Julia in Computational Biology
Details
Julia in Computation Biology
by: DR. MARC STURROCK
Center for Systems Medicine
Royal College of Surgeons in Ireland
123 St. Stephen's Green, Dublin 2, Ireland
I will talk about my experience of using Julia to develop, simulate and calibrate mathematical models of biological/chemical systems. I will focus on one classical model (Michaelis menten kinetics) which I will solve using various different modelling frameworks (ordinary differential equations, stochastic differential equations, stochastic simulation algorithms, delay differential equations, partial differential equations and stochastic partial differential equations).
I will share my experiences using the following packages
• Plots.jl
About the speaker:
Dr. Sturrock is a Lecturer in Biophysics and Computational Biology in the Department of Physiology. He received his B.Sc. Applied Mathematics from the Unviersity of Dundee in 2009. He then stayed on to complete his PhD under the supervision of Prof. Mark Chaplain (http://www.mcs.st-andrews.ac.uk/~majc/) and received his Ph.D. in 2013. His thesis research examined spatio-temporal models of gene regulatory networks containing negative feedback loops. Dr. Sturrock then completed a Post Doctoral Research Fellowship at the Mathematical Biosciences Institute (http://mbi.osu.edu/) within The Ohio State University (http://www.osu.edu/). Here he worked on projects in macromolecular crowding under the mentorship of Prof. Radek Erban (https://people.maths.ox.ac.uk/erban/) and cell polarization under the mentorship of Dr. Adriana Dawes (https://people.math.osu.edu/dawes.33/). Finally, he completed a second postdoc at Imperial College London with a synthetic biology group led by Dr. Mark Isalan (http://www.imperial.ac.uk/people/m.isalan) where he worked on projects in stochastic gene expression and synthetic Turing pattern formation.
Julia in Computational Biology