30 citations · 124 across the 7 of their papers we have counts for
7 papers
Biologically-plausible backpropagation through arbitrary timespans via local neuromodulators
Yuhan Helena Liu, Stephen Smith, Stefan Mihalas +2
The spectacular successes of recurrent neural network models where key parameters are adjusted via backpropagation-based gradient descent have inspired much thought as to how biolo…
Beyond activator-inhibitor networks: the generalised Turing mechanism
Stephen Smith, Neil Dalchau
The Turing patterning mechanism is believed to underly the formation of repetitive structures in development, such as zebrafish stripes and mammalian digits, but it has proved diff…
Fast simulation of Brownian dynamics in a crowded environment
Stephen Smith, Ramon Grima
Brownian dynamics simulations are an increasingly popular tool for understanding spatially-distributed biochemical reaction systems. Recent improvements in our understanding of the…
An exact solution to Brownian dynamics of a reversible bimolecular reaction in one dimension
Stephen Smith, Ramon Grima
Brownian dynamics is a popular fine-grained method for simulating systems of interacting particles, such as chemical reactions. Though the method is simple to simulate, it is gener…
The breakdown of the reaction-diffusion master equation with non-elementary rates
Stephen Smith, Ramon Grima
The chemical master equation (CME) is the exact mathematical formulation of chemical reactions occurring in a dilute and well-mixed volume. The reaction-diffusion master equation (…
Model reduction for stochastic chemical systems with abundant species
Stephen Smith, Claudia Cianci, Ramon Grima
Biochemical processes typically involve many chemical species, some in abundance and some in low molecule numbers. Here we first identify the rate constant limits under which the c…
Molecular finite-size effects in stochastic models of equilibrium chemical systems
Claudia Cianci, Stephen Smith, Ramon Grima
The reaction-diffusion master equation (RDME) is a standard modelling approach for understanding stochastic and spatial chemical kinetics. An inherent assumption is that molecules…