Implementing measurement error models with mechanistic mathematical models in a likelihood-based framework for estimation, identifiability analysis and prediction …
RJ Murphy, OJ Maclaren… - Journal of the Royal …, 2024 - royalsocietypublishing.org
Throughout the life sciences, we routinely seek to interpret measurements and observations
using parametrized mechanistic mathematical models. A fundamental and often overlooked …
using parametrized mechanistic mathematical models. A fundamental and often overlooked …
Sigmoidal curves reflect impacts and dynamics of aquatic invasive species
Identifying general patterns and trends underlying the impacts and dynamics of biological
invasions has proven elusive for scientists. Recently, the impact curve was proposed as a …
invasions has proven elusive for scientists. Recently, the impact curve was proposed as a …
Parameter estimation and uncertainty quantification using information geometry
In this work, we:(i) review likelihood-based inference for parameter estimation and the
construction of confidence regions; and (ii) explore the use of techniques from information …
construction of confidence regions; and (ii) explore the use of techniques from information …
[HTML][HTML] Modelling count data with partial differential equation models in biology
Partial differential equation (PDE) models are often used to study biological phenomena
involving movement-birth–death processes, including ecological population dynamics and …
involving movement-birth–death processes, including ecological population dynamics and …
[HTML][HTML] Profile-wise analysis: a profile likelihood-based workflow for identifiability analysis, estimation, and prediction with mechanistic mathematical models
MJ Simpson, OJ Maclaren - PLoS Computational Biology, 2023 - journals.plos.org
Interpreting data using mechanistic mathematical models provides a foundation for
discovery and decision-making in all areas of science and engineering. Developing …
discovery and decision-making in all areas of science and engineering. Developing …
[HTML][HTML] The faunal Ponto-Caspianization of central and western European waterways
As alien invasive species are a key driver of biodiversity loss, understanding patterns of
rapidly changing global species compositions depends upon knowledge of invasive species …
rapidly changing global species compositions depends upon knowledge of invasive species …
Computationally efficient framework for diagnosing, understanding and predicting biphasic population growth
RJ Murphy, OJ Maclaren… - Journal of the …, 2022 - royalsocietypublishing.org
Throughout the life sciences, biological populations undergo multiple phases of growth,
often referred to as biphasic growth for the commonly encountered situation involving two …
often referred to as biphasic growth for the commonly encountered situation involving two …
Designing experimental conditions to use the Lotka–Volterra model to infer tumor cell line interaction types
Abstract The Lotka–Volterra model is widely used to model interactions between two
species. Here, we generate synthetic data mimicking competitive, mutualistic and …
species. Here, we generate synthetic data mimicking competitive, mutualistic and …
[HTML][HTML] Geometric analysis enables biological insight from complex non-identifiable models using simple surrogates
AP Browning, MJ Simpson - PLoS Computational Biology, 2023 - journals.plos.org
An enduring challenge in computational biology is to balance data quality and quantity with
model complexity. Tools such as identifiability analysis and information criterion have been …
model complexity. Tools such as identifiability analysis and information criterion have been …
Parameter identifiability and model selection for partial differential equation models of cell invasion
When employing mechanistic models to study biological phenomena, practical parameter
identifiability is important for making accurate predictions across wide ranges of unseen …
identifiability is important for making accurate predictions across wide ranges of unseen …