7 papers
An agent-based model of outer membrane biogenesis in Gram-negative bacteria
Thomas Williams, James M. Osborne, Kwok Jian Goh +2
The outer membrane is the interface through which Gram-negative bacteria - a broad classification of organisms including \textit{Escherichia coli} and a number of deadly pathogens…
Reliable model selection in the presence of parameter non-identifiability
Yong See Foo, Torkel E. Loman, Alexander P. Browning +3
Mathematical models are invaluable for understanding and predicting how biological systems behave, although their construction requires specifying mechanisms and relationships that…
Reduced-Precision Stochastic Simulation for Mathematical Biology
Tom Kimpson, Mark B. Flegg, Jennifer A. Flegg
The stochastic simulation algorithm (SSA) is widely used to perform exact forward simulation of discrete stochastic processes in biology. However, the computational cost, driven by…
Quantifying structural uncertainty in chemical reaction network inference
Yong See Foo, Adriana Zanca, Jennifer A. Flegg +1
Dynamical systems in biology are complex, and one often does not have comprehensive knowledge about the interactions involved. Chemical reaction network (CRN) inference aims to ide…
A nonparametric approach to practical identifiability of nonlinear mixed effects models
Tyler Cassidy, Stuart T. Johnston, Michael Plank +4
Mathematical modelling is a widely used approach to understand and interpret clinical trial data. This modelling typically involves fitting mechanistic mathematical models to data…
A cautionary tale of model misspecification and identifiability
Alexander P Browning, Jennifer A Flegg, Ryan J Murphy
Mathematical models are routinely applied to interpret biological data, with common goals that include both prediction and parameter estimation. A challenge in mathematical biology…