Calibration of Breast Cancer Natural History Models Using Approximate Bayesian Computation

University essay from KTH/Matematisk statistik

Abstract: Natural history models for breast cancer describe the unobservable disease progression. These models can either be fitted using likelihood-based estimation to data on individual tumour characteristics, or calibrated to fit statistics at a population level. Likelihood-based inference using individual level data has the advantage of ensuring model parameter identifiability. However, the likelihood function can be computationally heavy to evaluate or even intractable. In this thesis likelihood-free estimation using Approximate Bayesian Computation (ABC) will be explored. The main objective is to investigate whether ABC can be used to fit models to data collected in the presence of mammography screening. As a background, a literature review of ABC is provided. As a first step an ABC-MCMC algorithm is constructed for two simple models both describing populations in absence of mammography screening, but assuming different functional forms of tumour growth. The algorithm is evaluated for these models in a simulation study using synthetic data, and compared with results obtained using likelihood-based inference. Later, it is investigated whether ABC can be used for the models in presence of screening. The findings of this thesis indicate that ABC is not directly applicable to these models. However, by including a sub-model for tumour onset and assuming that all individuals in the population have the same screening attendance it was possible to develop an ABC-MCMC algorithm that carefully takes individual level data into consideration in the estimation procedure. Finally, the algorithm was tested in a simple simulation study using synthetic data. Future research is still needed to evaluate the statistical properties of the algorithm (using extended simulation) and to test it on observational data where previous estimates are available for reference. 

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