Identifiability analysis for stochastic differential equation models in systems biology

AP Browning, DJ Warne, K Burrage… - Journal of the …, 2020 - royalsocietypublishing.org
Mathematical models are routinely calibrated to experimental data, with goals ranging from
building predictive models to quantifying parameters that cannot be measured. Whether or …

Integration of quantitative methods and mathematical approaches for the modeling of cancer cell proliferation dynamics

M Cotner, S Meng, T Jost, A Gardner… - … of Physiology-Cell …, 2023 - journals.physiology.org
Physiological processes rely on the control of cell proliferation, and the dysregulation of
these processes underlies various pathological conditions, including cancer. Mathematical …

A stochastic mathematical model of 4D tumour spheroids with real-time fluorescent cell cycle labelling

JJ Klowss, AP Browning, RJ Murphy… - Journal of the …, 2022 - royalsocietypublishing.org
In vitro tumour spheroids have been used to study avascular tumour growth and drug design
for over 50 years. Tumour spheroids exhibit heterogeneity within the growing population that …

Quantification of spatial and phenotypic heterogeneity in an agent-based model of tumour-macrophage interactions

JA Bull, HM Byrne - PLOS Computational Biology, 2023 - journals.plos.org
We introduce a new spatial statistic, the weighted pair correlation function (wPCF). The
wPCF extends the existing pair correlation function (PCF) and cross-PCF to describe spatial …

Robust approximate Bayesian inference with synthetic likelihood

DT Frazier, C Drovandi - Journal of Computational and Graphical …, 2021 - Taylor & Francis
Bayesian synthetic likelihood (BSL) is now an established method for conducting
approximate Bayesian inference in models where, due to the intractability of the likelihood …

Modularized Bayesian analyses and cutting feedback in likelihood-free inference

A Chakraborty, DJ Nott, CC Drovandi, DT Frazier… - Statistics and …, 2023 - Springer
There has been much recent interest in modifying Bayesian inference for misspecified
models so that it is useful for specific purposes. One popular modified Bayesian inference …

A Bayesian sequential learning framework to parameterise continuum models of melanoma invasion into human skin

AP Browning, P Haridas, MJ Simpson - Bulletin of Mathematical Biology, 2019 - Springer
We present a novel framework to parameterise a mathematical model of cell invasion that
describes how a population of melanoma cells invades into human skin tissue. Using simple …

Extended logistic growth model for heterogeneous populations

W Jin, SW McCue, MJ Simpson - Journal of Theoretical Biology, 2018 - Elsevier
Cell proliferation is the most important cellular-level mechanism responsible for regulating
cell population dynamics in living tissues. Modern experimental procedures show that the …

[HTML][HTML] Magnesium ions regulate mesenchymal stem cells population and osteogenic differentiation: A fuzzy agent-based modeling approach

J Nourisa, B Zeller-Plumhoff, H Helmholz… - Computational and …, 2021 - Elsevier
Mesenchymal stem cells (MSCs) are proliferative and multipotent cells that play a key role in
the bone regeneration process. Empirical data have repeatedly shown the bioregulatory …

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

DJ Warne, RE Baker, MJ Simpson - Journal of theoretical biology, 2020 - Elsevier
For many stochastic models of interest in systems biology, such as those describing
biochemical reaction networks, exact quantification of parameter uncertainty through …