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Diffusion magnetic resonance imaging (dMRI) is a crucial non-invasive technique for exploring the microstructure of the living human brain. Traditional hand-crafted and model-based tissue microstructure reconstruction methods often require…
Diffusion Tensor Imaging (DTI) provides the possibility of estimating the location and course of eloquent structures in the human brain. Knowledge about this is of high importance for preoperative planning of neurosurgical interventions and…
Polarization microscopy provides insights into the structure and orientational organization of biomolecules and their architectures in cells. The above key functional signatures, which are natively 3D, can be only detected in 2D for a…
If we are ever to unravel the mysteries of brain function at its most fundamental level, we will need a precise understanding of how its component neurons connect to each other. Electron Microscopes (EM) can now provide the nanometer…
In modern medical diagnostics, magnetic resonance imaging (MRI) is an important technique that provides detailed insights into anatomical structures. In this paper, we present a comprehensive methodology focusing on streamlining the…
Wide-field imaging Mueller polarimetry is a revolutionary, label-free, and non-invasive modality for computer-aided intervention: in neurosurgery it aims to provide visual feedback of white matter fibre bundle orientation from derived…
Understanding how networks of neurons process information is one of the key challenges in modern neuroscience. A necessary step to achieve this goal is to be able to observe the dynamics of large populations of neurons over a large area of…
3D imaging of specular surfaces remains challenging in real-world scenarios, such as in-line inspection or hand-held scanning, requiring fast and accurate measurement of complex geometries. Optical metrology techniques such as deflectometry…
Deep learning methods have recently made notable advances in the tasks of classification and representation learning. These tasks are important for brain imaging and neuroscience discovery, making the methods attractive for porting to a…
Fiber tracking based on diffusion weighted Magnetic Resonance Imaging (dMRI) allows for noninvasive reconstruction of fiber bundles in the human brain. In this chapter, we discuss sources of error and uncertainty in this technique, and…
Driven by the appealing properties of neural fields for storing and communicating 3D data, the problem of directly processing them to address tasks such as classification and part segmentation has emerged and has been investigated in recent…
Accurate physical modeling with 3D-printing techniques could lead to new approaches to study structure and dynamics of biological systems complementing computational methods. Computational biology has become an important part of research…
More children and adults under the age of 40 die of brain tumor than from any other cancer. Brain surgery constitutes the first and decisive step for the treatment of such tumors. It is extremely crucial to achieve complete tumor resection…
Recent advances in imaging and high-performance computing have made it possible to image the entire human brain at the cellular level. This is the basis to study the multi-scale architecture of the brain regarding its subdivision into brain…
Diffusion MRI (dMRI) is the primary imaging modality used to study brain microstructure in vivo. Reliable and computationally efficient parameter inference for common dMRI biophysical models is a challenging inverse problem, due to factors…
Brain image registration transforms a pair of images into one system with the matched imaging contents, which is of essential importance for brain image analysis. This paper presents a novel framework for unsupervised 3D brain image…
Neural decoding of visual object classification via functional magnetic resonance imaging (fMRI) data is challenging and is vital to understand underlying brain mechanisms. This paper proposed a multi-pooling 3D convolutional neural network…
The reconstruction of cerebral cortex surfaces from brain MRI scans is instrumental for the analysis of brain morphology and the detection of cortical thinning in neurodegenerative diseases like Alzheimer's disease (AD). Moreover, for a…
Neural networks have emerged as a powerful tool for modeling physical systems, offering the ability to learn complex representations from limited data while integrating foundational scientific knowledge. In particular, neuro-symbolic…
Polarized light microscopy provides high contrast to birefringent specimen and is widely used as a diagnostic tool in pathology. However, polarization microscopy systems typically operate by analyzing images collected from two or more light…