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Functional magnetic resonance imaging (fMRI) is essential for developing encoding models that identify functional changes in language-related brain areas of individuals with Neurocognitive Disorders (NCD). While large language model…

High-resolution fMRI provides a window into the brain's mesoscale organization. Yet, higher spatial resolution increases scan times, to compensate for the low signal and contrast-to-noise ratio. This work introduces a deep learning-based 3D…

We present TFF, which is a Transformer framework for the analysis of functional Magnetic Resonance Imaging (fMRI) data. TFF employs a two-phase training approach. First, self-supervised training is applied to a collection of fMRI scans,…

We investigate whether and how we can improve the cost efficiency of neuroimaging studies with well-tailored fMRI tasks. The comparative study is conducted using a novel network science-driven Bayesian connectome-based predictive method,…

Brain decoding algorithms form an important part of the arsenal of analysis tools available to neuroscientists, allowing for a more detailed study of the kind of information represented in patterns of cortical activity. While most current…

Functional magnetic resonance imaging (fMRI) functional connectivity between brain regions is often computed using parcellations defined by functional or structural atlases. Typically, some kind of voxel averaging is performed to obtain a…

Multivariate analysis of fMRI data has benefited substantially from advances in machine learning. Most recently, a range of probabilistic latent variable models applied to fMRI data have been successful in a variety of tasks, including…

Fluorescence lifetime imaging microscopy (FLIM) is a powerful quantitative technique that provides metabolic and molecular contrast, offering strong translational potential for label-free, real-time diagnostics. However, its clinical…

Accurate fMRI analysis requires sensitivity to temporal structure across multiple scales, as BOLD signals encode cognitive processes that emerge from fast transient dynamics to slower, large-scale fluctuations. Existing deep learning (DL)…

Magnetic resonance imaging (MRI) is an invaluable tool for clinical and research applications. Yet, variations in scanners and acquisition parameters cause inconsistencies in image contrast, hindering data comparability and reproducibility…

This chapter describes several procedures used to prepare fMRI data for statistical analyses. It includes the description of common preprocessing steps, such as spatial realignment, coregistration, and spatial normalization, aimed at the…

Diffusion magnetic resonance imaging (dMRI) enables non-invasive investigation of tissue microstructure. The Standard Model (SM) of white matter aims to disentangle dMRI signal contributions from intra- and extra-axonal water compartments.…

Functional Magnetic Resonance Imaging~(fMRI) is widely used to study activation in the human brain. In most cases, data are commonly used to construct activation maps corresponding to a given paradigm. Results can be very variable, hence…

Self-supervised learning (SSL) has achieved remarkable performance in various medical imaging tasks by dint of priors from massive unlabelled data. However, regarding a specific downstream task, there is still a lack of an instruction book…

Deep learning has been widely applied in neuroimaging, including predicting brain-phenotype relationships from magnetic resonance imaging (MRI) volumes. MRI data usually requires extensive preprocessing prior to modeling, but variation…

Accelerated Magnetic Resonance Imaging (MRI) permits high quality images from fewer samples that can be collected with a faster scan. Two established methods for accelerating MRI include parallel imaging and compressed sensing. Two types of…

Parallel imaging techniques reduce magnetic resonance imaging (MRI) scan time but image quality degrades as the acceleration factor increases. In clinical practice, conservative acceleration factors are chosen because no mechanism exists to…

Magnetic Resonance Imaging (MRI) is a valuable clinical diagnostic modality for spine pathologies with excellent characterization for infection, tumor, degenerations, fractures and herniations. However in surgery, image-guided spinal…

Functional Magnetic Resonance Imaging~(fMRI) is a popular non-invasive modality to investigate activation in the human brain. The end result of most fMRI experiments is an activation map corresponding to the given paradigm. These maps can…

The present study performs a comprehensive fairness analysis of machine learning (ML) models for the diagnosis of Mild Cognitive Impairment (MCI) and Alzheimer's disease (AD) from MRI-derived neuroimaging features. Biases associated with…