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- Chair in Computational Biology Systems Biology
- UCL Genetics Institute
- Div of Biosciences
- Faculty of Life Sciences
I studied at the University of Lausanne in Switzerland and obtained a Masters and PhD from the same institution in 1996, and 2000, respectively. After a brief stay at the University of Bern, I moved to Edinburgh, first as a postdoctoral research associate and then as a postdoctoral fellow.
At the end of 2002, I was offered a lectureship in the Department of Genetics in Cambridge. I built up a successful research group and stayed there for five years. In 2007, I decided to leave Cambridge to join the newly formed MRC Centre for Outbreak Analysis and Modelling within the Department of Infectious disease epidemiology at Imperial College London. I again spent five years there as a Reader and left in 2012 to become professor of Computational Systems Biology at UCL.
Over recent years, we have witnessed tremendous progress in genomic technologies. As a result we are now in a position to sequence large numbers of genomes from a variety of organisms in no time and at reasonable cost. However, genomic data in itself does little more than clogging up computers.
In order to extract meaningful biological information from genomic data, we need dedicated methodological tools. This is where we fit in and our mission statement is to harness genomic information by developing, refining and applying computational tools to genomic datasets to address important and interesting scientific questions.
Our core interest is to use genomic data to reconstruct the past population history of a variety of organisms. We work on the reconstruction of infectious disease outbreaks and epidemics on a series of human (tuberculosis, MRSA, the plague, malaria, VZV, HCMV) and wildlife pathogens (Batrachochytrium dendrobatidis, ranavirus). Over recent times we have been increasingly focusing on the factors that allow some lineages to be more successful than others. One aspect of this work is the prediction of drug resistance and their associated fitness costs from genome sequence data.
Our work spans a large spectrum ranging from the fundamental (e.g. reconstructing historical plague pandemics) to the applied (e.g. tracking MRSA infections in hospital wards). Indeed, we do not feel there must be a divide between fundamental and applied science, and while our research is primarily driven by scientific curiosity, we aim at contributing with our work to the genomic revolution in medicine, public health and conservation biology.
I am the course organizer for the first year Quantitative Biology course (Biol 1006). I also run the tools module in MRes in Biodiversity, Evolution and Conservation. I also contribute a few hours in several third year and postgraduate courses.