SARS-CoV-2 evolution and patient immunological history shape the breadth and potency of antibody-mediated immunity
Manali et al. (2022) bioRxiv
A Bayesian approach to incorporate structural data into the mapping of genotype to antigenic phenotype of influenza A(H3N2) viruses
Harvey et al. (2022) bioRxiv
Tracking SARS-CoV-2 mutations & variants through the COG-UK-Mutation Explorer
Wright et al. (2022) Virus Evol
The hyper-transmissible SARS-CoV-2 Omicron variant exhibits significant antigenic change, vaccine escape and a switch in cell entry mechanism
Population genomics of Bacillus anthracis from an anthrax hyperendemic area reveals transmission processes across spatial scales and unexpected within-host diversity
Forde et al. (2022) Microb Genom
Mutations that adapt SARS-CoV-2 to mink or ferrets do not increase fitness in the human airway
Reduced neutralisation of the Delta (B.1.617.2) SARS-CoV-2 variant of concern following vaccination
Davis et al. (2021) PLOS Pathog
Recurrent emergence of SARS-CoV-2 spike deletion H69/V70 and impact on B.1.1.7
SARS-CoV-2 variants, spike mutations and immune escape
Harvey et al. (2021) Nat Rev Microbiol
Sensitivity of SARS-CoV-2 B.1.1.7 to mRNA vaccine-elicited antibodies
Genetic determinants of receptor-binding preference and zoonotic potential of H9N2 avian influenza viruses
Different environmental gradients associated to the spatiotemporal and genetic pattern of the H5N8 highly pathogenic avian influenza outbreaks in poultry in Italy
Scolamacchia et al. (2021) Transbound Emerg Dis
Spatiotemporal reconstruction and transmission dynamics during the 2016-17 H5N8 highly pathogenic avian influenza epidemic in Italy
Harvey et al. (2021) Transbound Emerg Dis
Recurrent emergence and transmission of a SARS-CoV-2 spike deletion H69/V70
Genetic basis of antigenic variation of SAT3 foot-and-mouth disease virus
Maake et al. (2020) Front Vet Sci
Genomic and immunogenic protein diversity of Erysipelothrix rhusiopathiae isolated from pigs in Great Britain: implications for vaccine protection
Forde et al. (2020) Front Microbiol
Improving the identification of antigenic sites in the H1N1 influenza virus through accounting for the experimental structure in a sparse hierarchical Bayesian model
Davies et al. (2019) J Royal Stat Soc C
The molecular basis of antigenic variation among A(H9N2) avian influenza viruses
Peacock et al. (2018) Emerg Microbes Infect
Integrating patient and whole genome sequencing data to provide insights into the epidemiology of seasonal influenza A(H3N2) viruses
Goldstein et al. (2017) Microb Genom
A sparse hierarchical Bayesian model for detecting relevant antigenic sites in virus evolution
Davies et al. (2017) Comput Stat
Identification of low- and high-impact hemagglutinin amino acid substitutions that drive antigenic drift of influenza A(H1N1) viruses
Harvey et al. (2016) PLOS Pathog
Tracking the antigenic evolution of foot-and-mouth disease virus
Selecting random effect components in a sparse hierarchical Bayesian model for identifying antigenic variability
Sparse Bayesian variable selection for the identification of antigenic variability in the foot-and-mouth disease virus
Will Harvey 