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Research Students

Bartu Ahiska Reference-free identification of variation in multi-genomic short-read datas using a statistical model
Supervisor: Gil McVean
Nicolas Altemose
Supervisor: Simon Myers
James Anderson
Genome Analysis and Bioinformatics Group
Gaussian processes in gene regulatory networks
Supervisor: Jotun Hein
Mohamad Azim Ansari
functional data analysis of structural genomic variations in cancer in relation to association studies
Supervisors: Rory Bowden and Xavier Didelot

Jeremie Becker
Integration of epigenetic, genomic and gene expression properties for the detection of regulatory polymorphisms
Supervisors: Chris Holmes, Oxford and John Hancock, MRC Harwell
Dirk Bester
Supervisor: David Steinsaltz
Thomas Chittenden Integration of novel analytical methods for robust feature selection and functional annotations of expression profiling data in human disease
Supervisors: Chris Holmes, Oxford and John Quackenbush, Harvard
Yoonjoo Choi

Oxford Protein Informatics Group
Protein loop structure prediction
Supervisor: Charlotte Deane
Tze Leung Choy Distance metric learning using rule ensembles
Supervisor: Nicolai Meinshausen
Claire Churchhouse
Bayesian methods for estimating human ancestry using whole genome SNP data
Supervisor: Jonathan Marchini
Alexander Dilthey
Integrating genetics information from multiple sources to infer the architecture of disease risk within the HLA
Supervisor: Gil McVean
James Dunbar
Oxford Protein Informatics Group
Supervisors: Charlotte Deane, Jiye Shi (UCB Celltech), Angelika Fuchs (Roche)
Jean-Paul Ebejer
Oxford Protein Informatics Group
On the computational search of PFSUB1 inhibitors
Supervisors: Charlotte Deane and Garrett Morris
Hannah Edwards
Oxford Protein Informatics Group
Supervisor: Charlotte Deane
Zhou Fang
Sparse concave penalisation methods in high demand nonparametric regression
Supervisor: Nicolai Meinshausen
Peter Forbes
Graphical models
Supervisor: Steffen Lauritzen
Marie Forest
Mathematical Genetics
Supervisors: Simon Myers and Jonathan Marchini
Jedidiah Francis Mathematical Genetics
Measuring the rate of early evolution in HIV infection
Supervisor: Gil McVean
Anna Frangou
Supervisors: Simon Myers and Gil McVean
Eleni Frangou Bayesian methods for fine mapping in genetic association studies
Supervisor: Jonathan Marchini
Chris Gamble
Approximate Bayesian Methods for inferring signals of natural selection
Supervisor: Chris Holmes
Robert Gaunt Rates of convergence of variance-Gamma approximations via Stein's Method
Supervisor: Gesine Reinert
Helene Gehrmann Graphical Gaussian models with symmetries
Supervisor: Steffen Lauritzen
Mireille Gomes Oxford Protein Informatics Group
Role of mutual information for predicting contact sites in proteins
Supervisor: Charlotte Deane
Therese Graversen
Statistical applications of local computation in graphical structures
Supervisor: Steffen Lauritzen
Tristan Gray-Davies
Supervisor: Chris Holmes
Charlotte Greenan

Stochastic actor oriented models for dynamic networks
Supervisor: Tom Snijders

Ross Haines
Supervisor: Geoff Nicholls
Eliana Hechter
Mathematical Genetics
Estimating effect sizes in genome-wide association studies
Supervisor: Peter Donnelly
Joe Herman Genome Analysis and Bioinformatics Group
Supervisor: Jotun Hein

Jamie Hill
Oxford Protein Informatics Group
Improving the alignment and structure prediction of membrane proteins through membrane constraints
Supervisor: Charlotte Deane
Eleanor Howe
MicroRNA profiles of two classes of serous epithelial ovarian cancer
Supervisors: Chris Holmes, Oxford and John Quackenbush, Harvard
Martha Imprialou
Genome Analysis and Bioinformatics Group
Supervisor: Jotun Hein
Valentina Iotchkova

Joint Bayesian analysis of multiple quantitative traits in genome wide association studies
Supervisor: Jonathan Marchini

Hongyu Jiang Stochastic models in mathematical population genetics
Supervisor: Bob Griffiths
Robert Johnson Incorporation of spatio-temporal information into independent component analysis for functional magnetic resonance imaging
Supervisor: Jonathan Marchini
Ravi Kalia Ordinal classification using kernel methods
Supervisor: Brian Ripley
Christiana Kartsonaki
Supervisors: Sir David Cox and Tom Snijders
Adam Kay
Supervisor: Peter Clifford
Peter Kecskemethy Statistical methods of the analysis of indels for next generation sequencing data
Supervisors: Chris Holmes and Jonathan Marchini
Sebastian Kelm
Oxford Protein Informatics Group
Structural modelling of transmembrane domains
Supervisor: Charlotte Deane
Faisal Khan
Oxford Protein Informatics Group
Bioinformatics and experimental analysis of mitotic microtubule-associated proteins in Drosophila
Supervisors: Charlotte Deane and James Wakefield, University of Exeter
Konrad Krawczyk
Oxford Protein Informatics Group
Supervisors: Charlotte Deane and Dr Jiye Shi
Imre Kvasznicza
Cultural transmission of fitness in population genetics
Supervisor: Alison Etheridge

Anna Lewis
Oxford Protein Informatics Group
Connecting network structure and biological function
Supervisor: Charlotte Deane
Yuan Yuan Liu Monte Carlo generation of classification trees
Supervisor: Brian Ripley
Philip Locascio
A hybrid G-protein coupled neurotensin receptor (NTS1) with wild type EnvZ expressed in E coli.
Charalambos Loizides
Analysis of case-cohort-control designs increasing the power of genotype association tests
Supervisor: Chris Holmes
Joshua Lospinoso Statistical models for social network dynamics
Supervisor: Tom Snijders
Davis McCarthy
Supervisor: Peter Donnelly
Melissa Maczka
Supervisors: Jonathan Marchini and Mark Woolrich, Dept of Psychiatry

Julian Maller
Mathematical Genetics
Fine Scale mapping of genetic loci associated with human disease
Supervisor: Peter Donnelly
Androniki Menelaou
SNP calling from next-sequencing reads: application to 100 Genomes data
Supervisor: Jonathan Marchini
Luke Miller
Supervisor: Alison Etheridge
Alexis Muir Watt
Supervisor: Geoff Nicholls
Loukas Moutsianas
Statistical methods for accommodating error and uncertainty in the analysis of large genomic variation data
Supervisor: Gil McVean
Gurjinder Singh Mohan
Supervisor: David Steinsaltz
Anne-Marie Oreskovich Supervisor: John Gittins
Duncan Palmer
Supervisors: Gil McVean and Angela McLean, Dept of Zoology

Susanne Pfeifer
Statistical challenges in the detection of mutation and variation using high-throughput sequencing
Supervisor: Gil McVean
Paulina Preciado Lopez

Stochastic actor-oriented models for large network dynamics
Supervisor: Tom Snijders

Cornelius Probst Stochastic Modelling and Sequential Monte Carlo Methods
Supervisor: Peter Clifford
Joshua Randall
Large-scale genetic analysis of quantitative traits
Supervisors: Chris Holmes and Cecilia Lindgren, Wellcome Trust Centre for Human Genetics
David Reshef A general measure of dependence
Supervisor: Gil McVean
Tiago Rito
Oxford Protein Informatics Group
Comparison of protein interaction networks using subgraph counts
Supervisor: Charlotte Deane

Habib Saadi
Evolution on a spatial continuum
Supervisor: Alison Etheridge
Kayvan Sadeghi
Representing modified independence structures
Supervisor: Steffen Lauritzen
Philipp Schmidt
Multi-type interacting particle systems
Supervisors: James Martin and Colin McDiarmid
Fiona Skerman
Supervisor: Colin McDiarmid
Yunli Song
Supervisors: Gil McVean and Simon Myers

Daniel Straulino
Supervisor: Alison Etheridge
Aimee Taylor
Supervisors: Chris Holmes, Philippe Guerin, Jennifer Flegg
Tjun Kiat Teo Statistical learning models when each known class is composed of unknown subclasses
Supervisor: Brian Ripley
Afidalina Tumian
Mathematical Genetics
The evolution of recombination hotspots and of their relationship with DNA sequences
Supervisor: Simon Myers
Isaac Turner
Supervisor: Gil McVean

James Watson
Supervisors: Chris Holmes and Alexander Manta (Roche)
Quin Wills
microRNA expression in an African and European population
Supervisor: Chris Holmes
Henry Wilman
Oxford Protein Informatics Group
Supervisors: Charlotte Deane and Jiye Shi (UCB Celltech)
Yang Wu
Optimising the profit and loss distribution with high-frequency financial data
Supervisors: Brian Ripley and Peter Clifford
Denise Xifara A method for detecting recent coancestry in genetic variation data and its application to haplotype estimation
Supervisor: Gil McVean
Yoon-Dong Yu Diffusion simulation of protein molecules through cytoplasm of E.Coli
Supervisor: Andrew Dalby