Calibrating models of cancer invasion: parameter estimation using approximate Bayesian computation and gradient matching

• Main Authors: Yunchen Xiao, Len Thomas, Mark A. J. Chaplain
• Format: Article
• Language: English
• Published: The Royal Society 2021-06-01
• Series: Royal Society Open Science
• Subjects: tumour cells; cancer invasion; approximate Bayesian computation; Bhattacharyya distance; gradient matching; generalized additive models
• Online Access: https://royalsocietypublishing.org/doi/10.1098/rsos.202237
• ISSN: 2054-5703

We present two different methods to estimate parameters within a partial differential equation model of cancer invasion. The model describes the spatio-temporal evolution of three variables—tumour cell density, extracellular matrix density and matrix degrading enzyme concentration—in a one-dimensional tissue domain. The first method is a likelihood-free approach associated with approximate Bayesian computation; the second is a two-stage gradient matching method based on smoothing the data with a generalized additive model (GAM) and matching gradients from the GAM to those from the model. Both methods performed well on simulated data. To increase realism, additionally we tested the gradient matching scheme with simulated measurement error and found that the ability to estimate some model parameters deteriorated rapidly as measurement error increased.