- Mourkas, Evangelos;
- Lamble, Sarah;
- Bowden, Rory;
- Jolley, Keith A.;
- Raymond, Ben;
- Sheppard, Samuel K.
Publication type:
Article
Targeted metagenomics reveals association between severity and pathogen co-detection in infants with respiratory syncytial virus.
Published in:
Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-46648-3
By:
- Lin, Gu-Lung;
- Drysdale, Simon B.;
- Snape, Matthew D.;
- O'Connor, Daniel;
- Brown, Anthony;
- MacIntyre-Cockett, George;
- Mellado-Gomez, Esther;
- de Cesare, Mariateresa;
- Ansari, M. Azim;
- Bonsall, David;
- Bray, James E.;
- Jolley, Keith A.;
- Bowden, Rory;
- Aerssens, Jeroen;
- Bont, Louis;
- Openshaw, Peter J. M.;
- Martinon-Torres, Federico;
- Nair, Harish;
- Golubchik, Tanya;
- Pollard, Andrew J.
Publication type:
Article
A Modified RNA-Seq Approach for Whole Genome Sequencing of RNA Viruses from Faecal and Blood Samples.
Published in:
PLoS ONE, 2013, v. 8, n. 6, p. 1, doi. 10.1371/journal.pone.0066129
By:
- Batty, Elizabeth M.;
- Wong, T. H. Nicholas;
- Trebes, Amy;
- Argoud, Karène;
- Attar, Moustafa;
- Buck, David;
- Ip, Camilla L. C.;
- Golubchik, Tanya;
- Cule, Madeleine;
- Bowden, Rory;
- Manganis, Charis;
- Klenerman, Paul;
- Barnes, Eleanor;
- Walker, A. Sarah;
- Wyllie, David H.;
- Wilson, Daniel J.;
- Dingle, Kate E.;
- Peto, Tim E. A.;
- Crook, Derrick W.;
- Piazza, Paolo
Publication type:
Article
Within-Host Evolution of <i>Staphylococcus aureus</i> during Asymptomatic Carriage
Published in:
PLoS ONE, 2013, v. 8, n. 5, p. 1, doi. 10.1371/journal.pone.0061319
By:
- Golubchik, Tanya;
- Batty, Elizabeth M.;
- Miller, Ruth R.;
- Farr, Helen;
- Young, Bernadette C.;
- Larner-Svensson, Hanna;
- Fung, Rowena;
- Godwin, Heather;
- Knox, Kyle;
- Votintseva, Antonina;
- Everitt, Richard G.;
- Street, Teresa;
- Cule, Madeleine;
- Ip, Camilla L. C.;
- Didelot, Xavier;
- Peto, Timothy E. A.;
- Harding, Rosalind M.;
- Wilson, Daniel J.;
- Crook, Derrick W.;
- Bowden, Rory
Publication type:
Article
MicroRNA Expression in Abdominal and Gluteal Adipose Tissue Is Associated with mRNA Expression Levels and Partly Genetically Driven.
Published in:
PLoS ONE, 2011, v. 6, n. 11, p. 1, doi. 10.1371/journal.pone.0027338
By:
- Rantalainen, Mattias;
- Herrera, Blanca M.;
- Nicholson, George;
- Bowden, Rory;
- Wills, Quin F.;
- Min, Josine L.;
- Neville, Matt J.;
- Barrett, Amy;
- Allen, Maxine;
- Rayner, Nigel W.;
- Fleckner, Jan;
- McCarthy, Mark I.;
- Zondervan, Krina T.;
- Karpe, Fredrik;
- Holmes, Chris C.;
- Lindgren, Cecilia M.
Publication type:
Article
Recombinational Switching of the Clostridium difficile S-Layer and a Novel Glycosylation Gene Cluster Revealed by Large-Scale Whole-Genome Sequencing.
Published in:
Journal of Infectious Diseases, 2013, v. 207, n. 4, p. 675, doi. 10.1093/infdis/jis734
By:
- Dingle, Kate E.;
- Didelot, Xavier;
- Ansari, M. Azim;
- Eyre, David W.;
- Vaughan, Alison;
- Griffiths, David;
- Ip, Camilla L. C.;
- Batty, Elizabeth M.;
- Golubchik, Tanya;
- Bowden, Rory;
- Jolley, Keith A.;
- Hood, Derek W.;
- Fawley, Warren N.;
- Walker, A. Sarah;
- Peto, Timothy E.;
- Wilcox, Mark H.;
- Crook, Derrick W.
Publication type:
Article
The nature and nurture of cell heterogeneity: accounting for macrophage gene-environment interactions with single-cell RNA-Seq.
Published in:
BMC Genomics, 2017, v. 18, p. 1, doi. 10.1186/s12864-016-3445-0
By:
- Wills, Quin F.;
- Mellado-Gomez, Esther;
- Nolan, Rory;
- Warner, Damien;
- Sharma, Eshita;
- Broxholme, John;
- Wright, Benjamin;
- Lockstone, Helen;
- James, William;
- Lynch, Mark;
- Gonzales, Michael;
- West, Jay;
- Leyrat, Anne;
- Padilla-Parra, Sergi;
- Filippi, Sarah;
- Holmes, Chris;
- Moore, Michael D.;
- Bowden, Rory
Publication type:
Article
Transforming clinical microbiology with bacterial genome sequencing.
Published in:
Nature Reviews Genetics, 2012, v. 13, n. 9, p. 601, doi. 10.1038/nrg3226
By:
- Didelot, Xavier;
- Bowden, Rory;
- Wilson, Daniel J.;
- Peto, Tim E. A.;
- Crook, Derrick W.
Publication type:
Article
Sequencing of human genomes with nanopore technology.
Published in:
Nature Communications, 2019, v. 10, n. 1, p. N.PAG, doi. 10.1038/s41467-019-09637-5
By:
- Bowden, Rory;
- Davies, Robert W.;
- Heger, Andreas;
- Pagnamenta, Alistair T.;
- de Cesare, Mariateresa;
- Oikkonen, Laura E.;
- Parkes, Duncan;
- Freeman, Colin;
- Dhalla, Fatima;
- Patel, Smita Y.;
- Popitsch, Niko;
- Ip, Camilla L. C.;
- Roberts, Hannah E.;
- Salatino, Silvia;
- Lockstone, Helen;
- Lunter, Gerton;
- Taylor, Jenny C.;
- Buck, David;
- Simpson, Michael A.;
- Donnelly, Peter
Publication type:
Article
Disease-associated genotypes of the commensal skin bacterium Staphylococcus epidermidis.
Published in:
Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-07368-7
By:
- Méric, Guillaume;
- Mageiros, Leonardos;
- Pensar, Johan;
- Laabei, Maisem;
- Yahara, Koji;
- Pascoe, Ben;
- Kittiwan, Nattinee;
- Tadee, Phacharaporn;
- Post, Virginia;
- Lamble, Sarah;
- Bowden, Rory;
- Bray, James E.;
- Morgenstern, Mario;
- Jolley, Keith A.;
- Maiden, Martin C. J.;
- Feil, Edward J.;
- Didelot, Xavier;
- Miragaia, Maria;
- de Lencastre, Herminia;
- Moriarty, T. Fintan
Publication type:
Article
Long-read whole genome sequencing and comparative analysis of six strains of the human pathogen Orientia tsutsugamushi.
Published in:
PLoS Neglected Tropical Diseases, 2018, v. 12, n. 6, p. 1, doi. 10.1371/journal.pntd.0006566
By:
- Batty, Elizabeth M.;
- Chaemchuen, Suwittra;
- Blacksell, Stuart;
- Richards, Allen;
- Paris, Daniel;
- Bowden, Rory;
- Chan, Caroline;
- Lachumanan, Ramkumar;
- Day, Nicholas;
- Donnelly, Peter;
- Chen, Swaine;
- Salje, Jeanne
Publication type:
Article
Insights into Platypus Population Structure and History from Whole-Genome Sequencing.
Published in:
Molecular Biology & Evolution, 2018, v. 35, n. 5, p. 1238, doi. 10.1093/molbev/msy041
By:
- Martin, Hilary C;
- Batty, Elizabeth M;
- Hussin, Julie;
- Westall, Portia;
- Daish, Tasman;
- Kolomyjec, Stephen;
- Piazza, Paolo;
- Bowden, Rory;
- Hawkins, Margaret;
- Grant, Tom
Publication type:
Article
Illumina and Nanopore methods for whole genome sequencing of hepatitis B virus (HBV).
Published in:
Scientific Reports, 2019, v. 9, n. 1, p. N.PAG, doi. 10.1038/s41598-019-43524-9
By:
- McNaughton, Anna L.;
- Roberts, Hannah E.;
- Bonsall, David;
- de Cesare, Mariateresa;
- Mokaya, Jolynne;
- Lumley, Sheila F.;
- Golubchik, Tanya;
- Piazza, Paolo;
- Martin, Jacqueline B.;
- de Lara, Catherine;
- Brown, Anthony;
- Ansari, M. Azim;
- Bowden, Rory;
- Barnes, Eleanor;
- Matthews, Philippa C.
Publication type:
Article
Mobile elements drive recombination hotspots in the core genome of Staphylococcus aureus.
Published in:
Nature Communications, 2014, v. 5, n. 5, p. 3956, doi. 10.1038/ncomms4956
By:
- Everitt, Richard G.;
- Didelot, Xavier;
- Batty, Elizabeth M.;
- Miller, Ruth R;
- Knox, Kyle;
- Young, Bernadette C.;
- Bowden, Rory;
- Auton, Adam;
- Votintseva, Antonina;
- Larner-Svensson, Hanna;
- Charlesworth, Jane;
- Golubchik, Tanya;
- Ip, Camilla L. C.;
- Godwin, Heather;
- Fung, Rowena;
- Peto, Tim E. A.;
- Walker, A. Sarah;
- Crook, Derrick W.;
- Wilson, Daniel J.
Publication type:
Article
P-061: Single-cell whole-exome DNA sequencing traces clonal trajectory in paired evolution of MGUS to multiple myeloma.
Published in:
Clinical Lymphoma, Myeloma & Leukemia, 2021, v. 21, p. S72, doi. 10.1016/S2152-2650(21)02195-9
By:
- Ansari-Pour, Naser;
- Salatino, Silvia;
- Weston-Bell, Nicola;
- Bryant, Dean;
- Moreno, Luz Yurany;
- Vacca, Angelo;
- Zojer, Niklas;
- Zannettino, Andrew;
- Bowden, Rory;
- Wedge, David;
- Sahota, Surinder
Publication type:
Article
Phylogenetic Analysis of Hepatitis C Virus Infections in a Large Belgian Cohort Using Next-Generation Sequencing of Full-Length Genomes.
Published in:
Viruses (1999-4915), 2023, v. 15, n. 12, p. 2391, doi. 10.3390/v15122391
By:
- Christensen, Kasper T.;
- Pierard, Florian;
- Bonsall, David;
- Bowden, Rory;
- Barnes, Eleanor;
- Florence, Eric;
- Ansari, M. Azim;
- Nguyen, Dung;
- de Cesare, Mariateresa;
- Nevens, Frederik;
- Robaeys, Geert;
- Schrooten, Yoeri;
- Busschots, Dana;
- Simmonds, Peter;
- Vandamme, Anne-Mieke;
- Van Wijngaerden, Eric;
- Dierckx, Tim;
- Cuypers, Lize;
- Van Laethem, Kristel
Publication type:
Article
Microevolutionary analysis of Clostridium difficile genomes to investigate transmission.
Published in:
Genome Biology, 2012, v. 13, n. 12, p. 1, doi. 10.1186/gb-2012-13-12-r118
By:
- Didelot, Xavier;
- Eyre, David W.;
- Cule, Madeleine;
- Ip, Camilla L.C.;
- Ansari, M. Azim;
- Griffiths, David;
- Vaughan, Alison;
- O'Connor, Lily;
- Golubchik, Tanya;
- Batty, Elizabeth M.;
- Piazza, Paolo;
- Wilson, Daniel J.;
- Bowden, Rory;
- Donnelly, Peter J.;
- Dingle, Kate E.;
- Wilcox, Mark;
- Walker, A. Sarah;
- Crook, Derrick W.;
- Peto, Tim E. A.;
- Harding, Rosalind M.
Publication type:
Article
Recombination-Mediated Host Adaptation by Avian Staphylococcus aureus.
Published in:
Genome Biology & Evolution, 2017, v. 9, n. 4, p. 830, doi. 10.1093/gbe/evx037
By:
- Murray, Susan;
- Pascoe, Ben;
- Méric, Guillaume;
- Mageiros, Leonardos;
- Koji Yahara;
- Hitchings, Matthew D.;
- Friedmann, Yasmin;
- Wilkinson, Thomas S.;
- Gormley, Fraser J.;
- Mack, Dietrich;
- Bray, James E.;
- Lamble, Sarah;
- Bowden, Rory;
- Jolley, Keith A.;
- Maiden, Martin C. J.;
- Wendlandt, Sarah;
- Schwarz, Stefan;
- Corander, Jukka;
- Fitzgerald, J. Ross;
- Sheppard, Samuel K.
Publication type:
Article
Ecological Overlap and Horizontal Gene Transfer in Staphylococcus aureus and Staphylococcus epidermidis.
Published in:
Genome Biology & Evolution, 2015, v. 7, n. 5, p. 1313, doi. 10.1093/gbe/evv066
By:
- Méric, Guillaume;
- Miragaia, Maria;
- de Been, Mark;
- Koji Yahara;
- Pascoe, Ben;
- Mageiros, Leonardos;
- Mikhail, Jane;
- Harris, Llinos G.;
- Wilkinson, Thomas S.;
- Rolo, Joana;
- Lamble, Sarah;
- Bray, James E.;
- Jolley, Keith A.;
- Hanage, William P.;
- Bowden, Rory;
- Maiden, Martin C. J.;
- Mack, Dietrich;
- de Lencastre, Hermínia;
- Feil, Edward J.;
- Corander, Jukka
Publication type:
Article
Whole-Genome Sequencing Shows That Patient-to-Patient Transmission Rarely Accounts for Acquisition of Staphylococcus aureus in an Intensive Care Unit.
Published in:
Clinical Infectious Diseases, 2014, v. 58, n. 5, p. 609, doi. 10.1093/cid/cit807
By:
- Price, James R.;
- Golubchik, Tanya;
- Cole, Kevin;
- Wilson, Daniel J.;
- Crook, Derrick W.;
- Thwaites, Guy E.;
- Bowden, Rory;
- Walker, A. Sarah;
- Peto, Timothy E. A.;
- Paul, John;
- Llewelyn, Martin J.
Publication type:
Article
High-resolution transcriptional landscape of xeno-free human induced pluripotent stem cell-derived cerebellar organoids.
Published in:
Scientific Reports, 2021, v. 11, n. 1, p. 1, doi. 10.1038/s41598-021-91846-4
By:
- Nayler, Samuel;
- Agarwal, Devika;
- Curion, Fabiola;
- Bowden, Rory;
- Becker, Esther B. E.
Publication type:
Article
Short and long-read genome sequencing methodologies for somatic variant detection; genomic analysis of a patient with diffuse large B-cell lymphoma.
Published in:
Scientific Reports, 2021, v. 11, n. 1, p. 1, doi. 10.1038/s41598-021-85354-8
By:
- Roberts, Hannah E.;
- Lopopolo, Maria;
- Pagnamenta, Alistair T.;
- Sharma, Eshita;
- Parkes, Duncan;
- Lonie, Lorne;
- Freeman, Colin;
- Knight, Samantha J. L.;
- Lunter, Gerton;
- Dreau, Helene;
- Lockstone, Helen;
- Taylor, Jenny C.;
- Schuh, Anna;
- Bowden, Rory;
- Buck, David
Publication type:
Article
Epstein-Barr virus reactivation in sepsis due to community-acquired pneumonia is associated with increased morbidity and an immunosuppressed host transcriptomic endotype.
Published in:
Scientific Reports, 2020, v. 10, n. 1, p. 1, doi. 10.1038/s41598-020-66713-3
By:
- Goh, Cyndi;
- Burnham, Katie L.;
- Ansari, M. Azim;
- de Cesare, Mariateresa;
- Golubchik, Tanya;
- Hutton, Paula;
- Overend, Lauren E.;
- Davenport, Emma E.;
- Hinds, Charles J.;
- Bowden, Rory;
- Knight, Julian C.
Publication type:
Article
Cellular α -synuclein pathology is associated with bioenergetic dysfunction in Parkinson's iPSC-derived dopamine neurons.
Published in:
Human Molecular Genetics, 2019, v. 28, n. 12, p. 2001, doi. 10.1093/hmg/ddz038
By:
- Zambon, Federico;
- Cherubini, Marta;
- Fernandes, Hugo J R;
- Lang, Charmaine;
- Ryan, Brent J;
- Volpato, Viola;
- Bengoa-Vergniory, Nora;
- Vingill, Siv;
- Attar, Moustafa;
- Booth, Heather D E;
- Haenseler, Walther;
- Vowles, Jane;
- Bowden, Rory;
- Webber, Caleb;
- Cowley, Sally A;
- Wade-Martins, Richard
Publication type:
Article
Transcriptomic profiling of purified patient-derived dopamine neurons identifies convergent perturbations and therapeutics for Parkinson's disease.
Published in:
Human Molecular Genetics, 2017, v. 26, n. 3, p. 552, doi. 10.1093/hmg/ddw412
By:
- Sandor, Cynthia;
- Robertson, Paul;
- Lang, Charmaine;
- Heger, Andreas;
- Booth, Heather;
- Vowles, Jane;
- Witty, Lorna;
- Bowden, Rory;
- Hu, Michele;
- Cowley, Sally A.;
- Wade-Martins, Richard;
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Article
Assessing similarity to primary tissue and cortical layer identity in induced pluripotent stem cell-derived cortical neurons through single-cell transcriptomics.
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Human Molecular Genetics, 2016, v. 25, n. 5, p. 989, doi. 10.1093/hmg/ddv637
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- Sopp, Paul;
- Nakanishi, Mahito;
- Bowden, Rory;
- Cowley, Sally;
- Newey, Sarah;
- Akerman, Colin;
- Ponting, Chris P.;
- Cader, M. Zameel
Publication type:
Article
Characterization of hepatitis C virus resistance to grazoprevir reveals complex patterns of mutations following on-treatment breakthrough that are not observed at relapse.
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Infection & Drug Resistance, 2018, v. 11, p. 1119, doi. 10.2147/IDR.S156581
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- Black, Stuart;
- Howe, Anita YM;
- Chase, Robert;
- Ingravallo, Paul;
- Pak, Irene;
- Brown, Anthony;
- Smith, David A;
- Bowden, Rory;
- Barnes, Eleanor
Publication type:
Article
Correction: Biofilm Morphotypes and Population Structure among Staphylococcus epidermidis from Commensal and Clinical Samples.
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2016
By:
- Harris, Llinos G.;
- Murray, Susan;
- Pascoe, Ben;
- Bray, James;
- Meric, Guillaume;
- Mageiros, Leonardos;
- Wilkinson, Thomas S.;
- Jeeves, Rose;
- Rohde, Holger;
- Schwarz, Stefan;
- de Lencastre, Herminia;
- Miragaia, Maria;
- Rolo, Joana;
- Bowden, Rory;
- Jolley, Keith A.;
- Maiden, Martin C. J.;
- Mack, Dietrich;
- Sheppard, Samuel K.
Publication type:
Correction Notice
Biofilm Morphotypes and Population Structure among Staphylococcus epidermidis from Commensal and Clinical Samples.
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PLoS ONE, 2016, v. 11, n. 3, p. 1, doi. 10.1371/journal.pone.0151240
By:
- Harris, Llinos G.;
- Murray, Susan;
- Pascoe, Ben;
- Bray, James;
- Meric, Guillaume;
- Magerios, Leonardos;
- Wilkinson, Thomas S.;
- Jeeves, Rose;
- Rohde, Holger;
- Schwarz, Stefan;
- de Lencastre, Herminia;
- Miragaia, Maria;
- Rolo, Joana;
- Bowden, Rory;
- Jolley, Keith A.;
- Maiden, Martin C. J.;
- Mack, Dietrich;
- Sheppard, Samuel K.
Publication type:
Article
Oxford Nanopore MinION Sequencing Enables Rapid Whole Genome Assembly of Rickettsia typhi in a Resource-Limited Setting.
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American Journal of Tropical Medicine & Hygiene, 2020, v. 102, n. 2, p. 408, doi. 10.4269/ajtmh.19-0383
By:
- Elliott, Ivo;
- Batty, Elizabeth M.;
- Ming, Damien;
- Robinson, Matthew T.;
- Nawtaisong, Pruksa;
- de Cesare, Mariateresa;
- Newton, Paul N.;
- Bowden, Rory
Publication type:
Article
Technical Validation of a Hepatitis C Virus Whole Genome Sequencing Assay for Detection of Genotype and Antiviral Resistance in the Clinical Pathway.
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Frontiers in Microbiology, 2020, v. 11, p. N.PAG, doi. 10.3389/fmicb.2020.576572
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- Bowden, Rory;
- Ansari, M. Azim;
- Ip, Camilla L. C.;
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- Bradshaw, Daniel;
- Mbisa, Jean L.
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Article
Actinobacillus pleuropneumoniae encodes multiple phase-variable DNA methyltransferases that control distinct phasevarions.
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Nucleic Acids Research, 2023, v. 51, n. 7, p. 3240, doi. 10.1093/nar/gkad091
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- Gouil, Quentin;
- Du, Mei R M;
- Ritchie, Matthew E;
- Bowden, Rory;
- Langford, Paul R;
- Tucker, Alexander W;
- Jennings, Michael P;
- Turni, Conny;
- Blackall, Patrick J;
- Atack, John M
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Improved workflows for high throughput library preparation using the transposome-based nextera system.
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BMC Biotechnology, 2013, v. 13, n. 1, p. 1, doi. 10.1186/1472-6750-13-104
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- Lamble, Sarah;
- Batty, Elizabeth;
- Attar, Moustafa;
- Buck, David;
- Bowden, Rory;
- Lunter, Gerton;
- Crook, Derrick;
- El-Fahmawi, Bassam;
- Piazza, Paolo
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Genomic Tools for Evolution and Conservation in the Chimpanzee: Pan troglodytes ellioti Is a Genetically Distinct Population.
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PLoS Genetics, 2012, v. 8, n. 3, p. 1, doi. 10.1371/journal.pgen.1002504
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- Bowden, Rory;
- MacFie, Tammie S.;
- Myers, Simon;
- Hellenthal, Garrett;
- Nerrienet, Eric;
- Bontrop, Ronald E.;
- Freeman, Colin;
- Donnelly, Peter;
- Mundy, Nicholas I.
Publication type:
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Recombination and Population Structure in Salmonella enterica.
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PLoS Genetics, 2011, v. 7, n. 7, p. 1, doi. 10.1371/journal.pgen.1002191
By:
- Didelot, Xavier;
- Bowden, Rory;
- Street, Teresa;
- Golubchik, Tanya;
- Spencer, Chris;
- McVean, Gil;
- Sangal, Vartul;
- Anjum, Muna F.;
- Achtman, Mark;
- Falush, Daniel;
- Donnelly, Peter
Publication type:
Article
Simultaneous Viral Whole-Genome Sequencing and Differential Expression Profiling in Respiratory Syncytial Virus Infection of Infants.
Published in:
2020
By:
- Lin, Gu-Lung;
- Golubchik, Tanya;
- Drysdale, Simon;
- O'Connor, Daniel;
- Jefferies, Kimberley;
- Brown, Anthony;
- Cesare, Mariateresa de;
- Bonsall, David;
- Ansari, M Azim;
- Aerssens, Jeroen;
- Bont, Louis;
- Openshaw, Peter;
- Martinón-Torres, Federico;
- Bowden, Rory;
- Pollard, Andrew J;
- Investigators, RESCEU;
- de Cesare, Mariateresa;
- RESCEU Investigators
Publication type:
journal article
Performance of a high-throughput next-generation sequencing method for analysis of HIV drug resistance and viral load.
Published in:
2020
By:
- Fogel, Jessica M;
- Bonsall, David;
- Cummings, Vanessa;
- Bowden, Rory;
- Golubchik, Tanya;
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- Rio, Carlos del;
- Batey, D Scott;
- Mayer, Kenneth H;
- Farley, Jason E;
- Hughes, James P;
- Remien, Robert H;
- Beyrer, Chris;
- Fraser, Christophe;
- Eshleman, Susan H;
- de Cesare, Mariateresa;
- Del Rio, Carlos
Publication type:
journal article
A single-cell atlas of the human substantia nigra reveals cell-specific pathways associated with neurological disorders.
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Nature Communications, 2020, v. 11, n. 1, p. N.PAG, doi. 10.1038/s41467-020-17876-0
By:
- Agarwal, Devika;
- Sandor, Cynthia;
- Volpato, Viola;
- Caffrey, Tara M.;
- Monzón-Sandoval, Jimena;
- Bowden, Rory;
- Alegre-Abarrategui, Javier;
- Wade-Martins, Richard;
- Webber, Caleb
Publication type:
Article

Found: 52