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For 3D medical image (e.g. CT and MRI) segmentation, the difficulty of segmenting each slice in a clinical case varies greatly. Previous research on volumetric medical image segmentation in a slice-by-slice manner conventionally use the…

The most recent fast and accurate image segmentation methods are built upon fully convolutional deep neural networks. In this paper, we propose new deep learning strategies for DenseNets to improve segmenting images with subtle differences…

Many functional and structural neuroimaging studies call for accurate morphometric segmentation of different brain structures starting from image intensity values of MRI scans. Current automatic (multi-) atlas-based segmentation strategies…

With the introduction of fully convolutional neural networks, deep learning has raised the benchmark for medical image segmentation on both speed and accuracy, and different networks have been proposed for 2D and 3D segmentation with…

We present a novel neural network architecture called AutoAtlas for fully unsupervised partitioning and representation learning of 3D brain Magnetic Resonance Imaging (MRI) volumes. AutoAtlas consists of two neural network components: one…

Deep learning (DL) approaches are state-of-the-art for many medical image segmentation tasks. They offer a number of advantages: they can be trained for specific tasks, computations are fast at test time, and segmentation quality is…

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…

Magnetic Resonance Imaging (MRI) of the fetal brain has become a key tool for studying brain development in vivo. Yet, its assessment remains challenging due to variability in brain maturation, imaging protocols, and uncertain estimates of…

Segmenting a structural magnetic resonance imaging (MRI) scan is an important pre-processing step for analytic procedures and subsequent inferences about longitudinal tissue changes. Manual segmentation defines the current gold standard in…

Segmenting deep brain structures from magnetic resonance images is important for patient diagnosis, surgical planning, and research. Most current state-of-the-art solutions follow a segmentation-by-registration approach, where subject MRIs…

Brain tumor segmentation is important for diagnosis of the tumor, and current deep-learning methods rely on a large set of annotated images for training, with high annotation costs. Unsupervised segmentation is promising to avoid human…

Deep learning-based segmentation techniques have shown remarkable performance in brain segmentation, yet their success hinges on the availability of extensive labeled training data. Acquiring such vast datasets, however, poses a significant…

Purpose. Brain Magnetic Resonance Images (MRIs) are essential for the diagnosis of neurological diseases. Recently, deep learning methods for unsupervised anomaly detection (UAD) have been proposed for the analysis of brain MRI. These…

Brightfield and fluorescent imaging of whole brain sections are funda- mental tools of research in mouse brain study. As sectioning and imaging become more efficient, there is an increasing need to automate the post-processing of sec- tions…

Deep convolutional neural networks (CNNs) are state-of-the-art for semantic image segmentation, but typically require many labeled training samples. Obtaining 3D segmentations of medical images for supervised training is difficult and labor…

Purpose: This study demonstrated an MR signal multitask learning method for 3D simultaneous segmentation and relaxometry of human brain tissues. Materials and Methods: A 3D inversion-prepared balanced steady-state free precession sequence…

Whole brain segmentation from structural magnetic resonance imaging (MRI) is a prerequisite for most morphological analyses, but is computationally intense and can therefore delay the availability of image markers after scan acquisition. We…

In this paper, a neural architecture search (NAS) framework is proposed for 3D medical image segmentation, to automatically optimize a neural architecture from a large design space. Our NAS framework searches the structure of each layer…

Most of the current state-of-the-art methods for tumor segmentation are based on machine learning models trained on manually segmented images. This type of training data is particularly costly, as manual delineation of tumors is not only…

A significant challenge for brain histological data analysis is to precisely identify anatomical regions in order to perform accurate local quantifications and evaluate therapeutic solutions. Usually, this task is performed manually,…