2016 - 2020 DPhil Systems Biology
University of Oxford
2011 - 2015 MMath + BA Mathematics
University of Cambridge
Master's project on 'Strategic Equlibria in Voting', supervised by Felix Fischer
The Gibbard-Satterthwaite theorem shows that, with the exception of dictatorships, every voting rule for three or more alternatves is subject to strategic manipulations by voters. The project investigated a more general form of this theorem involving decision schemes, in adddition to finding when election outcomes could be obtained in a strategic equilibrium, i.e. a situation where individual voters have no incentive to change their votes.
12 Week Rotation Project on 'Multiscale Modelling of DNA-Protein Interactions' supervised by Radek Erban and Yuichi Togashi
The study of DNA-protein interactions relies heavily on the use of molecular dynamics simulations to gain and insight into the workings of these complex mechanisms. Improving the efficiency of these simulations without comprosimising on accuracy is therefore cleary pertinent. In this project, we started with a simple Hamiltonian model of a bead-spring polymer chain in a heat bath of harmonic oscillators and solved the equations of motion numreically. After briefly investigating and visualising cases with longer polymers, we transformed this model and applied a Dirac delta approximation to simplify an integral in the equations of motion. After this we focused our attentions on the single particle case, finding an analytic solution with dynamics entirely dependent on initial conditions. Finally, by approximating the noise term in our transformed model as a Wiener process we were able to create a Langevin model, with much higher computational efficiency than the original Hamiltonian model.
12 Week Rotation Project on 'Modelling the T-Cell Signalling Pathway' supervised by Omer Dushek
Increasing evidence suggests that signal transduction cascades may be composed of interlinked modular network architectures or motifs, for example negative feedback and incoherent feed forwards. In this project, T cells were stimulated by a large variation of ligand affinities and doses and a number of different responses, and the internalisation of receptor-ligand complexes was measured. Without making any prior assumptions about the specific signalling proteins, we aimed to produce the groundwork for an adaptive Bayesian inference methods to identify ODE signalling architectures compatible with our data, along with analysing the parameter distributions and relationships for the selected models.
DPhil Project on 'Multiscale Modelling in Molecular Dynamics' supervised by Radek Erban
Following on from the rotation project, we will continue to work on the multiscaling approach to molecular dynamics simulations.