Skip to content
Open access

The trade-off between parsimony and model complexity for understanding biomedical mechanisms from mathematical models

Sep 2026 · bioRxiv · 0 citations · 20 references
Biology

TL;DR

The results highlight the limits of relying purely on statistical metrics for model selection, particularly when the goal is to obtain biological insight and underscore the importance of balancing model complexity to avoid overfitting and parameter unidentifiability.

Abstract

Mechanistic mathematical models have been used extensively to provide a deeper understanding of biological mechanisms, including unveiling the regulation of tumour growth and its response to various treatments. However, given the breadth of biological regulatory mechanisms, these models are frequently large and thus prone to potential issues with parameter identifiability. Statistical metrics like the Akaike and Bayesian information criteria can help identify a parsimonious model by balancing goodness of fit against model complexity. Yet simple models may fail to provide sufficient biological insight if they do not adequately capture known physiological processes or mechanisms. A modeller must therefore balance hypothesis generation and biological learning with model tractability. Here, we illustrate this balance using models of ovarian cancer growth and treatment response to cisplatin and immune checkpoint blockade in homologous recombination (HR)-deficient and HR-proficient immunocompetent mouse models. We develop a hierarchy of mathematical models of increasing complexity to describe tumour growth, treatment response, and immune dynamics. Our results highlight the limits of relying purely on statistical metrics for model selection, particularly when the goal is to obtain biological insight and underscore the importance of balancing model complexity to avoid overfitting and parameter unidentifiability.

Read PDF

Similar papers

Review Open access Oct 2026

From Mechanistic Models to AI Synergy: A Roadmap for Predictive and Personalized Biology

Simple Summary Biology currently runs on two modeling traditions. Mechanistic models write down the processes a biologist believes are at work, so their variables and parameters carry meaning, but they are slow to build and hard to fit to the volume of data that modern experiments produce. Deep learning finds patterns...

Le-Tong Huang, Hong-Qin Sun, Yi Huang et al. · 0 citations
Review Open access Sep 2026

How AI Can Advance Mathematical Biology: Opportunities, Challenges, and Future Directions

Mathematical biology has long relied on mechanistic models, including ordinary and partial differential equations, stochastic systems, and agent-based models, to study biological processes across scales. These approaches remain central because they provide structure, interpretability, and biological insight. However, m...

K. Rabiei, G. Rempała, R. Laubenbacher et al. · 1 citation
Open access Oct 2026

PSoup: an R package for predicting the outcomes of biological networks without kinetic parameters

Mechanistic models built for prediction are often treated as a parameter estimation problem. Using Bayesian inference on a well-studied shoot branching ODE model, we show that multiple incompatible parameter calibrations can fit the same experimental data yet can make contradictory predictions under unseen treatment...

Nicole Z. Fortuna, Brodie A. J. Lawson, Christos Mitsanis et al. · 0 citations
Open access Oct 2026

When do hybrid models help? Combining mechanistic modelling and machine learning to predict gene regulatory network dynamics

Gene regulatory networks (GRNs) are a crucial link between genotype and phenotype, allowing organisms to respond to their environment by altering gene expression over time. Models can help us understand the underlying logic of these GRNs; in particular, ordinary differential equation (ODE) models are suitable for this,...

Ben Noordijk, Thijs van Loo, M. van Hoek et al. · 0 citations
Sep 2026

Parameter identifiability of a neuroendocrine-inflammatory model across experimental designs

Mathematical modeling helps us identify and investigate complex mechanisms of function. This is especially useful for understanding inflammation, which is a complex, multiscale process that interacts nonlinearly with other physiological systems. The full potential of these models can only be realized when combined with...

Aubrey Ayres, M. Colebank · 0 citations
#explainable ai Review Open access Sep 2026

Mechanism-AI Coupled Dynamic Systems in Mathematical Biology: Learning, Explanation, Reliability, and Applications

The goal is not to replace mathematical models by purely empirical predictors, but to develop mathematical foundations and computational work in which trainable representations learn missing mechanisms, interpretable tools explain them, and reliability analysis quantifies when the learned mechanism can be trusted.

Peng-Fei Song, Jian-Hong Wu, Yan-Ni Xiao · 0 citations

We use cookies to run the site and, with your consent, for analytics and to show ads. See our Cookie Policy.