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In the field of transmission electron microscopy, data interpretation often lags behind acquisition methods, as image processing methods often have to be manually tailored to individual datasets. Machine learning offers a promising approach…

Recent advances in deep learning have had a methodological and practical impact on brain-computer interface research. Among the various deep network architectures, convolutional neural networks have been well suited for…

Automatic lymph node (LN) segmentation and detection for cancer staging are critical. In clinical practice, computed tomography (CT) and positron emission tomography (PET) imaging detect abnormal LNs. Despite its low contrast and variety in…

This paper introduces an efficient sub-model ensemble framework aimed at enhancing the interpretability of medical deep learning models, thus increasing their clinical applicability. By generating uncertainty maps, this framework enables…

Supervised training of deep neural networks (DNNs) by noisy labels has been studied extensively in image classification but much less in image segmentation. Our understanding of the learning behavior of DNNs trained by noisy segmentation…

Electron microscopy (EM) enables the reconstruction of neural circuits at the level of individual synapses, which has been transformative for scientific discoveries. However, due to the complex morphology, an accurate reconstruction of…

We present SAM4EM, a novel approach for 3D segmentation of complex neural structures in electron microscopy (EM) data by leveraging the Segment Anything Model (SAM) alongside advanced fine-tuning strategies. Our contributions include the…

In recent years, monocular depth estimation is applied to understand the surrounding 3D environment and has made great progress. However, there is an ill-posed problem on how to gain depth information directly from a single image. With the…

Over the last decade, electron microscopy has improved up to a point that generating high quality gigavoxel sized datasets only requires a few hours. Automated image analysis, particularly image segmentation, however, has not evolved at the…

Deep learning (DL) based unrolled reconstructions have shown state-of-the-art performance for under-sampled magnetic resonance imaging (MRI). Similar to compressed sensing, DL can leverage high-dimensional data (e.g. 3D, 2D+time, 3D+time)…

We design deep neural networks (DNNs) and corresponding networks' splittings to distribute DNNs' workload to camera sensors and a centralized aggregator on head mounted devices to meet system performance targets in inference accuracy and…

Deep learning has revolutionized medical image analysis, playing a vital role in modern clinical applications. However, the deployment of large-scale models in real-world clinical settings remains challenging due to high computational…

Segmentation of white matter lesions and deep grey matter structures is an important task in the quantification of magnetic resonance imaging in multiple sclerosis. In this paper we explore segmentation solutions based on convolutional…

EEG microstate analysis segments continuous brain electrical activity into brief, quasi-stable topographic configurations that reflect discrete functional brain states. Conventional approaches such as Modified K-Means operate directly in…

Behavioural differences across organisms, whether healthy or pathological, are closely tied to the structure of their neural circuits. Yet, the fine-scale synaptic changes that give rise to these variations remain poorly understood, in part…

Automated seizure detection using clinical electroencephalograms is a challenging machine learning problem because the multichannel signal often has an extremely low signal to noise ratio. Events of interest such as seizures are easily…

Deep Neural Networks (DNNs) often fail in out-of-distribution scenarios. In this paper, we introduce a tool to visualize and understand such failures. We draw inspiration from concepts from neural electrophysiology, which are based on…

Semantic segmentation is a crucial task in biomedical image processing, which recent breakthroughs in deep learning have allowed to improve. However, deep learning methods in general are not yet widely used in practice since they require…

Three-dimensional volumetric imaging of cells allows for in situ visualization, thus preserving contextual insights into cellular processes. Despite recent advances in machine learning methods, morphological analysis of sub-nuclear…

Previous studies on echocardiogram segmentation are focused on the left ventricle in parasternal long-axis views. In this study, deep-learning models were evaluated on the segmentation of the ventricles in parasternal short-axis…