Cycle threshold values as indication of increasing SARS-CoV-2 new variants, England, 2020–2022 by Harrison, RE, Hamada, A, Haswell, N, Groves, A, Vihta, K, Cella, K, Garner, S, Walker, AS, Seale, AC

Predicting future hospital antimicrobial resistance prevalence using machine learning by Vihta, K, Pritchard, E, Pouwels, KB, Hopkins, S, Guy, RL, Henderson, K, Chudasama, D, Hope, R, Muller-Pebody, B, Walker, AS, Clifton, D, Eyre, DW

Systematic review of wastewater surveillance of antimicrobial resistance in human populations by Chau, K, Barker, L, Budgell, E, Vihta, K-D, Sims, N, Kasprzyk-Hordern, B, Hariss, E, Crook, D, Read, D, Walker, AS, Stoesser, N

Omicron-associated changes in SARS-CoV-2 symptoms in the United Kingdom by Vihta, K, Pouwels, K, Peto, T, Pritchard, E, House, T, Studley, R, Cook, D, Diamond, I, Crook, D, Clifton, D, Matthews, P, Stoesser, N, Eyre, D, Walker, AS

Detecting changes in population trends in infection surveillance using community SARS-CoV-2 prevalence as an exemplar by Pritchard, E, Vihta, K-D, Eyre, DW, Hopkins, S, Peto, TEA, Matthews, PC, Stoesser, N, Studley, R, Rourke, E, Diamond, I, Pouwels, KB, Walker, AS, COVID-19 Infection Survey Team

Ten years of population-level genomic Escherichia coli and Klebsiella pneumoniae serotype surveillance informs vaccine development for invasive infections by Lipworth, SIW, Vihta, K, Chau, KK, Kavanagh, J, Davies, T, George, S, Barker, L, Vaughan, A, Andersson, M, Jeffery, K, Oakley, S, Morgan, M, Peto, TEA, Crook, DW, Walker, S, Stoesser, N

Symptoms and severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) positivity in the general population in the United Kingdom by Vihta, K-D, Pouwels, KB, Peto, TEA, Prithard, E, Eyre, DW, House, T, Gethings, O, Studley, R, Rourke, E, Cook, D, Diamond, I, Crook, D, Matthews, PC, Stoesser, N, Walker, AS

Antimicrobial resistance in commensal opportunistic pathogens isolated from non-sterile sites can be an effective proxy for surveillance in bloodstream infections by Vihta, K-D, Gordon, NC, Stoesser, N, Quan, TP, Tyrrell, CSB, Vongsouvath, M, Ashley, EA, Chansamouth, V, Turner, P, Ling, CL, Eyre, DW, White, NJ, Crook, D, Peto, TEA, Walker, AS

Ten year longitudinal molecular epidemiology study of Escherichia coli and Klebsiella species bloodstream infections in Oxfordshire, UK by Lipworth, SIW, Vihta, K-D, Chau, K, Barker, L, George, S, Kavanagh, J, Davies, T, Vaughan, A, Andersson, M, Jeffery, K, Oakley, S, Morgan, M, Hopkins, S, Peto, T, Crook, D, Walker, A, Stoesser, N

Molecular epidemiology and antimicrobial resistance phenotype of paediatric bloodstream infections caused by Gram-negative bacteria by Lipworth, S, Vihta, K, Davies, T, Wright, S, Tabirao, M, Chau, K, Vaughan, A, Kavanagh, J, Barker, L, George, S, Segal, S, Paulus, S, Barrett, L, Oakley, S, Jeffery, K, Butcher, L, Peto, T, Crook, D, Walker, AS, Kadambari, S, Stoesser, N

The plasmidome associated with Gram-negative bloodstream infections: a large-scale observational study using complete plasmid assembliess by Lipworth, S, Matlock, W, Shaw, L, Vihta, K-D, Rodger, G, Chau, K, Barker, L, George, S, Kavanagh, J, Davies, T, Vaughan, A, Andersson, M, Jeffery, K, Oakley, S, Morgan, M, Hopkins, S, Peto, T, Crook, D, Walker, AS, Stoesser, N

Effect of Delta variant on viral burden and vaccine effectiveness against new SARS-CoV-2 infections in the UK by Pouwels, KB, Pritchard, E, Matthews, PC, Stoesser, N, Eyre, DW, Vihta, K-D, House, T, Hay, J, Bell, JI, Newton, JN, Farrar, J, Crook, D, Cook, D, Rourke, E, Studley, R, Peto, TEA, Diamond, I, Walker, AS

Monitoring populations at increased risk for SARS-CoV-2 infection in the community using population-level demographic and behavioural surveillance by Pritchard, E, Jones, J, Vihta, K-D, Stoesser, N, Matthews, PC, Eyre, DW, House, T, Bell, JI, Newton, JN, Farrar, J, Crook, D, Hopkins, S, Cook, D, Rourke, E, Studley, R, Diamond, I, Peto, T, Pouwels, KB, Walker, AS

Community prevalence of SARS-CoV-2 in England during April to November 2020: Results from the ONS Coronavirus Infection Survey by Pouwels, K, House, T, Pritchard, E, Robotham, JV, Birrell, PJ, Gelman, A, Vihta, K-D, Bowers, N, Boreham, I, Thomas, H, Lewis, J, Bell, I, Bell, JI, Newton, J, Farrar, J, Diamon, I, Benton, P, Walker, AS

Ct threshold values, a proxy for viral load in community SARS-CoV-2 cases, demonstrate wide variation across populations and over time by Walker, AS, Pritchard, E, House, T, Robotham, JV, Birrell, PJ, Bell, I, Bell, JI, Newton, JN, Farrar, J, Diamond, I, Studley, R, Hay, J, Vihta, K-D, Peto, TEA, Stoesser, N, Matthews, PC, Eyre, DW, Pouwels, KB

Trends over time in Escherichia coli bloodstream infections, urinary tract infections, and antibiotic susceptibilities in Oxfordshire, UK, 1998–2016: a study of electronic health r... by Vihta, K, Stoesser, N, Llewelyn, M, Quan, T, Davies, T, Fawcett, N, Dunn, L, Jeffrey, K, Butler, C, Hayward, G, Andersson, M, Morgan, M, Oakley, S, Mason, A, Hopkins, S, Wyllie, D, Crook, D, Wilcox, M, Johnson, A, Peto, T, Walker, A

High rates of human fecal carriage of mcr-1-positive multi-drug resistant Enterobacteriaceae isolates emerge in China in association with successful plasmid families by Zhong, L, Phan, H, Shen, C, Vihta, K, Sheppard, A, Huang, X, Zeng, K, Li, H, Zhang, X, Patil, S, Crook, D, Walker, A, Zing, Y, Lin, J, Feng, L, Doi, Y, Xia, Y, Stoesser, N, Tian, G

Tracking the emergence of SARS-CoV-2 alpha variant in the United Kingdom by Walker, AS, Vihta, K-D, Gethings, O, Pritchard, E, Jones, J, House, T, Bell, I, Bell, JI, Newton, J, Farrar, J, Diamond, I, Studley, R, Rourke, E, Hay, J, Hopkins, S, Crook, D, Peto, T, Matthews, P, Eyre, D, Stoesser, N, Pouwels, K

Ct threshold values, a proxy for viral load in community SARS-CoV-2 cases, demonstrate wide variation across populations and over time by Walker, S, Pritchard, E, House, T, Robotham, J, Birrell, P, Bell, I, Bell, J, Newton, J, Farrar, J, Diamond, I, Studley, R, Hay, J, Vihta, K-D, Peto, T, Stoesser, N, Matthews, P, Eyre, D, Pouwels, K, the COVID-19 Infection Survey team

Increased infections, but not viral burden, with a new SARS-CoV-2 variant by Walker, S, Vihta, K-D, Gethings, O, Pritchard, E, Jones, J, House, T, Bell, I, Bell, J, Newton, J, Farrar, J, Diamond, I, Studley, R, Rourke, E, Hay, J, Hopkins, S, Crook, D, Peto, T, Matthews, P, Eyre, D, Stoesser, N, Pouwels, K