Rationalised experiment design for parameter estimation with sensitivity clustering

Quantitative experiments are essential for investigating, uncovering, and confirming our understanding of complex systems, necessitating the use of effective and robust experimental designs. Despite generally outperforming other approaches, the broader adoption of model-based design of experiments (MBDoE) has been hindered by oversimplified assumptions and computational overhead. To address this, we present PARameter SEnsitivity Clustering (PARSEC), an MBDoE framework that identifies informative measurable combinations through parameter sensitivity (PS) clustering. We combined PARSEC with a new variant of Approximate Bayesian Computation-based parameter estimation for rapid, automated assessment and ranking of experiment designs. Using two kinetic model systems with distinct dynamical features, we show that PARSEC-based experiments improve the parameter estimation of a complex system. By its inherent formulation, PARSEC can account for experimental restrictions and parameter variability. Moreover, we demonstrate that there is a strong correlation between sample size and the optimal number of PS clusters in PARSEC, offering a novel method to determine the ideal sampling for experiments. This validates our argument for employing parameter sensitivity in experiment design and illustrates the potential to leverage both model architecture and system dynamics to effectively explore the experimental design space.