Filip Szczepankiewicz

Leevi Kerkelä, Kiran Seunarine, Filip Szczepankiewicz et al.

Diffusion magnetic resonance imaging is sensitive to the microstructural properties of brain tissue. However, estimating clinically and scientifically relevant microstructural properties from the measured signals remains a highly challenging inverse problem that machine learning may help solve. This study investigated if recently developed rotationally invariant spherical convolutional neural networks can improve microstructural parameter estimation. We trained a spherical convolutional neural network to predict the ground-truth parameter values from efficiently simulated noisy data and applied the trained network to imaging data acquired in a clinical setting to generate microstructural parameter maps. Our network performed better than the spherical mean technique and multi-layer perceptron, achieving higher prediction accuracy than the spherical mean technique with less rotational variance than the multi-layer perceptron. Although we focused on a constrained two-compartment model of neuronal tissue, the network and training pipeline are generalizable and can be used to estimate the parameters of any Gaussian compartment model. To highlight this, we also trained the network to predict the parameters of a three-compartment model that enables the estimation of apparent neural soma density using tensor-valued diffusion encoding.

Jakub Jurek, Andrzej Materka, Kamil Ludwisiak et al.

We propose a novel approach to denoising diffusion magnetic resonance images (dMRI) using convolutional neural networks, that exploits the benefits of data acquired at multiple b-values to offset the need for many redundant observations. Denoising is especially relevant in dMRI since noise can have a deleterious impact on both quantification accuracy and image preprocessing. The most successful methods proposed to date, like Marchenko-Pastur Principal Component Analysis (MPPCA) denoising, are tailored to diffusion-weighting repeated for many encoding directions. They exploit high redundancy of the dataset that oversamples the diffusion-encoding direction space, since many directions have collinear components. However, there are many dMRI techniques that do not entail a large number of encoding directions or repetitions, and are therefore less suited to this approach. For example, clinical dMRI exams may include as few as three encoding directions, with low or negligible data redundancy across directions. Moreover, promising new dMRI approaches, like spherical b-tensor encoding (STE), benefit from high b-values while sensitizing the signal to diffusion along all directions in just a single shot. We introduce a convolutional neural network approach that we call multi-b-value-based denoising (MBD). MBD exploits the similarity in diffusion-weighted images (DWI) across different b-values but along the same diffusion encoding direction. It allows denoising of diffusion images with high noise variance while avoiding blurring, and using just a small number input images.