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Recent advances in scanning transmission electron and scanning probe microscopies have opened exciting opportunities in probing the materials structural parameters and various functional properties in real space with angstrom-level…

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…

Deep convolutional neural networks have achieved remarkable progress on a variety of medical image computing tasks. A common problem when applying supervised deep learning methods to medical images is the lack of labeled data, which is very…

Segmenting the retinal vasculature entails a trade-off between how much of the overall vascular structure we identify vs. how precisely we segment individual vessels. In particular, state-of-the-art methods tend to under-segment faint…

Accurate automatic segmentation of brain anatomy from $T_1$-weighted~($T_1$-w) magnetic resonance images~(MRI) has been a computationally intensive bottleneck in neuroimaging pipelines, with state-of-the-art results obtained by unsupervised…

The performance of supervised deep learning methods for medical image segmentation is often limited by the scarcity of labeled data. As a promising research direction, semi-supervised learning addresses this dilemma by leveraging unlabeled…

Biological nervous systems are created in a fundamentally different way than current artificial neural networks. Despite its impressive results in a variety of different domains, deep learning often requires considerable engineering effort…

The automatic assessment of hippocampus volume is an important tool in the study of several neurodegenerative diseases such as Alzheimer's disease. Specifically, the measurement of hippocampus subfields properties is of great interest since…

Recently deep learning has been playing a major role in the field of computer vision. One of its applications is the reduction of human judgment in the diagnosis of diseases. Especially, brain tumor diagnosis requires high accuracy, where…

The task of automatically segmenting 3-D surfaces representing boundaries of objects is important for quantitative analysis of volumetric images, and plays a vital role in biomedical image analysis. Recently, graph-based methods with a…

Deep learning has largely reduced the need for manual feature selection in image segmentation. Nevertheless, network architecture optimization and hyperparameter tuning are mostly manual and time consuming. Although there are increasing…

A brain tumor, whether benign or malignant, can potentially be life threatening and requires painstaking efforts in order to identify the type, origin and location, let alone cure one. Manual segmentation by medical specialists can be…

Medical image segmentation is an increasingly popular area of research in medical imaging processing and analysis. However, many researchers who are new to the field struggle with basic concepts. This tutorial paper aims to provide an…

In recent years, Convolutional Neural Networks (CNNs) have become the state-of-the-art method for biomedical image analysis. However, these networks are usually trained in a supervised manner, requiring large amounts of labelled training…

Biomedical image segmentation plays a vital role in diagnosis of diseases across various organs. Deep learning-based object detection methods are commonly used for such segmentation. There exists an extensive research in this topic.…

Deep learning has made a remarkable impact in the field of natural image processing over the past decade. Consequently, there is a great deal of interest in replicating this success across unsolved tasks in related domains, such as medical…

We present the first attempt to perform short glass fiber semantic segmentation from X-ray computed tomography volumetric datasets at medium (3.9 {\mu}m isotropic) and low (8.3 {\mu}m isotropic) resolution using deep learning architectures.…

Applying machine learning technologies, especially deep learning, into medical image segmentation is being widely studied because of its state-of-the-art performance and results. It can be a key step to provide a reliable basis for clinical…

Whole brain segmentation is an important neuroimaging task that segments the whole brain volume into anatomically labeled regions-of-interest. Convolutional neural networks have demonstrated good performance in this task. Existing…

Light-field microscopes are able to capture spatial and angular information of incident light rays. This allows reconstructing 3D locations of neurons from a single snap-shot.In this work, we propose a model-inspired deep learning approach…