Imperial College London


Faculty of Natural SciencesDepartment of Mathematics

Reader in Biomathematics



+44 (0)20 7594 2647c.colijn Website




626Huxley BuildingSouth Kensington Campus





My work is at the interface of mathematics and the epidemiology and evolution of pathogens. I hold an EPSRC Fellowship with the broad aim to develop the mathematical tools to connect sequence data for pathogens to pathogen ecology. I also have a long-standing interest on the dynamics of diverse interacting pathogens. For example, how does the interplay between co-infection, competition and selection drive the development of antimicrobial resistance? To answer these questions, my group is building new approaches to analysing phylogenetic trees derived from pathogen sequence data, studying tree space and branching processes, and doing ecological and epidemiological modelling. 


I have varied teaching responsibilities including matlab, dynamical systems, project supervision and working with summer undergraduate reseachers. 


Michelle Kendall and I have developed an approach to comparing phylogenetic trees (and other branching trees). It uses a novel metric on rooted trees, which can help to tease out different evolutionary stories making up a group of trees. 

 You can play with the tool online here using the web-based tree comparison tool that Michelle has developed. 

We also have an R package: treescape



Sartelli M, Weber DG, Ruppe E, et al., 2017, Antimicrobials: a global alliance for optimizing their rational use in intra-abdominal infections (AGORA) (vol 11, 33, 2016), World Journal of Emergency Surgery, Vol:12, ISSN:1749-7922

Cobey S, Baskerville EB, Colijn C, et al., 2017, Host population structure and treatment frequency maintain balancing selection on drug resistance, Journal of the Royal Society Interface, Vol:14, ISSN:1742-5689

Fyson N, King J, Belcher T, et al., 2017, A curated genome-scale metabolic model of Bordetella pertussis metabolism, Plos Computational Biology, Vol:13, ISSN:1553-734X

Ratmann O, Wymant C, Colijn C, et al., 2017, HIV-1 full-genome phylogenetics of generalized epidemics in sub-Saharan Africa: impact of missing nucleotide characters in next-generation sequences., Aids Res Hum Retroviruses

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