High precision Neisseria gonorrhoeae variant and antimicrobial resistance calling from metagenomic Nanopore sequencing

por Sanderson, Nicholas D., Swann, Jeremy, Barker, Leanne, Kavanagh, James, Hoosdally, Sarah, Crook, Derrick, Street, Teresa L., Eyre, David W.
Publicado 2020

Optimizing DNA Extraction Methods for Nanopore Sequencing of Neisseria gonorrhoeae Directly from Urine Samples

por Street, Teresa L., Barker, Leanne, Sanderson, Nicholas D., Kavanagh, James, Hoosdally, Sarah, Cole, Kevin, Newnham, Robert, Selvaratnam, Mathyruban, Andersson, Monique, Llewelyn, Martin J., O’Grady, Justin, Crook, Derrick W., Eyre, David W.
Publicado 2020

Optimized use of Oxford Nanopore flowcells for hybrid assemblies

por Lipworth, Samuel, Pickford, Hayleah, Sanderson, Nicholas, Chau, Kevin K., Kavanagh, James, Barker, Leanne, Vaughan, Alison, Swann, Jeremy, Andersson, Monique, Jeffery, Katie, Morgan, Marcus, Peto, Timothy E. A., Crook, Derrick W., Stoesser, Nicole, Walker, A. Sarah
Publicado 2020

Ten Years of Population-Level Genomic Escherichia coli and Klebsiella pneumoniae Serotype Surveillance Informs Vaccine Development for Invasive Infections

por Lipworth, Samuel, Vihta, Karina-Doris, Chau, Kevin K, Kavanagh, James, Davies, Timothy, George, Sophie, Barker, Leanne, Vaughan, Ali, Andersson, Monique, Jeffery, Katie, Oakley, Sarah, Morgan, Marcus, Peto, Timothy E A, Crook, Derrick W, Walker, A Sarah, Stoesser, Nicole
Publicado 2021

Ten-year longitudinal molecular epidemiology study of Escherichia coli and Klebsiella species bloodstream infections in Oxfordshire, UK

por Lipworth, Samuel, Vihta, Karina-Doris, Chau, Kevin, Barker, Leanne, George, Sophie, Kavanagh, James, Davies, Timothy, Vaughan, Alison, Andersson, Monique, Jeffery, Katie, Oakley, Sarah, Morgan, Marcus, Hopkins, Susan, Peto, Timothy E. A., Crook, Derrick W., Walker, Ann Sarah, Stoesser, Nicole
Publicado 2021

Nanopore metagenomic sequencing of influenza virus directly from respiratory samples: diagnosis, drug resistance and nosocomial transmission, United Kingdom, 2018/19 influenza seas...

por Xu, Yifei, Lewandowski, Kuiama, Downs, Louise O, Kavanagh, James, Hender, Thomas, Lumley, Sheila, Jeffery, Katie, Foster, Dona, Sanderson, Nicholas D, Vaughan, Ali, Morgan, Marcus, Vipond, Richard, Carroll, Miles, Peto, Timothy, Crook, Derrick, Walker, A Sarah, Matthews, Philippa C, Pullan, Steven T
Publicado 2021

Clinical Metagenomic Sequencing for Species Identification and Antimicrobial Resistance Prediction in Orthopedic Device Infection

por Street, Teresa L., Sanderson, Nicholas D., Kolenda, Camille, Kavanagh, James, Pickford, Hayleah, Hoosdally, Sarah, Cregan, Jack, Taunt, Carol, Jones, Emma, Oakley, Sarah, Atkins, Bridget L., Dudareva, Maria, McNally, Martin A., O’Grady, Justin, Crook, Derrick W., Eyre, David W.
Publicado 2022

Molecular epidemiology and antimicrobial resistance phenotype of paediatric bloodstream infections caused by Gram-negative bacteria

por Lipworth, Sam, Vihta, Karina-Doris, Davies, Tim, Wright, Sarah, Tabirao, Merline, Chau, Kevin, Vaughan, Alison, Kavanagh, James, Barker, Leanne, George, Sophie, Segal, Shelley, Paulus, Stephane, Barrett, Lucinda, Oakley, Sarah, Jeffery, Katie, Butcher, Lisa, Peto, Tim, Crook, Derrick, Walker, Sarah, Kadambari, Seilesh, Stoesser, Nicole
Publicado 2022

Microbiome and environment explain the absence of correlations between consumers and their diet in Bornean microsnails

por Hendriks, Kasper P., Bisschop, Karen, Kortenbosch, Hylke H., Kavanagh, James C., Larue, Anaïs E. A., Chee‐Chean, Phung, Bonte, Dries, Duijm, Elza J., Salles, Joana Falcão, Pigot, Alex L., Richter Mendoza, Francisco J., Schilthuizen, Menno, Anderson, Marti J., Speksnijder, Arjen G. C. L., Etienne, Rampal S.
Publicado 2021

Metagenomic Nanopore Sequencing of Influenza Virus Direct from Clinical Respiratory Samples

por Lewandowski, Kuiama, Xu, Yifei, Pullan, Steven T., Lumley, Sheila F., Foster, Dona, Sanderson, Nicholas, Vaughan, Alison, Morgan, Marcus, Bright, Nicole, Kavanagh, James, Vipond, Richard, Carroll, Miles, Marriott, Anthony C., Gooch, Karen E., Andersson, Monique, Jeffery, Katie, Peto, Timothy E. A., Crook, Derrick W., Walker, A. Sarah, Matthews, Philippa C.
Publicado 2019

Genomic network analysis of environmental and livestock F-type plasmid populations

por Matlock, William, Chau, Kevin K., AbuOun, Manal, Stubberfield, Emma, Barker, Leanne, Kavanagh, James, Pickford, Hayleah, Gilson, Daniel, Smith, Richard P., Gweon, H. Soon, Hoosdally, Sarah J., Swann, Jeremy, Sebra, Robert, Bailey, Mark J., Peto, Timothy E. A., Crook, Derrick W., Anjum, Muna F., Read, Daniel S., Walker, A. Sarah, Stoesser, Nicole, Shaw, Liam P.
Publicado 2021

Niche and local geography shape the pangenome of wastewater- and livestock-associated Enterobacteriaceae

por Shaw, Liam P., Chau, Kevin K., Kavanagh, James, AbuOun, Manal, Stubberfield, Emma, Gweon, H. Soon, Barker, Leanne, Rodger, Gillian, Bowes, Mike J., Hubbard, Alasdair T. M., Pickford, Hayleah, Swann, Jeremy, Gilson, Daniel, Smith, Richard P., Hoosdally, Sarah J., Sebra, Robert, Brett, Howard, Peto, Tim E. A., Bailey, Mark J., Crook, Derrick W., Read, Daniel S., Anjum, Muna F., Walker, A. Sarah, Stoesser, Nicole
Publicado 2021

SARS-CoV-2 antibody prevalence, titres and neutralising activity in an antenatal cohort, United Kingdom, 14 April to 15 June 2020

por Lumley, Sheila F, Eyre, David W, McNaughton, Anna L, Howarth, Alison, Hoosdally, Sarah, Hatch, Stephanie B, Kavanagh, James, Chau, Kevin K, Downs, Louise O, Cox, Stuart, Dunn, Laura, Justice, Anita, Wareing, Susan, Dingle, Kate, Rudkin, Justine, Auckland, Kathryn, Fyfe, Alexander, Bolton, Jai, Paton, Robert, Mentzer, Alexander J, Jeffery, Katie, Andersson, Monique I, James, Tim, Peto, Tim E A, Marsden, Brian D, Screaton, Gavin, Cornall, Richard J, Klenerman, Paul, Ebner, Daniel, Stuart, David I, Crook, Derrick W, Stoesser, Nicole, Kennedy, Stephen H, Thompson, Craig, Gupta, Sunetra, Matthews, Philippa C
Publicado 2020

Differential occupational risks to healthcare workers from SARS-CoV-2 observed during a prospective observational study

por Eyre, David W, Lumley, Sheila F, O'Donnell, Denise, Campbell, Mark, Sims, Elizabeth, Lawson, Elaine, Warren, Fiona, James, Tim, Cox, Stuart, Howarth, Alison, Doherty, George, Hatch, Stephanie B, Kavanagh, James, Chau, Kevin K, Fowler, Philip W, Swann, Jeremy, Volk, Denis, Yang-Turner, Fan, Stoesser, Nicole, Matthews, Philippa C, Dudareva, Maria, Davies, Timothy, Shaw, Robert H, Peto, Leon, Downs, Louise O, Vogt, Alexander, Amini, Ali, Young, Bernadette C, Drennan, Philip George, Mentzer, Alexander J, Skelly, Donal T, Karpe, Fredrik, Neville, Matt J, Andersson, Monique, Brent, Andrew J, Jones, Nicola, Martins Ferreira, Lucas, Christott, Thomas, Marsden, Brian D, Hoosdally, Sarah, Cornall, Richard, Crook, Derrick W, Stuart, David I, Screaton, Gavin, Peto, Timothy EA, Holthof, Bruno, O'Donnell, Anne-Marie, Ebner, Daniel, Conlon, Christopher P, Jeffery, Katie, Walker, Timothy M
Publicado 2020