Simon Tavaré FRS, FMedSci

Dept of Applied Mathematics and Theoretical Physics
University of Cambridge
Centre for Mathematical Sciences
Wilberforce Road
Cambridge CB3 0WA

Phone: + 44 1223 760420
FAX: +44 1223 765900
Email: st321 at cam dot ac dot uk

Biographical Sketch

I am a Professorial Fellow of Christ's College, and have been a Professor in the Department of Applied Mathematics and Theoretical Physics at the University of Cambridge since 2003. I am chairman of the management committee of the Cambridge Computational Biology Institute, Co-Director of its MPhil in Computational and Systems Biology and Director of its new Wellcome Trust 4-year PhD program in Mathematical Genomics and Medicine. I am a Fellow of the Society of Biology (FSB) and the Institute of Mathematics and its Applications (FIMA), and in 2011 I was elected as a Fellow of the Royal Society (FRS).

My research in DAMTP focusses on stochastic computation methods such as MCMC without likelihoods and approximate Bayesian computation; on theoretical population genetics, including inference for coalescent processes; and statistical genetics, including novel methods for identifying interacting features in association studies.

I am also Professor of Cancer Research (Bioinformatics) in the Department of Oncology and Senior Group Leader in the Cancer Research UK Cambridge Research Institute (CRI). In 2009 I was elected as a Fellow of the Academy of Medical Sciences (FMedSci), and I am serving on Council during 2011-2014.

Our research in the CRI focusses on cancer genomics, primarily the statistical analysis of microarray and second-generation sequencing technologies to study e.g. gDNA, expression, methylation, microRNAs and transcription factor binding. We have a particular emphasis on analysis of data from Illumina platforms. With Rebecca Fitzgerald we have recently begun a CRUK-funded International Cancer Genome Consortium project to sequence 500 matched oesophageal adenocarcinoma-normal pairs. A second theme is the development of statistical and stochastic methods (such as cellular Potts models) arising in evolutionary approaches to cancer. We have developed a high-throughput experimental method for identifying methylation status in single molecules that we use to study tissue evolution. Further details of our research at the CRI may be found here.

I am an associate editor of Annals of Human Genetics, Journal of Computational Biology and Statistics Surveys, on the Editorial Board of CaPR (Cancer Prevention Research), MathematicS In Action, Human Genomics, and Evolutionary Bioinformatics Online. and past Associate Editor or Editorial Board member for 12 other journals in probability, statistics and biology.

I have a long-standing connection with the Program in Molecular and Computational Biology at the University of Southern California, where I am a Research Professor and hold the George and Louise Kawamoto Chair in Biological Sciences. Further information may be found here.

I am on Advisory Boards of a number of other Institutes and Consortia:

CV and Publications

Research Funding

We are supported by grants from BBSRC, EPSRC, MRC and Cancer Research UK.

Associate Scientist

  • Andrew Lynch

Research Associates

  • Shamith Samarajiwa
  • Benilton Carvalho
  • Nick Shannon
  • Edward Morrissey
  • Ernest Turro
  • Nick Marko (AANS Van Wagenen Fellow, 2011-2012)
  • Anestis Touloumis (joint with EBI)

Senior Scientific Officer

  • Inma Spiteri

Research Students

  • Andrea Sottoriva
  • Michael Smith
  • Jonathan Cairns
  • Daniel Andrews
  • Alex Tunnicliffe

Research Visitors

  • Rishi Kanungo. IIT Guwahati. (Summer Intern, May - July 2011)
  • Daniel Goodman (Oct 2008 - Aug 2009)
  • Alexandra Jauhiainen. Chalmers University, Gothenburg (Sept - Dec 2008, Apr - Jun 2009, Nov - Dec 2009)
  • Ian Saunders. CSIRO, Adelaide (Sept - Dec 2008)
  • Chong Yew Tan (Nov - Dec 2009)

Former Postdocs

  • Mary Sara McPeek (1994-1995) Professor, Departments of Statistics and Human Genetics, University of Chicago
  • Paul Marjoram (1995-1998) Research Associate Professor, USC Keck School of Medicine
  • Jae K. Lee (1995-1997) Professor and Director, Division of Biostatistics, University of Virginia
  • Sophie Schbath (1996) INRA, France
  • Anna Pluzhnikov (1996-1998) Research Associate, Cox Lab, University of Chicago
  • Semyon Kruglyak (1998-2000) Illumina, Inc.
  • Daniela Golinelli (2000-2002) Statistician, RAND Corporation
  • Pierre Nicolas (2004-2005) INRA, France
  • Noah Rosenberg (2001-2004) Department of Biology, Stanford University
  • Peter Calabrese (2001-2004) CMB, USC
  • Claudia Rangel (2003-2006) INMEGEN, Mexico City
  • Andrew E. Teschendorff (2005-2006) Heller Fellow, UCL Cancer Centre, London
  • Natalie P. Thorne (2004-2008) Senior Postdoc, WEHI, Melbourne.
  • Irene Tiemann-Boege (2007-2008) University Assistant, Instititue of Biophysics, Johannes Kepler University, Linz, Austria.
  • Matthew E. Ritchie (2006-2008) Senior Research Officier, WEHI, Melbourne.
  • Nuno Barbosa-Morais (2005-2010) Senior Postdoctoral Fellow, Blencowe Lab, University of Toronto.
  • Christina Curtis (2007-2010) Assistant Professor, USC Keck School of Medicine.
  • Audrey Fu (2008-2011) Postdoc, Stephens Lab, University of Chicago.

Former Research Students

  • P. J. Joyce (PhD 1988) Professor, Department of Mathematics and Statistics, University of Idaho
  • R. S. Lundstrom (PhD 1990) Director of Software Engineering, Idaho Technology Inc., Salt Lake City
  • L. Markovtsova (PhD 2000) Bioinformatician, Roche Pharmaceuticals
  • O. Will (PhD 2001) Ipsos, Los Angeles
  • J. Wu (PhD 2001) Model validation analyst, PNC Bank
  • K. Millman (PhD 2005) The Millman Clinic, San Jose
  • D. Abdueva (PhD 2006) Affymetrix Inc.
  • D. Skvortsov (PhD 2006) Illumina Inc.
  • R. Jiang (PhD 2006) Affymetrix, Inc.
  • V. Plagnol (PhD 2006) Lecturer, UCL Genetics Institute
  • O. Sargsyan (PhD 2006) Leitner Lab, Los Alamos National Labs
  • W. Xu (PhD 2006) Statistician, Genome Technology Center, Stanford
  • R. Alaghband (PhD 2007)
  • C. Curtis (PhD 2007) Assistant Professor, USC Keck School of Medicine
  • J. C. Marioni (PhD 2007) Group Leader, EBI
  • R. D. Wilkinson (PhD 2007) Lecturer, Mathematics Department, University of Nottingham
  • M. J. Dunning (PhD 2008) Bioinformatics Core, Cancer Research UK CRI
  • I. Manolopoulou (PhD 2009) Visiting Assistant Professor, Department of Statistical Science, Duke University
  • T. Hardcastle (PhD 2009) [joint with JD Brenton] Postdoc, Baulcombe Lab, Cambridge
  • D. Grover (PhD 2009) Associate, Reiser Lab, HHMI Janelia Farm
  • L. D. Goldstein (PhD 2010) Postdoc, Gentleman Lab, Genentech
  • C. Spyrou (PhD 2010) Head of Biostatistics and Regulatory Affairs, NIPD Genetics Ltd, Cyprus
  • S. Ivakhno (PhD 2011) Illumina UK
  • S. Knott (PhD 2011) [joint with O. Aparicio] Postdoc, Hannon lab, CSHL
  • D. C. Speed (PhD 2011) Postdoc, Balding Lab, UCL Genetics Institute
  • J. Woolford (PhD 2011) [joint with EA Miska]

Former Systems Assistants

  • Isabelle Camilier (Apr - Jul 2005)
  • Michael Smith (Aug 2005 - Aug 2006)

http://www.damtp.cam.ac.uk/user/st321/index.html, 8 February 2012