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Precise segmentation of brain structures in magnetic resonance imaging (MRI) is essential for reliable neuroimaging analysis, yet voxel-wise deep models often yield anatomically inconsistent results that diverge from expert-defined…

Image segmentation is an important task in many medical applications. Methods based on convolutional neural networks attain state-of-the-art accuracy; however, they typically rely on supervised training with large labeled datasets. Labeling…

Obtaining high-resolution (HR) segmentations from coarse annotations is a pervasive challenge in computer vision. Applications include inferring pixel-level segmentations from token-level labels in vision transformers, upsampling coarse…

Brain extraction and removal of skull artifacts from magnetic resonance images (MRI) is an important preprocessing step in neuroimaging analysis. There are many tools developed to handle human fMRI images, which could involve manual steps…

The hypothalamus is a small structure located in the center of the brain and is involved in significant functions such as sleeping, temperature, and appetite control. Various neurological disorders are also associated with hypothalamic…

We tackle biomedical image segmentation in the scenario of only a few labeled brain MR images. This is an important and challenging task in medical applications, where manual annotations are time-consuming. Current multi-atlas based…

The hypothalamus plays a crucial role in the regulation of a broad range of physiological, behavioural, and cognitive functions. However, despite its importance, only a few small-scale neuroimaging studies have investigated its…

The hippocampus is a seminal structure in the most common surgically-treated form of epilepsy. Accurate segmentation of the hippocampus aids in establishing asymmetry regarding size and signal characteristics in order to disclose the likely…

This paper presents FeTal-SAM, a novel adaptation of the Segment Anything Model (SAM) tailored for fetal brain MRI segmentation. Traditional deep learning methods often require large annotated datasets for a fixed set of labels, making them…

Synthetic training has recently advanced brain MRI segmentation by enabling contrast-agnostic models trained entirely on generated data. However, most existing approaches rely on hundreds of automatically labeled templates, introducing…

Purpose: The goal of this work was to develop a deep network for whole-head segmentation including clinical MRIs with abnormal anatomy, and compile the first public benchmark dataset for this purpose. We collected 98 MRIs with volumetric…

Automated and semi-automated techniques in biomedical electron microscopy (EM) enable the acquisition of large datasets at a high rate. Segmentation methods are therefore essential to analyze and interpret these large volumes of data, which…

Segmentation of brain structures in a large dataset of magnetic resonance images (MRI) necessitates automatic segmentation instead of manual tracing. Automatic segmentation methods provide a much-needed alternative to manual segmentation…

Segmentation of the developing fetal brain is an important step in quantitative analyses. However, manual segmentation is a very time-consuming task which is prone to error and must be completed by highly specialized indi-viduals.…

Deep learning has shown great promise in the ability to automatically annotate organs in magnetic resonance imaging (MRI) scans, for example, of the brain. However, despite advancements in the field, the ability to accurately segment…

Postmortem MRI allows brain anatomy to be examined at high resolution and to link pathology measures with morphometric measurements. However, automated segmentation methods for brain mapping in postmortem MRI are not well developed,…

Reliable segmentation of anatomical tissues of human head is a major step in several clinical applications such as brain mapping, surgery planning and associated computational simulation studies. Segmentation is based on identifying…

Training medical image analysis models requires large amounts of expertly annotated data which is time-consuming and expensive to obtain. Images are often accompanied by free-text radiology reports which are a rich source of information. In…

Automatic fetal brain tissue segmentation can enhance the quantitative assessment of brain development at this critical stage. Deep learning methods represent the state of the art in medical image segmentation and have also achieved…

Hippocampus segmentation plays a key role in diagnosing various brain disorders such as Alzheimer's disease, epilepsy, multiple sclerosis, cancer, depression and others. Nowadays, segmentation is still mainly performed manually by…