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In the past five years, the use of generative and foundational AI systems has greatly improved the decoding of brain activity. Visual perception, in particular, can now be decoded from functional Magnetic Resonance Imaging (fMRI) with…
In the clinical environment, myocardial infarction (MI) as one com-mon cardiovascular disease is mainly evaluated based on the late gadolinium enhancement (LGE) cardiac magnetic resonance images (CMRIs). The auto-matic segmentations of left…
Retinal vessel segmentation plays a vital role in analyzing fundus images for the diagnosis of systemic and ocular diseases. Building on this, classifying segmented vessels into arteries and veins (A/V) further enables the extraction of…
Multiple Sclerosis (MS) is a chronic progressive neurological disease characterized by the development of lesions in the white matter of the brain. T2-fluid-attenuated inversion recovery (FLAIR) brain magnetic resonance imaging (MRI)…
Lesions or organ boundaries visible through medical imaging data are often ambiguous, thus resulting in significant variations in multi-reader delineations, i.e., the source of aleatoric uncertainty. In particular, quantifying the…
Purpose: Multiple sclerosis (MS) diagnosis requires accurate assessment of white matter hyperintensities (WMH) and ventricular changes on brain MRI. Current methods treat these structures independently, struggle to differentiate normal from…
Dynamic fetal heart magnetic resonance imaging (MRI) presents unique challenges due to the fast heart rate of the fetus compared to adult subjects and uncontrolled fetal motion. This requires high temporal and spatial resolutions over a…
Recently developed methods for rapid continuous volumetric two-photon microscopy facilitate the observation of neuronal activity in hundreds of individual neurons and changes in blood flow in adjacent blood vessels across a large volume of…
This paper presents a simple and effective generalization method for magnetic resonance imaging (MRI) segmentation when data is collected from multiple MRI scanning sites and as a consequence is affected by (site-)domain shifts. We propose…
We consider a missing data problem in the context of automatic segmentation methods for Magnetic Resonance Imaging (MRI) brain scans. Usually, automated MRI scan segmentation is based on multiple scans (e.g., T1-weighted, T2-weighted, T1CE,…
We present a deep learning strategy that enables, for the first time, contrast-agnostic semantic segmentation of completely unpreprocessed brain MRI scans, without requiring additional training or fine-tuning for new modalities. Classical…
The segmentation and classification of cardiac magnetic resonance imaging are critical for diagnosing heart conditions, yet current approaches face challenges in accuracy and generalizability. In this study, we aim to further advance the…
Red-lesions, microaneurysms (MAs) and hemorrhages (HMs), are the early signs of diabetic retinopathy (DR). The automatic detection of MAs and HMs on retinal fundus images is a challenging task. Most of the existing methods detect either…
The task of blood vessel segmentation in microscopy images is crucial for many diagnostic and research applications. However, vessels can look vastly different, depending on the transient imaging conditions, and collecting data for…
Age-related macular degeneration (AMD) is characterized by early micro-vascular alterations that can be captured non-invasively using optical coherence tomography angiography (OCTA), yet most deep learning (DL) models rely on global…
We present a novel approach to automatically segment magnetic resonance (MR) images of the human brain into anatomical regions. Our methodology is based on a deep artificial neural network that assigns each voxel in an MR image of the brain…
The human brain is a complex system requiring both macroscopic and microscopic components for comprehensive understanding. However, mapping nonlinear relationships between these scales remains challenging due to technical limitations and…
In this study, we develop a novel methodology for annotating the brain vasculature using dynamic 4D-CTA head scans. By using multiple time points from dynamic CTA acquisitions, we subtract bone and soft tissue to enhance the visualization…
Manual annotation of volumetric medical images, such as magnetic resonance imaging (MRI) and computed tomography (CT), is a labor-intensive and time-consuming process. Recent advancements in foundation models for video object segmentation,…
To address complex pathological feature extraction in automated cardiac MRI segmentation, we propose SAMba-UNet, a novel dual-encoder architecture that synergistically combines the vision foundation model SAM2, the linear-complexity…