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Accurate segmentation of brain resection cavities (RCs) aids in postoperative analysis and determining follow-up treatment. Convolutional neural networks (CNNs) are the state-of-the-art image segmentation technique, but require large…

Intra-operative ultrasound is an increasingly important imaging modality in neurosurgery. However, manual interaction with imaging data during the procedures, for example to select landmarks or perform segmentation, is difficult and can be…

Many successful methods developed for medical image analysis that are based on machine learning use supervised learning approaches, which often require large datasets annotated by experts to achieve high accuracy. However, medical data…

Neuroimaging to neuropathology correlation (NTNC) promises to enable the transfer of microscopic signatures of pathology to in vivo imaging with MRI, ultimately enhancing clinical care. NTNC traditionally requires a volumetric MRI scan,…

Image segmentation is a fundamental problem in medical image analysis. In recent years, deep neural networks achieve impressive performances on many medical image segmentation tasks by supervised learning on large manually annotated data.…

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…

Deep convolutional neural networks (CNNs) have shown excellent performance in object recognition tasks and dense classification problems such as semantic segmentation. However, training deep neural networks on large and sparse datasets is…

Purpose Automated segmentation of anatomical structures in medical image analysis is a prerequisite for autonomous diagnosis as well as various computer and robot aided interventions. Recent methods based on deep convolutional neural…

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…

In this work, we compare five deep learning solutions to automatically segment the resection cavity in postoperative MRI. The proposed methods are based on the same 3D U-Net architecture. We use a dataset of postoperative MRI volumes, each…

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…

Purpose: Registration and segmentation of magnetic resonance (MR) and ultrasound (US) images play an essential role in surgical planning and resection of brain tumors. However, validating these techniques is challenging due to the scarcity…

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…

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…

Biomedical image segmentation plays a significant role in computer-aided diagnosis. However, existing CNN based methods rely heavily on massive manual annotations, which are very expensive and require huge human resources. In this work, we…

Automated brain lesion segmentation provides valuable information for the analysis and intervention of patients. In particular, methods based on convolutional neural networks (CNNs) have achieved state-of-the-art segmentation performance.…

Convolutional neural networks (CNN) for medical imaging are constrained by the number of annotated data required in the training stage. Usually, manual annotation is considered to be the "gold standard". However, medical imaging datasets…

Surgical tool segmentation in endoscopic images is an important problem: it is a crucial step towards full instrument pose estimation and it is used for integration of pre- and intra-operative images into the endoscopic view. While many…

The time-consuming task of manual segmentation challenges routine systematic quantification of disease burden. Convolutional neural networks (CNNs) hold significant promise to reliably identify locations and boundaries of tumors from PET…

Purpose: The aim of this work is to develop a neural network training framework for continual training of small amounts of medical imaging data and create heuristics to assess training in the absence of a hold-out validation or test set.…