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 and 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

Willet et al. (2022) medRxiv 

---

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

Zhou et al. (2022) Cell Rep

---

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

Meng et al. (2021) Cell Rep

---

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

Collier et al. (2021) Nature

---

Genetic determinants of receptor-binding preference and zoonotic potential of H9N2 avian influenza viruses

Peacock et al. (2021) J Virol

---

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

Kemp et al. (2020) bioRxiv

---

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

Reeve et al. (2016) PLOS ONE

Selecting random effect components in a sparse hierarchical Bayesian model for identifying antigenic variability

Davies et al. (2016) In: Computational Intelligence Methods for Bioinformatics and Biostatistics. CIBB 2015. Lecture Notes in Computer Science

---

 Sparse Bayesian variable selection for the identification of antigenic variability in the foot-and-mouth disease virus

Davies et al. (2014) JMLR Workshop Conf Proc