Antibiotic review kit for hospitals (ARK-Hospital): a stepped-wedge cluster-randomised controlled trial
Journal article
Llewelyn MJ. et al, (2023), The Lancet Infectious Diseases, 23, 207 - 221
Comparison of R9.4.1/Kit10 and R10/Kit12 Oxford Nanopore flowcells and chemistries in bacterial genome reconstruction
Journal article
Sanderson ND. et al, (2023), Microbial Genomics, 9
Epidemiological cut-off values for a 96-well broth microdilution plate for high-throughput research antibiotic susceptibility testing ofM. tuberculosis
Journal article
(2022), European Respiratory Journal, 60, 2200239 - 2200239
Symptoms and Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Positivity in the General Population in the United Kingdom
Journal article
Vihta KD. et al, (2022), Clinical Infectious Diseases, 75, e329 - e337
A data compendium associating the genomes of 12,289 Mycobacterium tuberculosis isolates with quantitative resistance phenotypes to 13 antibiotics
Journal article
(2022), PLOS Biology, 20, e3001721 - e3001721
Genome-wide association studies of global Mycobacterium tuberculosis resistance to 13 antimicrobials in 10,228 genomes identify new resistance mechanisms
Journal article
(2022), PLOS Biology, 20, e3001755 - e3001755
Antibody escape of SARS-CoV-2 Omicron BA.4 and BA.5 from vaccine and BA.1 serum.
Journal article
Tuekprakhon A. et al, (2022), Cell, 185, 2422 - 2433.e13
M. tuberculosis microvariation is common and is associated with transmission: Analysis of three years prospective universal sequencing in England
Journal article
Wyllie D. et al, (2022), Journal of Infection, 85, 31 - 39
SARS-CoV-2 antibody trajectories after a single COVID-19 vaccination with and without prior infection.
Journal article
Wei J. et al, (2022), Nat Commun, 13
Catwalk: identifying closely related sequences in large microbial sequence databases.
Journal article
Volk D. et al, (2022), Microbial genomics, 8
Mycobacterium tuberculosis transmission in Birmingham, UK, 2009–19: An observational study
Journal article
Walker TM. et al, (2022), The Lancet Regional Health - Europe, 17, 100361 - 100361
Mycobacterium tuberculosis transmission in Birmingham, UK, 2009–19: An observational study
Journal article
Walker TM. et al, (2022), The Lancet Regional Health - Europe, 17, 100361 - 100361
Potent cross-reactive antibodies following Omicron breakthrough in vaccinees.
Journal article
Nutalai R. et al, (2022), Cell, 185, 2116 - 2131.e18
Whole genome sequencing reveals hidden transmission of carbapenemase-producing Enterobacterales.
Journal article
Marimuthu K. et al, (2022), Nature communications, 13
Realising the Potential of Genomics for M. tuberculosis: A Silver Lining to the Pandemic?
Journal article
Walker TM. and Crook DW., (2022), China CDC Weekly, 4, 437 - 439
A crowd of BashTheBug volunteers reproducibly and accurately measure the minimum inhibitory concentrations of 13 antitubercular drugs from photographs of 96-well broth microdilution plates
Journal article
Fowler PW. et al, (2022), eLife, 11
Antibody responses and correlates of protection in the general population after two doses of the ChAdOx1 or BNT162b2 vaccines
Journal article
Wei J. et al, (2022), Nature Medicine, 28, 1072 - 1082
An Observational Cohort Study on the Incidence of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Infection and B.1.1.7 Variant Infection in Healthcare Workers by Antibody and Vaccination Status
Journal article
Lumley SF. et al, (2022), Clinical Infectious Diseases, 74, 1208 - 1219
Clinical Metagenomic Sequencing for Species Identification and Antimicrobial Resistance Prediction in Orthopedic Device Infection.
Journal article
Street TL. et al, (2022), Journal of clinical microbiology, 60
Identifying Bacterial Airways Infection in Stable Severe Asthma Using Oxford Nanopore Sequencing Technologies.
Journal article
Jabeen MF. et al, (2022), Microbiology spectrum
Systematic review of wastewater surveillance of antimicrobial resistance in human populations.
Journal article
Chau KK. et al, (2022), Environ Int, 162
Antibody responses and correlates of protection in the general population after two doses of the ChAdOx1 or BNT162b2 vaccines
Journal article
Wei J. et al, (2022), Nature Medicine
Monitoring populations at increased risk for SARS-CoV-2 infection in the community using population-level demographic and behavioural surveillance
Journal article
Pritchard E. et al, (2022), The Lancet Regional Health - Europe, 13, 100282 - 100282
SARS-CoV-2 Omicron-B.1.1.529 leads to widespread escape from neutralizing antibody responses
Journal article
Dejnirattisai W. et al, (2022), Cell, 185, 467 - 484.e15
Reduced neutralisation of SARS-CoV-2 omicron B.1.1.529 variant by post-immunisation serum.
Journal article
Dejnirattisai W. et al, (2021), Lancet (London, England)
Exponential growth, high prevalence of SARS-CoV-2, and vaccine effectiveness associated with the Delta variant.
Journal article
Elliott P. et al, (2021), Science (New York, N.Y.), 374
Ten Years of Population-Level Genomic Escherichia coli and Klebsiella pneumoniae Serotype Surveillance Informs Vaccine Development for Invasive Infections
Journal article
Lipworth S. et al, (2021), Clinical Infectious Diseases, 73, 2276 - 2282
Tracking the Emergence of SARS-CoV-2 Alpha Variant in the United Kingdom
Journal article
Walker AS. et al, (2021), New England Journal of Medicine
Omicron-B.1.1.529 leads to widespread escape from neutralizing antibody responses
Preprint
Dejnirattisai W. et al, (2021)
Time of Day of Vaccination Affects SARS-CoV-2 Antibody Responses in an Observational Study of Health Care Workers
Journal article
Wang W. et al, (2021), Journal of Biological Rhythms, 074873042110593 - 074873042110593
A haemagglutination test for rapid detection of antibodies to SARS-CoV-2
Journal article
Townsend A. et al, (2021), Nature Communications, 12
Anti-spike antibody response to natural SARS-CoV-2 infection in the general population
Journal article
Wei J. et al, (2021), Nature Communications, 12
Antimicrobial resistance in commensal opportunistic pathogens isolated from non-sterile sites can be an effective proxy for surveillance in bloodstream infections
Journal article
Vihta K-D. et al, (2021), Scientific Reports, 11
Effect of Delta variant on viral burden and vaccine effectiveness against new SARS-CoV-2 infections in the UK
Journal article
Pouwels KB. et al, (2021), Nature Medicine, 27, 2127 - 2135
Stringent thresholds in SARS-CoV-2 IgG assays lead to under-detection of mild infections
Journal article
Eyre DW. et al, (2021), BMC Infectious Diseases, 21
Ten-year longitudinal molecular epidemiology study of Escherichia coli and Klebsiella species bloodstream infections in Oxfordshire, UK
Journal article
Lipworth S. et al, (2021), Genome Medicine, 13
Viral detection and identification in 20 min by rapid single-particle fluorescence in-situ hybridization of viral RNA
Journal article
Hepp C. et al, (2021), Scientific Reports, 11
Antimicrobial resistance determinants are associated with Staphylococcus aureus bacteraemia and adaptation to the healthcare environment: a bacterial genome-wide association study
Journal article
Young BC. et al, (2021), Microbial Genomics, 7
Symptoms and Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Positivity in the General Population in the United Kingdom
Journal article
Vihta K-D. et al, (2021), Clinical Infectious Diseases
An end-to-end heterogeneous graph attention network for Mycobacterium tuberculosis drug-resistance prediction
Journal article
Yang Y. et al, (2021), Briefings in Bioinformatics, 22
Time of day of vaccination affects SARS-CoV-2 antibody responses in an observational study of healthcare workers
Preprint
Wang W. et al, (2021)
Changes in paediatric respiratory infections at a UK teaching hospital 2016-2021; impact of the SARS-CoV-2 pandemic
Preprint
Lumley SF. et al, (2021)
A genomic epidemiological study shows that prevalence of antimicrobial resistance in Enterobacterales is associated with the livestock host, as well as antimicrobial usage
Journal article
AbuOun M. et al, (2021), Microbial Genomics, 7
Antimicrobial resistance genes and clonal success in Escherichia coli isolates causing bloodstream infection
Journal article
Lipworth S. et al, (2021), LANCET MICROBE, 2, E492 - E492
Changes in paediatric respiratory infections at a UK teaching hospital 2016–2021; impact of the SARS-CoV-2 pandemic
Journal article
Lumley SF. et al, (2021), Journal of Infection
Epidemiological data and genome sequencing reveals that nosocomial transmission of SARS-CoV-2 is underestimated and mostly mediated by a small number of highly infectious individuals
Journal article
Lumley SF. et al, (2021), Journal of Infection, 83, 473 - 482
Epidemiology of Mycobacterium abscessus in England: an observational study
Journal article
Lipworth S. et al, (2021), The Lancet Microbe, 2, e498 - e507
Quantitative SARS-CoV-2 anti-spike responses to Pfizer–BioNTech and Oxford–AstraZeneca vaccines by previous infection status
Journal article
Eyre DW. et al, (2021), Clinical Microbiology and Infection, 27, 1516.e7 - 1516.e14
Flanker: a tool for comparative genomics of gene flanking regions
Journal article
Matlock W. et al, (2021), Microbial Genomics, 7