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Cambridge Immunology Network

 

Research

The research programme proposes to develop a range of improved statistical techniques and algorithms for finding important combinations of features in large genetic and genomics datasets that characterise or predict health outcomes and for carrying out integrative analyses to characterise heterogeneous disease processes. The new methods will be accompanied by the development of freely available software and will be used in a number of collaborative projects to improve understanding of the regulation of genes and immunological response, to study gene-environment interactions and to develop biomarker-based prognostic signatures.

Publications

Key publications: 

Bottolo, L., Chadeau-Hyam, M. coll. & Richardson, S. (2013). GUESS-ing polygenic associations with multiple phenotypes using a GPU-based Evolutionary Stochastic Search algorithm. PLOS Genetics. In press.

Papathomas, M., Molitor, J., Hoggart, C., Hastie, D. & Richardson, S. (2012). Exploring Data from Genetic Association Studies Using Bayesian Variable Selection and the Dirichlet Process: Application to Searching for Gene × Gene Patterns. Genetic Epidemiology. 36: 663-674.

Bottolo, L., Chadeau-Hyam, M., Hastie, D.I., Langley, S.R., Petretto, E., Tiret, L., Tregouet, D. & Richardson, S. (2011). ESS++: a C++ objected-oriented algorithm for Bayesian stochastic search model exploration. Bioinformatics, 27: 587-588.

Bottolo, L., Petretto, E., Blankenberg, S., Cambien, F., Cook, S.A., Tiret, L. & Richardson, S. (2011). Bayesian detection of expression quantitative trait loci hot spots. Genetics. 189:1449-1459.

Turro, E., Su, S-Y., Goncalves, A., Coin, L.J.M., Richardson, S. & Lewin, A. (2011). Haplotype and isoform specic expression estimation using multi-mapping RNA-seq reads. Genome Biology, 12: R13.

Petretto, E., Bottolo, L., Langley, S. R., Heining, M., McDermott-Roe, C., Sarwar, R., Pravenec, M., Hübner, N., Aitman, T. J., Cook, S. A. & Richardson, S. (2010). New Insights into the Genetic Control of Gene Expression using a Bayesian Multi-tissue Approach. PLoS Comput Biol  6(4): e1000737.

Bottolo, L. & Richardson, S. (2010). Evolutionary Stochastic Search for Bayesian model exploration. Bayesian Analysis, 5(3), 583—618.

Ratmann, O., Andrieu, C., Wiuf, C. & Richardson, S. (2009). Model criticism based on likelihood-free inference, with an application to protein network evolution. Proc Natl Acad Sci USA. 106:10576-10581.

Lewin, A., Richardson, S., Marshall, C., Glazier, A. & Aitman, T. (2006). Bayesian modelling of differential gene expression. Biometrics, 62:1-9.

Professor Sylvia  Richardson
Not available for consultancy

Affiliations

Classifications: 
Person keywords: 
clustering
multiphenotype analysis
Dirichlet Process modelling
high dimensional data
biomarker based signatures
integrative genomics
network modelling
information synthesis
Bayesian inference
population MCMC
eQTL analysis
Gaussian processes
differential equations
sparse regression
gene-environment interactions
model uncertainty
penalised regression
gene regulation
structural equation models