Identifying Microstructural Changes in Diffusion MRI; How to Circumvent Parameter Degeneracy

Abstract

Biophysical models that attempt to infer real-world quantities from data usually have many free parameters. This over-parameterisation can result in degeneracies in model inversion and render parameter estimation ill-posed. However, often, we are not interested in estimating the parameters per se, but rather in identifying changes in parameters between experimental conditions (e.g. patients vs controls). Here we present a Bayesian framework to make inference on changes in the parameters of biophysical models even when model inversion is degenerate, which we refer to as Bayesian EstimatioN of CHange (BENCH). We infer the parameter changes in two steps; First, we train models that can estimate the pattern of change in the measurements given any hypothetical change in the parameters using simulations. Next, for any pair of real data sets, we use these pre-trained models to estimate the probability that an observed difference in the data is caused by each model of change. The approach is general and particularly useful for biophysical models with parameter degeneracies. In this paper, we apply the approach in the context of microstructural modelling of diffusion MRI data, where the models are usually over-parameterised and not invertible without injecting strong assumptions. Using simulations, we show that in the context of the standard model for diffusion our approach is able to identify changes in microstructural parameters from multi-shell diffusion MRI data. We also apply our approach to a subset of subjects from the UK-Biobank Imaging to identify the dominant standard model parameter change in areas of white matter hyperintensities.

An automated pipeline for extracting histological stain area fraction for voxelwise quantitative MRI-histology comparisons

“…However, these studies do not correlate FA with activated microglia, making direct comparison with our results difficult. Future work will seek to elucidate how microglia directly or indirectly affects diffusion-MR signals by using more sophisticated biophysical models [54, 55].…”

“…However, the use of different markers makes comparison with our results difficult. Future experiments may investigate how activated microglia affects diffusion-weighted MRI by using more sophisticated biophysical models [54, 55].…”