Research Associate, Nuffield Department of Medicine
I am a researcher in pathogen phylodynamics, with a particular interest in inference of who infected who. I am also interested in investigating the effects of sampling bias in molecular epidemiological studies. I obtained my PhD in 2015 at the University of Edinburgh under Professor Mark Woolhouse and Professor Andrew Rambaut. I currently work at the BDI with Professor Christophe Fraser on the BEEHIVE project, focussing on the reconstruction of transmission patterns within a very large and rich dataset of next-generation HIV sequences.
Software in which I have a hand:
Phyloscanner (construction of phylogenies and investigation of transmission in large genetic datasets)
TTsampler (an R package for enumeration and uniform sampling of transmission trees for a fixed phylogeny)
PHYLOSCANNER: Inferring Transmission from Within- and Between-Host Pathogen Genetic Diversity.
Wymant C. et al, (2017), Mol Biol Evol
Phylogenetics between and within hosts along the genome reveals transmission, dual infections, recombination and contamination
Wymant CM. et al, (2017)
Viral genetic variation accounts for a third of variability in HIV-1 set-point viral load in Europe.
Blanquart F. et al, (2017), PLoS biology, 15, e2001855 - e2001855
Phylogenetic Tools for Generalized HIV-1 Epidemics: Findings from the PANGEA-HIV Methods Comparison.
Ratmann O. et al, (2017), Molecular biology and evolution, 34, 185 - 203
Patients', clinicians' and the research communities' priorities for treatment research: there is an important mismatch.
Crowe S. et al, (2015), Res Involv Engagem, 1