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Segmentation has been a major task in neuroimaging. A large number of automated methods have been developed for segmenting healthy and diseased brain tissues. In recent years, deep learning techniques have attracted a lot of attention as a…

Digital neuron reconstruction from 3D microscopy images is an essential technique for investigating brain connectomics and neuron morphology. Existing reconstruction frameworks use convolution-based segmentation networks to partition the…

Segmentation of brain structures from magnetic resonance (MR) scans plays an important role in the quantification of brain morphology. Since 3D deep learning models suffer from high computational cost, 2D deep learning methods are favored…

Accurate 3D bone reconstruction from a single planar X-ray remains a challenge due to anatomical complexity and limited input data. We propose X2BR, a hybrid neural implicit framework that combines continuous volumetric reconstruction with…

Efforts to automate the reconstruction of neural circuits from 3D electron microscopic (EM) brain images are critical for the field of connectomics. An important computation for reconstruction is the detection of neuronal boundaries. Images…

Accurate segmentation of the stroke lesions using magnetic resonance imaging (MRI) is associated with difficulties due to the complicated anatomy of the brain and the different properties of the lesions. This study introduces the…

Medical imaging segmentation is essential in clinical settings for diagnosing diseases, planning surgeries, and other procedures. However, manual annotation is a cumbersome and effortful task. To mitigate these aspects, this study…

Semantic segmentation is an established while rapidly evolving field in medical imaging. In this paper we focus on the segmentation of brain Magnetic Resonance Images (MRI) into cerebral structures using convolutional neural networks (CNN).…

Brain extraction is a fundamental step for most brain imaging studies. In this paper, we investigate the problem of skull stripping and propose complementary segmentation networks (CompNets) to accurately extract the brain from T1-weighted…

Recently deep residual learning with residual units for training very deep neural networks advanced the state-of-the-art performance on 2D image recognition tasks, e.g., object detection and segmentation. However, how to fully leverage…

Brain lesion volume measured on T2 weighted MRI images is a clinically important disease marker in multiple sclerosis (MS). Manual delineation of MS lesions is a time-consuming and highly operator-dependent task, which is influenced by…

In this paper we propose a deep learning approach for segmenting sub-cortical structures of the human brain in Magnetic Resonance (MR) image data. We draw inspiration from a state-of-the-art Fully-Convolutional Neural Network (F-CNN)…

Synchrotron radiation-based X-ray microtomography is uniquely suited for post mortem three-dimensional visualization of organs such as the mouse brain. Tomographic imaging of the entire mouse brain with isotropic cellular resolution…

Whole-brain surface extraction is an essential topic in medical imaging systems as it provides neurosurgeons with a broader view of surgical planning and abnormality detection. To solve the problem confronted in current deep learning skull…

Sketches, with their expressive potential, allow humans to convey the essence of an object through even a rough contour. For the first time, we harness this expressive potential to improve segmentation performance in challenging tasks like…

This paper presents an annotated dataset of brain MRI images designed to advance the field of brain symmetry study. Magnetic resonance imaging (MRI) has gained interest in analyzing brain symmetry in neonatal infants, and challenges remain…

In this paper, we propose an efficient approach for the compression and representation of volumetric data utilizing coordinate-based networks and multi-resolution hash encoding. Efficient compression of volumetric data is crucial for…

Magnetic Resonance Imaging (MRI) is one of the most flexible and powerful medical imaging modalities. This flexibility does however come at a cost; MRI images acquired at different sites and with different parameters exhibit significant…

There is large consent that successful training of deep networks requires many thousand annotated training samples. In this paper, we present a network and training strategy that relies on the strong use of data augmentation to use the…

Graph Neural Networks (GNNs) have gained significant traction for simulating complex physical systems, with models like MeshGraphNet demonstrating strong performance on unstructured simulation meshes. However, these models face several…