Imperial College London


Faculty of MedicineSchool of Public Health

Lecturer in Genetic Analysis



+44 (0)20 7594 3658t.jombart Website




UG11Norfolk PlaceSt Mary's Campus





I am a biometrician working on statistical genetics of pathogen populations. I am currently working as a research associate with Neil Ferguson, Christophe Fraser and Simon Cauchemez. My work aims to develop novel statistical approaches for extracting information from pathogen genomes and gain insights into the spatio-temporal dynamics of infectious diseases. The methodological approaches I use include multivariate analysis, Bayesian statisticsspatial statisticsgraph theory, and phylogenetics. I am also interested in using simulations to understand which and how biological processes shape the genetic diversity observed in biological populations.


I am also extensively involved with the development of free software for the analysis of genetic and epidemiological data. I have recently organized a R hackathon on disease outbreak modelling using molecular data, hosted by the MRC Center for Outbreak Analysis and Modelling in January 2013

I am author or contributor for the following R packages:

- adegenet (author): multivariate analysis for genetic/genomic data

- adephylo (author): tools for testing and describing the  phylogenetic signal

- geoGraph (author): large-scale modelling of spatial data

- ade4 (contributor): multivariate analysis, graphics, spatial statistics

phylobase (contributor): handling and analyses of phylogenetic comparative data

- sedaR (contributor): spatial statistics for ecological data

- outbreaker (author): Bayesian reconstruction of disease outbreaks using genomic data

- epibase (author): basic tools for the disease outbreak analysis



More information is available from my  webpage.



Bertranpetit E, Jombart T, Paradis E, et al., 2017, Phylogeography of Toxoplasma gondii points to a South American origin, Infection Genetics and Evolution, Vol:48, ISSN:1567-1348, Pages:150-155

Cori A, Donnelly CA, Dorigatti I, et al., 2017, Key data for outbreak evaluation: building on the Ebola experience, Philosophical Transactions of the Royal Society B-biological Sciences, Vol:372, ISSN:0962-8436

Dupuis JR, Bremer FT, Jombart T, et al., 2017, mvMapper: interactive spatial mapping of genetic structures., Mol Ecol Resour

Garske T, Cori A, Ariyarajah A, et al., 2017, Heterogeneities in the case fatality ratio in the West African Ebola outbreak 2013-2016, Philosophical Transactions of the Royal Society B-biological Sciences, Vol:372, ISSN:0962-8436

Inns T, Ashton PM, Herrera-Leon S, et al., 2017, Prospective use of whole genome sequencing (WGS) detected a multi-country outbreak of Salmonella Enteritidis, Epidemiology and Infection, Vol:145, ISSN:0950-2688, Pages:289-298

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