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Training large deep learning models at scale is very challenging. This paper proposes Chimera, a novel pipeline parallelism scheme which combines bidirectional pipelines for efficiently training large-scale models. Chimera is a synchronous…

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.…

MRI is an inherently slow process, which leads to long scan time for high-resolution imaging. The speed of acquisition can be increased by ignoring parts of the data (undersampling). Consequently, this leads to the degradation of image…

Significance: Optical neuroimaging has become a well-established clinical and research tool to monitor cortical activations in the human brain. It is notable that outcomes of functional Near-InfraRed Spectroscopy (fNIRS) studies depend…

Deep learning has been recently used for the analysis of neuroimages, such as structural magnetic resonance imaging (MRI), functional MRI, and positron emission tomography (PET), and has achieved significant performance improvements over…

The main focus of this work is a novel framework for the joint reconstruction and segmentation of parallel MRI (PMRI) brain data. We introduce an image domain deep network for calibrationless recovery of undersampled PMRI data. The proposed…

Accurately assessing tumor removal is paramount in the management of glioblastoma. We developed a pipeline using MRI scans and neural networks to segment tumor subregions and the surgical cavity in postoperative images. Our model excels in…

Ultrasound imaging provides information from a large part of the muscle. It has recently been shown that ultrafast ultrasound imaging can be used to record and analyze the mechanical response of individual MUs using blind source separation.…

Functional Magnetic Resonance Imaging (fMRI) relies on multi-step data processing pipelines to accurately determine brain activity; among them, the crucial step of spatial smoothing. These pipelines are commonly suboptimal, given the local…

The segmentation of cells and neurites in microscopy images of neuronal networks provides valuable quantitative information about neuron growth and neuronal differentiation, including the number of cells, neurites, neurite length and…

Deep learning approaches for diffusion MRI have so far focused primarily on voxel-based segmentation of lesions or white-matter fiber tracts. A drawback of representing tracts as volumetric labels, rather than sets of streamlines, is that…

Semantic image segmentation is one of fastest growing areas in computer vision with a variety of applications. In many areas, such as robotics and autonomous vehicles, semantic image segmentation is crucial, since it provides the necessary…

Surface analysis of the cortex is ubiquitous in human neuroimaging with MRI, e.g., for cortical registration, parcellation, or thickness estimation. The convoluted cortical geometry requires isotropic scans (e.g., 1mm MPRAGEs) and good…

The encoder-decoder framework is state-of-the-art for offline semantic image segmentation. Since the rise in autonomous systems, real-time computation is increasingly desirable. In this paper, we introduce fast segmentation convolutional…

Brain tumor segmentation is one of the most challenging problems in medical image analysis. The goal of brain tumor segmentation is to generate accurate delineation of brain tumor regions. In recent years, deep learning methods have shown…

Object segmentation and structure localization are important steps in automated image analysis pipelines for microscopy images. We present a convolution neural network (CNN) based deep learning architecture for segmentation of objects in…

Metasurfaces have become a promising means for manipulating optical wavefronts in flat and high-performance optical devices. Conventional metasurface device design relies on trial-and-error methods to obtain target electromagnetic (EM)…

Reconstructing a map of neuronal connectivity is a critical challenge in contemporary neuroscience. Recent advances in high-throughput serial section electron microscopy (EM) have produced massive 3D image volumes of nanoscale brain tissue…

One fruitful formulation of Deep Networks (DNs) enabling their theoretical study and providing practical guidelines to practitioners relies on Piecewise Affine Splines. In that realm, a DN's input-mapping is expressed as per-region affine…

The knowledge of potentially druggable binding sites on proteins is an important preliminary step towards the discovery of novel drugs. The computational prediction of such areas can be boosted by following the recent major advances in the…