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Senior Researcher in Statistical Genetics and Pathogen Dynamics

Chris Wymant

Chris Wymant

CORONAVIRUS NOTE: I am currently working on coronavirus. Read more about our group's work here. I am unavailable for interview. For media enquiries relating to the NHS COVID-19 app, consider reaching out to the app's communication team, or to Christophe Fraser, Luca Ferretti, Lucie Abeler-Dorner, David Bonsall, or Michelle Kendall.


After a PhD and some postdoctoral research in theoretical particle physics, I decided to join Christophe Fraser's group, at Imperial College London 2014-2016 and subsequently here in the Big Data Institute. I work on HIV genomics and epidemiology as part of the BEEHIVE project: analysing viral genetic data, in conjunction with patient clinical data, to gain insight into the viral-molecular basis of infection severity.

I wrote the tools shiver for reconstructing HIV (and other viral) genomes from short read data, and phyloscanner (with Matthew Hall and Christophe) for analysing within- and between-host pathogen genetic diversity. Here are some slides about shiver and phyloscanner and related ideas; here's a webinar in which I go through some of those slides. A few other bits of my code for working with sequence data are here.

My publications are here. (Here is an open-access link to the only one of those that's paywalled, on academic institutional policy on flying: Jean and Wymant, Science 2019.)

While at Imperial I taught Core Mathematics for masters courses in public health and epidemiology. Here is some material I wrote for this: the quiz testing all of the material covered, and the answers; basic manipulation of numbers - the slides for 2015 and prose-style notes from 2014; inequalities, functions and units - slides for 2015, solutions to the problems, and prose-style notes from 2014; probability parts one and two; calculus in more detail; a bit of supplementary material about trigonometric, exponential and logarithmic functions, and matrices.

Assorted useful links:

Recent publications

More publications