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Two successful approaches for the segmentation of biomedical images are (1) the selection of segment candidates from a merge-tree, and (2) the clustering of small superpixels by solving a Multi-Cut problem. In this paper, we introduce a…

Medical image segmentation requires not only accuracy but also robustness under challenging imaging conditions. In this study, we show that a carefully configured DeepLabv3 model can achieve high performance in segmenting induced…

Medical image segmentation is an important analysis task in clinical practice and research. Deep learning has massively advanced the field, but current approaches are mostly based on models trained for a specific task. Training such models…

Multimodal Magnetic Resonance Imaging (MRI) provides essential complementary information for analyzing brain tumor subregions. While methods using four common MRI modalities for automatic segmentation have shown success, they often face…

Medical imaging segmentation is a highly active area of research, with deep learning-based methods achieving state-of-the-art results in several benchmarks. However, the lack of standardized tools for training, testing, and evaluating new…

Brain metastasis segmentation poses a significant challenge in medical imaging due to the complex presentation and variability in size and location of metastases. In this study, we first investigate the impact of different imaging…

Medical image segmentation aims to identify anatomical structures at the voxel-level. Segmentation accuracy relies on distinguishing voxel differences. Compared to advancements achieved in studies of the inter-class variance, the…

Cell segmentation is a major bottleneck in extracting quantitative single-cell information from microscopy data. The challenge is exasperated in the setting of microstructured environments. While deep learning approaches have proven useful…

Deep learning models have shown promising performance for cell nucleus segmentation in the field of pathology image analysis. However, training a robust model from multiple domains remains a great challenge for cell nucleus segmentation.…

Studying the growth and metabolism of microbes provides critical insights into their evolutionary adaptations to harsh environments, which are essential for microbial research and biotechnology applications. In this study, we developed an…

We introduce a deep learning image segmentation framework that is extremely robust to missing imaging modalities. Instead of attempting to impute or synthesize missing data, the proposed approach learns, for each modality, an embedding of…

Cell nuclei segmentation is one of the most important tasks in the analysis of biomedical images. With ever-growing sizes and amounts of three-dimensional images to be processed, there is a need for better and faster segmentation methods.…

Deep learning has revolutionized medical and biological imaging, particularly in segmentation tasks. However, segmenting biological cells remains challenging due to the high variability and complexity of cell shapes. Addressing this…

Multiplex Imaging (MI) enables the simultaneous visualization of multiple biological markers in separate imaging channels at subcellular resolution, providing valuable insights into cell-type heterogeneity and spatial organization. However,…

Brain tumor segmentation is often based on multiple magnetic resonance imaging (MRI). However, in clinical practice, certain modalities of MRI may be missing, which presents a more difficult scenario. To cope with this challenge, Knowledge…

Despite the remarkable performance of deep learning methods on various tasks, most cutting-edge models rely heavily on large-scale annotated training examples, which are often unavailable for clinical and health care tasks. The labeling…

Developing clinically useful cell-level analysis tools in digital pathology remains challenging due to limitations in dataset granularity, inconsistent annotations, high computational demands, and difficulties integrating new technologies…

Automatic cell segmentation in microscopy images works well with the support of deep neural networks trained with full supervision. Collecting and annotating images, though, is not a sustainable solution for every new microscopy database…

Pixel-wise segmentation is one of the most data and annotation hungry tasks in our field. Providing representative and accurate annotations is often mission-critical especially for challenging medical applications. In this paper, we propose…

Magnetic resonance (MR) protocols rely on several sequences to assess pathology and organ status properly. Despite advances in image analysis, we tend to treat each sequence, here termed modality, in isolation. Taking advantage of the…