List of works - Matthew Simpson

A Bayesian Computational Approach to Explore the Optimal Duration of a Cell Proliferation Assay.

scientific article

A Bayesian Sequential Learning Framework to Parameterise Continuum Models of Melanoma Invasion into Human Skin

scientific article published on 15 November 2018

A Continuum Mathematical Model of Substrate-Mediated Tissue Growth

scientific article published on 02 March 2022

A computational modelling framework to quantify the effects of passaging cell lines.

scientific article published on 27 July 2017

A free boundary mechanobiological model of epithelial tissues

scientific article published on 18 November 2020

A free boundary model of epithelial dynamics

scientific article published on 19 December 2018

A multiscale approach to estimate the cellular diffusivity during food drying

scientific article published in 2021

A novel mathematical model of heterogeneous cell proliferation

scientific article published in 2021

A one-dimensional individual-based mechanical model of cell movement in heterogeneous tissues and its coarse-grained approximation

scientific article published on 24 July 2019

A practical guide to pseudo-marginal methods for computational inference in systems biology

scientific article published on 26 March 2020

Accurate and efficient discretizations for stochastic models providing near agent-based spatial resolution at low computational cost

scientific article published on 23 October 2019

An analytical method for disentangling the roles of adhesion and crowding for random walk models on a crowded lattice

scientific article published on 6 September 2016

Analytical model for computing residence times near a pumping well.

scientific article published on May 2003

Analytical model of reactive transport processes with spatially variable coefficients

scientific article

Are in vitro estimates of cell diffusivity and cell proliferation rate sensitive to assay geometry?

scientific article published on 28 April 2014

Assessing the role of spatial correlations during collective cell spreading

scientific article

Bayesian uncertainty quantification for data-driven equation learning

scientific article published in 2021

Biologically-informed neural networks guide mechanistic modeling from sparse experimental data

scientific article published on 01 December 2020

Calculating the Fickian diffusivity for a lattice-based random walk with agents and obstacles of different shapes and sizes

scientific article published on 24 November 2015

Cell proliferation drives neural crest cell invasion of the intestine

scientific article published on 19 October 2006

Characterizing transport through a crowded environment with different obstacle sizes.

scientific article

Choosing an Appropriate Modelling Framework for Analysing Multispecies Co-culture Cell Biology Experiments

scientific article published on 31 December 2014

Co-operation, Competition and Crowding: A Discrete Framework Linking Allee Kinetics, Nonlinear Diffusion, Shocks and Sharp-Fronted Travelling Waves

scientific article published on 14 February 2017

Coalescence of interacting cell populations

scientific article published on 14 March 2007

Colonizing while migrating: how do individual enteric neural crest cells behave?

scientific article

Comment on “Local accumulation times for source, diffusion, and degradation models in two and three dimensions” [J. Chem. Phys. 138, 104121 (2013)]

scientific article published on 01 July 2013

Communication: Distinguishing between short-time non-Fickian diffusion and long-time Fickian diffusion for a random walk on a crowded lattice

scientific article published in May 2016

Comparing methods for modelling spreading cell fronts.

scientific article published on 12 March 2014

Continuum approximations for lattice-free multi-species models of collective cell migration

scientific article

Continuum descriptions of spatial spreading for heterogeneous cell populations: Theory and experiment

scientific article published on 03 September 2019

Corrected mean-field models for spatially dependent advection-diffusion-reaction phenomena

scientific article published on 26 May 2011

Correcting mean-field approximations for birth-death-movement processes

scientific article published on 5 October 2010

Critical time scales for advection-diffusion-reaction processes

scientific article published on 23 April 2012

Crowded transport within networked representations of complex geometries

scientific article published in 2021

Design and interpretation of cell trajectory assays

scientific article

Designing combination therapies using multiple optimal controls

scientific article published on 12 April 2020

Diffusion in heterogeneous discs and spheres: New closed-form expressions for exit times and homogenization formulas

scientific article published on 01 August 2020

Discrete and Continuum Approximations for Collective Cell Migration in a Scratch Assay with Cell Size Dynamics.

scientific article published on 25 January 2018

Distinguishing between directed and undirected cell motility within an invading cell population.

scientific article published on 7 February 2009

Distinguishing between mechanisms of cell aggregation using pair-correlation functions

scientific article published on 5 March 2014

Do pioneer cells exist?

scientific article published on 21 January 2014

Estimating cell diffusivity and cell proliferation rate by interpreting IncuCyte ZOOM™ assay data using the Fisher-Kolmogorov model

scientific article

Estimating parameters of a stochastic cell invasion model with fluorescent cell cycle labelling using approximate Bayesian computation

scientific article published on 22 September 2021

Exact Solutions of Coupled Multispecies Linear Reaction-Diffusion Equations on a Uniformly Growing Domain

scientific article published on 25 September 2015

Exact calculations of survival probability for diffusion on growing lines, disks, and spheres: The role of dimension

scientific article

Exact solutions of linear reaction-diffusion processes on a uniformly growing domain: criteria for successful colonization

scientific article published on 18 February 2015

Exact time-dependent solutions of a Fisher–KPP-like equation obtained with nonclassical symmetry analysis

scientific article published in 2022

Examining Go-or-Grow Using Fluorescent Cell-Cycle Indicators and Cell-Cycle-Inhibiting Drugs

scientific article published on 05 February 2020

Exits in order: How crowding affects particle lifetimes

scientific article published in June 2016

Experimental and modelling investigation of monolayer development with clustering

scientific article published on 13 April 2013

Extended logistic growth model for heterogeneous populations

scientific article published on 23 February 2018

Extinction of Bistable Populations is Affected by the Shape of their Initial Spatial Distribution

scientific article published in 2021

Filling the gaps: A robust description of adhesive birth-death-movement processes

scientific article published on 21 April 2016

How much information can be obtained from tracking the position of the leading edge in a scratch assay?

scientific article published on August 2014

Identifiability analysis for stochastic differential equation models in systems biology

scientific article published on 16 December 2020

Identification of two‐phase recovery for interpretation of coral reef monitoring data

scientific article published on 28 October 2021

Identifying density-dependent interactions in collective cell behaviour

scientific article published on 29 April 2020

Incorporating spatial correlations into multispecies mean-field models.

scientific article published on 20 November 2013

Inferring parameters for a lattice-free model of cell migration and proliferation using experimental data

scientific article

Interpreting scratch assays using pair density dynamics and approximate Bayesian computation.

scientific article published on September 2014

Invading and Receding Sharp-Fronted Travelling Waves

scientific article published on 21 February 2021

Lattice-free descriptions of collective motion with crowding and adhesion

scientific article published on 23 December 2013

Lattice-free models of cell invasion: discrete simulations and travelling waves

scientific article published on 17 August 2013

Learning differential equation models from stochastic agent-based model simulations

scientific article published in 2021

Logistic Proliferation of Cells in Scratch Assays is Delayed

scientific article published on 23 March 2017

Looking inside an invasion wave of cells using continuum models: proliferation is the key.

scientific article published on 30 June 2006

Mathematical Model of Tumour Spheroid Experiments with Real-Time Cell Cycle Imaging

scientific article published in 2021

Mathematical Models for Cell Migration with Real-Time Cell Cycle Dynamics

scientific article published in March 2018

Mathematical and experimental insights into the development of the enteric nervous system and Hirschsprung's disease

scientific article published on May 2007

Mathematical models incorporating a multi-stage cell cycle replicate normally-hidden inherent synchronization in cell proliferation

scientific article published on 21 August 2019

Mean-field descriptions of collective migration with strong adhesion

scientific article published on 29 May 2012

Mechanical Cell Competition in Heterogeneous Epithelial Tissues

scientific article published on 26 September 2020

Mechanistic and experimental models of cell migration reveal the importance of cell-to-cell pushing in cell invasion

scientific article published on 18 April 2019

Migration of breast cancer cells: understanding the roles of volume exclusion and cell-to-cell adhesion

scientific article published on October 2010

Modeling proliferative tissue growth: a general approach and an avian case study

scientific article

Modelling the movement of interacting cell populations: a moment dynamics approach

scientific article published on 30 January 2015

Models of collective cell behaviour with crowding effects: comparing lattice-based and lattice-free approaches ⬇️

scientific article published on June 13, 2012

Models of collective cell spreading with variable cell aspect ratio: A motivation for degenerate diffusion models ⬇️

scientific article published on February 2, 2011

Moments of action provide insight into critical times for advection-diffusion-reaction processes.

scientific article published on 25 September 2012

Multiple types of data are required to identify the mechanisms influencing the spatial expansion of melanoma cell colonies

scientific article

New homogenization approaches for stochastic transport through heterogeneous media

scientific article published on 01 January 2019

Nonlinear diffusion and exclusion processes with contact interactions

scientific article published on 11 January 2010

Optimal Quantification of Contact Inhibition in Cell Populations

scientific article published on 12 October 2017

Optimal control of acute myeloid leukaemia

scientific article published on 08 March 2019

Pathlines in exclusion processes.

scientific article published on 27 March 2009

Persistence as an optimal hedging strategy

scientific article published on 27 November 2020

Population Dynamics with Threshold Effects Give Rise to a Diverse Family of Allee Effects

scientific article published on 12 June 2020

Population dynamics with spatial structure and an Allee effect

scientific article published on 21 October 2020

Practical parameter identifiability for spatio-temporal models of cell invasion

scientific article published on 04 March 2020

Predicting population extinction in lattice-based birth-death-movement models

scientific article published on 03 June 2020

Quantifying rates of cell migration and cell proliferation in co-culture barrier assays reveals how skin and melanoma cells interact during melanoma spreading and invasion

scientific article published on 19 April 2017

Quantifying spatial structure in experimental observations and agent-based simulations using pair-correlation functions

scientific article published on 12 August 2013

Quantifying the effect of experimental design choices for in vitro scratch assays

scientific article

Quantifying the efficacy of first aid treatments for burn injuries using mathematical modelling and in vivo porcine experiments.

scientific article published on 7 September 2017

Quantifying the roles of cell motility and cell proliferation in a circular barrier assay.

scientific article published on 20 February 2013

Quantifying the roles of random motility and directed motility using advection-diffusion theory for a 3T3 fibroblast cell migration assay stimulated with an electric field.

scientific article

Quantitative comparison of the spreading and invasion of radial growth phase and metastatic melanoma cells in a three-dimensional human skin equivalent model

scientific article published on 5 September 2017

Reproducibility of scratch assays is affected by the initial degree of confluence: Experiments, modelling and model selection

scientific article published on 29 November 2015

Reversible signal transmission in an active mechanical metamaterial

scientific article published on 24 July 2019

Revisiting the Fisher-Kolmogorov-Petrovsky-Piskunov equation to interpret the spreading-extinction dichotomy

scientific article published on 04 September 2019

Sensitivity of edge detection methods for quantifying cell migration assays

scientific article

Simplified approach for calculating moments of action for linear reaction-diffusion equations.

scientific article published on 15 November 2013

Simplified method for including spatial correlations in mean-field approximations

scientific article published on 10 June 2013

Simulating invasion with cellular automata: connecting cell-scale and population-scale properties.

scientific article published on 17 August 2007

Simulation and inference algorithms for stochastic biochemical reaction networks: from basic concepts to state-of-the-art

scientific article published on 01 February 2019

Small-scale spatial structure affects predator-prey dynamics and coexistence

scientific article published in 2020

Spatial Moment Description of Birth–Death–Movement Processes Incorporating the Effects of Crowding and Obstacles

scientific article published on 10 August 2018

Spatial structure arising from chase-escape interactions with crowding

scientific article published on 18 October 2019

Spatial structure arising from neighbour-dependent bias in collective cell movement

scientific article published on 15 February 2016

Special issue on spatial moment techniques for modelling biological processes

scientific article

Spectral analysis of pair-correlation bandwidth: application to cell biology images

scientific article

Standard melanoma-associated markers do not identify the MM127 metastatic melanoma cell line

scientific article published on 18 April 2016

Stochastic simulation tools and continuum models for describing two-dimensional collective cell spreading with universal growth functions

scientific article

Survival probability for a diffusive process on a growing domain

scientific article published on 3 April 2015

The impact of experimental design choices on parameter inference for models of growing cell colonies

scientific article published on 29 August 2018

Three-dimensional experiments and individual based simulations show that cell proliferation drives melanoma nest formation in human skin tissue

scientific article published on 27 March 2018

Travelling waves for a velocity-jump model of cell migration and proliferation.

scientific article published on 7 May 2013

Unpacking the Allee effect: determining individual-level mechanisms that drive global population dynamics

scientific article published on 16 September 2020

Using Experimental Data and Information Criteria to Guide Model Selection for Reaction-Diffusion Problems in Mathematical Biology

scientific article published on 27 February 2019

Velocity-jump models with crowding effects.

scientific article published on 28 December 2011

Velocity-jump processes with proliferation

scholarly article

List of works by Matthew Simpson

A Bayesian Computational Approach to Explore the Optimal Duration of a Cell Proliferation Assay.

A Bayesian Sequential Learning Framework to Parameterise Continuum Models of Melanoma Invasion into Human Skin

A Continuum Mathematical Model of Substrate-Mediated Tissue Growth

A computational modelling framework to quantify the effects of passaging cell lines.

A free boundary mechanobiological model of epithelial tissues

A free boundary model of epithelial dynamics

A multiscale approach to estimate the cellular diffusivity during food drying

A novel mathematical model of heterogeneous cell proliferation

A one-dimensional individual-based mechanical model of cell movement in heterogeneous tissues and its coarse-grained approximation

A practical guide to pseudo-marginal methods for computational inference in systems biology

Accurate and efficient discretizations for stochastic models providing near agent-based spatial resolution at low computational cost

An analytical method for disentangling the roles of adhesion and crowding for random walk models on a crowded lattice

Analytical model for computing residence times near a pumping well.

Analytical model of reactive transport processes with spatially variable coefficients

Are in vitro estimates of cell diffusivity and cell proliferation rate sensitive to assay geometry?

Assessing the role of spatial correlations during collective cell spreading

Bayesian uncertainty quantification for data-driven equation learning

Biologically-informed neural networks guide mechanistic modeling from sparse experimental data

Calculating the Fickian diffusivity for a lattice-based random walk with agents and obstacles of different shapes and sizes

Cell proliferation drives neural crest cell invasion of the intestine

Characterizing transport through a crowded environment with different obstacle sizes.

Choosing an Appropriate Modelling Framework for Analysing Multispecies Co-culture Cell Biology Experiments

Co-operation, Competition and Crowding: A Discrete Framework Linking Allee Kinetics, Nonlinear Diffusion, Shocks and Sharp-Fronted Travelling Waves

Coalescence of interacting cell populations

Colonizing while migrating: how do individual enteric neural crest cells behave?

Comment on “Local accumulation times for source, diffusion, and degradation models in two and three dimensions” [J. Chem. Phys. 138, 104121 (2013)]

Communication: Distinguishing between short-time non-Fickian diffusion and long-time Fickian diffusion for a random walk on a crowded lattice

Comparing methods for modelling spreading cell fronts.

Continuum approximations for lattice-free multi-species models of collective cell migration

Continuum descriptions of spatial spreading for heterogeneous cell populations: Theory and experiment

Corrected mean-field models for spatially dependent advection-diffusion-reaction phenomena

Correcting mean-field approximations for birth-death-movement processes

Critical time scales for advection-diffusion-reaction processes

Crowded transport within networked representations of complex geometries

Design and interpretation of cell trajectory assays

Designing combination therapies using multiple optimal controls

Diffusion in heterogeneous discs and spheres: New closed-form expressions for exit times and homogenization formulas

Discrete and Continuum Approximations for Collective Cell Migration in a Scratch Assay with Cell Size Dynamics.

Distinguishing between directed and undirected cell motility within an invading cell population.

Distinguishing between mechanisms of cell aggregation using pair-correlation functions

Do pioneer cells exist?

Estimating cell diffusivity and cell proliferation rate by interpreting IncuCyte ZOOM™ assay data using the Fisher-Kolmogorov model

Estimating parameters of a stochastic cell invasion model with fluorescent cell cycle labelling using approximate Bayesian computation

Exact Solutions of Coupled Multispecies Linear Reaction-Diffusion Equations on a Uniformly Growing Domain

Exact calculations of survival probability for diffusion on growing lines, disks, and spheres: The role of dimension

Exact solutions of linear reaction-diffusion processes on a uniformly growing domain: criteria for successful colonization

Exact time-dependent solutions of a Fisher–KPP-like equation obtained with nonclassical symmetry analysis

Examining Go-or-Grow Using Fluorescent Cell-Cycle Indicators and Cell-Cycle-Inhibiting Drugs

Exits in order: How crowding affects particle lifetimes

Experimental and modelling investigation of monolayer development with clustering

Extended logistic growth model for heterogeneous populations

Extinction of Bistable Populations is Affected by the Shape of their Initial Spatial Distribution

Filling the gaps: A robust description of adhesive birth-death-movement processes

How much information can be obtained from tracking the position of the leading edge in a scratch assay?

Identifiability analysis for stochastic differential equation models in systems biology

Identification of two‐phase recovery for interpretation of coral reef monitoring data

Identifying density-dependent interactions in collective cell behaviour

Incorporating spatial correlations into multispecies mean-field models.

Inferring parameters for a lattice-free model of cell migration and proliferation using experimental data

Interpreting scratch assays using pair density dynamics and approximate Bayesian computation.

Invading and Receding Sharp-Fronted Travelling Waves

Lattice-free descriptions of collective motion with crowding and adhesion

Lattice-free models of cell invasion: discrete simulations and travelling waves

Learning differential equation models from stochastic agent-based model simulations

Logistic Proliferation of Cells in Scratch Assays is Delayed

Looking inside an invasion wave of cells using continuum models: proliferation is the key.

Mathematical Model of Tumour Spheroid Experiments with Real-Time Cell Cycle Imaging

Mathematical Models for Cell Migration with Real-Time Cell Cycle Dynamics

Mathematical and experimental insights into the development of the enteric nervous system and Hirschsprung's disease

Mathematical models incorporating a multi-stage cell cycle replicate normally-hidden inherent synchronization in cell proliferation

Mean-field descriptions of collective migration with strong adhesion

Mechanical Cell Competition in Heterogeneous Epithelial Tissues

Mechanistic and experimental models of cell migration reveal the importance of cell-to-cell pushing in cell invasion

Migration of breast cancer cells: understanding the roles of volume exclusion and cell-to-cell adhesion

Modeling proliferative tissue growth: a general approach and an avian case study

Modelling the movement of interacting cell populations: a moment dynamics approach

Models of collective cell behaviour with crowding effects: comparing lattice-based and lattice-free approaches ⬇️

Models of collective cell spreading with variable cell aspect ratio: A motivation for degenerate diffusion models ⬇️

Moments of action provide insight into critical times for advection-diffusion-reaction processes.