Publications

CMV viraemia is associated with mortality among children with HIV starting antiretroviral therapy in sub-Saharan Africa

Fisayo T. et al, (2026), Clinical Infectious Diseases

Deep immune profiling of endometrial and peripheral blood cells in endometriosis

Kisovar A. et al, (2026), Human Reproduction

Intravenous Artesunate in Artemisinin-Resistant Severe Malaria in Uganda

Maitland K. et al, (2026), New England Journal of Medicine

Multicenter Validation of Clinical Sepsis Phenotypes.

Yoon CH. et al, (2026), JAMA network open, 9

An antibiotic chatbot: Evaluation of a retrieval-augmented generation approach for providing guideline-based antimicrobial advice.

Eyre DW. et al, (2026), The Journal of infection, 93

MEDS — An Emerging Data Standard and Ecosystem for Health AI Research

McDermott MBA. et al, (2026), NEJM AI, 3

Impact of co-amoxiclav versus amoxicillin on the gastrointestinal microbiota in sub-Saharan children hospitalized with pneumonia

Rodriguez-Ruiz JP. et al, (2026), npj Antimicrobials and Resistance

Non-invasive Ventilation and levetiracetam for seizure prophylaxis In Children with Cerebral Malaria Trial (NOVICE-M): Phase I Trial

Maitland K. et al, (2026)

Benchmarking strain-level profiling of Escherichia coli in short-read gut metagenomes

Galbraith M. et al, (2026)

Less is More: last observations of vital signs can outperform time series for hospital mortality prediction

Zhang Z. et al, (2026)

Explaining variation in antibiotic prescribing for common infections: a three-way variance decomposition using UK primary care data

Nguyen NV. et al, (2026)

AMRgen: an R package for antimicrobial resistance genotype-phenotype analysis

Holt KE. et al, (2026)

Economic evaluation of alternative hepatitis C treatment options: a post hoc analysis of the VIETNARMS trial

Turner HC. et al, (2026), eClinicalMedicine, 95, 103969 - 103969

Rapid diagnosis of common, undetected, and uncultivable bloodstream infections from positive blood cultures using Oxford Nanopore sequencing: a metagenomic pipeline analysis

Govender KN. et al, (2026), The Lancet Microbe, 101333 - 101333

Controlled human malaria infection in adults identify combinations of merozoite antigens associated with clinical immunity.

Ogwang R. et al, (2026), Nature communications

Risk Factors for Antimicrobial Resistance in Cancer Patients and Cancer Survivors: An Electronic Health Record Study

Hu F. et al, (2026)

How to design a ROCI (Response Over Continuous Intervention) randomised trial: guidance and a case study

Quartagno M. et al, (2026), BMC Medical Research Methodology

Clinical mechanism of ribavirin action in Hepatitis C treatment: insights from the STOPHCV-1 randomised trial

Moradi Marjaneh M. et al, (2026)

Long-read sequencing of Mycobacterial tuberculosis is comparable to short-read sequencing for antimicrobial resistance prediction and epidemiological studies

Colpus M. et al, (2026)

Real-time modelling of the SARS-CoV-2 pandemic in England 2020–2023: a challenging data integration

Birrell PJ. et al, (2026), Journal of the Royal Statistical Society Series A: Statistics in Society, 189, 898 - 922

African-specific genetic loci determine iron status and risk of severe malaria and bacteremia in African children.

Muriuki JM. et al, (2026), Nature communications

Transmission of rifampicin-resistant tuberculosis in Ho Chi Minh City, Viet Nam: a prospective genomic epidemiology study

Spies R. et al, (2026)

Advancing monitoring of antimicrobial resistance trajectories using flexible spatiotemporal modelling: a change-point analysis

Allel K. et al, (2026), Wellcome Open Research, 10, 326 - 326

OxBreaker: species-agnostic pipeline for the analysis of outbreaks using nanopore sequencing

Reding C. et al, (2026)

Unraveling HCV Diversity and Resistance in Viet Nam: Implications for Treatment

Le Ngoc C. et al, (2026)

Identification and Masking of Artefactual and Misleading Within-Host Variants in Deep-Sequencing SARS-CoV-2 Data

Anker KM. et al, (2026)

Quantifying the non-medical costs patients incur to access hepatitis C treatment in Southern Vietnam

Nguyen HA. et al, (2026)

Predicting pyrazinamide resistance in Mycobacterium tuberculosis using a graph convolutional network

Dissanayake D. et al, (2026), BMC Microbiology, 26

Longitudinal Epidemiology and Variant Dynamics of SARS-CoV-2 in Coastal Kenya (2020–2025): Clinical Features and Wave Patterns

Lambisia AW. et al, (2026), Open Forum Infectious Diseases, 13

The potential of a centrally implemented system for national surveillance of bloodstream infections in England, compared to current local surveillance, 2023–2024

Cregan J. et al, (2026), Journal of Hospital Infection, 169, 5 - 14

Addressing pandemic-wide systematic errors in the SARS-CoV-2 phylogeny

Hunt M. et al, (2026), Nature Methods, 23, 653 - 662

Nanopore long-read-only genome assembly of clinical Enterobacterales isolates is complete and accurate

Nagy D. et al, (2026), Microbial Genomics, 12

Body Composition Changes in Children Living With HIV Initiated on Dolutegravir or Protease Inhibitors in the CHAPAS-4 Trial

Natukunda E. et al, (2026), Pediatric Infectious Disease Journal

Longitudinal changes in bone mineral density among children living with HIV over 96 weeks following switch to second-line antiretroviral therapy in Uganda

Natukunda E. et al, (2026), PLOS Global Public Health, 6, e0005979 - e0005979

Clinical validation of a novel metagenomic nanopore sequencing method for detecting viral respiratory pathogens: diagnostic accuracy study

Sanderson ND. et al, (2026)

Validation of an optimised Oxford Nanopore sequencing workflow versus Illumina for mycobacteria from primary MGIT culture

Baker CS. et al, (2026)

Pharmacokinetics and safety of fosfomycin and flomoxef administered as part of neonatal sepsis treatment (NeoSep1 Part 1)

Bekker A. et al, (2026), Antimicrobial Agents and Chemotherapy, 70

Defining recurrent urinary tract infection and reinfection risk: electronic health record study

Vazquez-Montes MDLA. et al, (2026), BJGP Open, BJGPO.2025.0239 - BJGPO.2025.0239

Short-Lived Success: Carbapenem-Resistant Enterobacterales Recolonization in Sinks Following Repeated Peroxide-Peracetic Acid-Based Foam Disinfection

Kotay S. et al, (2026)

ALARUM: Active One Health surveillance in LMICs to monitor and predict Antimicrobial Resistance Using Metagenomics – a cross-sectional study protocol

van der Sande MAB. et al, (2026), BMJ Open, 16, e107465 - e107465

A benchmark of expert-level academic questions to assess AI capabilities

Phan L. et al, (2026), Nature, 649, 1139 - 1146

Biofilm removal in hospital sink drains drives unintended surges in antibiotic resistance

Kotay SM. et al, (2026), npj Antimicrobials and Resistance, 4

The cumulative incidence and infection hospitalization risk of SARS-CoV-2 by variant: a longitudinal study in England

Gaughan C. et al, (2026), American Journal of Epidemiology, 195, 188 - 197

Individual and spatial heterogeneity of praziquantel efficacy against Schistosoma mansoni within the context of repeated mass drug administration

Iacovidou MA. et al, (2026)

Sotrovimab versus usual care in patients admitted to hospital with COVID-19 (RECOVERY): a randomised, controlled, open-label, platform trial

Abani O. et al, (2026), The Lancet Infectious Diseases, 26, 34 - 45

Malaria vaccine protection against intradermal or venous parasites: a randomized phase 2b human challenge trial

Kapulu MC. et al, (2026), Nature Medicine, 32, 178 - 185

Data-Driven Framework to Maximise the Value of Testing in Epidemic Contexts

Fearson E. et al, (2026)

How ready are we to use artificial intelligence in our fight against antimicrobial resistance? An ESGAID and EAAS perspective.

Giacobbe DR. et al, (2026), Expert review of anti-infective therapy, 24, 39 - 61

Library preparation strategy critically impacts RNA virus sensitivity in clinical metagenomics

Stepniak D. et al, (2026)

Low-dose yellow fever vaccination in infants: a randomised, double-blind, non-inferiority trial.

Kimathi D. et al, (2026), Lancet (London, England), 407, 497 - 504

Treatment of enteric fever (typhoid and paratyphoid fever) with cephalosporins: a Cochrane review

Kuehn R. et al, (2026), EMERGENCIAS, 38, 66 - 68

External validation of the Baseline Recurrence Risk in Cellulitis (BRRISC) score and the added impact of acute clinical response: a prospective cohort study

Cross ELA. et al, (2025), BMC Infectious Diseases, 25

Epidemiological, microbiological, and genomic risk factors for healthcare-associated Carbapenemase producing Enterobacterales (CPE) outbreaks: A systematic review

Nagy D. et al, (2025)

Acute kidney injury and death in severe falciparum malaria

Watson JA. et al, (2025)

The spatiotemporal distribution of substandard and falsified antimalarial medicines in Africa, 1996-2019

Adipo LB. et al, (2025)

It never rains but pours: disseminated nocardiosis in a renal transplant patient from Nigeria – a case report

Whitehead T. et al, (2025), BMC Infectious Diseases, 26

Characterizing the performance of an antibiotic resistance prediction tool, gnomonicus, using a diverse test set of 2,663 Mycobacterium tuberculosis samples

Westhead J. et al, (2025), Microbial Genomics, 11

The impact of different antimicrobial exposures on the gut microbiome in the ARMORD observational study

Peto L. et al, (2025), eLife, 13

The impact of different antimicrobial exposures on the gut microbiome in the ARMORD observational study

Peto L. et al, (2025)

2025 ICM: Use of Newer Antibiotics and Fluoroquinolone-Resistance

Sadek FZ. et al, (2025), The Journal of Arthroplasty, 41, S196 - S205

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