Emma C. Thomson

The paper investigates the emergence of the influenza A/H3N2 K subclade, finding limited antigenic change and age-dependent vaccine responses, suggesting non-antigenic selection pressures.

The paper identifies manufacturing plasmid sequences and disrupted vector genomes in liver tissue from a patient with AAV gene therapy-related hepatitis.

The paper estimates the timeline and parameters of an influenza A(H1N2)v spillover event using likelihood-free rejection sampling with limited data.

The paper analyzes antibody neutralization data from multiple countries to assess how prior exposure to SARS-CoV-2 variants affects neutralization profiles of BA.2.86 and its descendants.

This study uses metagenomic sequencing to identify a diverse range of viruses in Ugandan mosquitoes, revealing many novel species with potential human and animal pathogenicity.

The paper explores the acceptability of rapid whole genome sequencing for managing nosocomial SARS-CoV-2 infections through interviews with healthcare professionals.

Periscope identifies and quantifies sub-genomic RNAs in SARS-CoV-2 genomic data, detecting canonical and non-canonical sgRNAs with high fidelity.

This study analyzes within-host SARS-CoV-2 diversity and transmission patterns using 1390 UK clinical samples, finding low within-host diversity and a narrow transmission bottleneck.

GLUE is a flexible software system for organizing and processing virus sequence data, demonstrated with a hepatitis C virus case study.

The paper examines the impact of IFN-lambda4 on HCV diversity using host and viral genetic data from 485 patients, finding that IFN-lambda4 variants influence viral amino acid diversity and load.