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Background: Conventional cardiovascular magnetic resonance (CMR) in paediatric and congenital heart disease uses 2D, breath-hold, balanced steady state free precession (bSSFP) cine imaging for assessment of function and cardiac-gated,…

With pervasive applications of medical imaging in health-care, biomedical image segmentation plays a central role in quantitative analysis, clinical diagno- sis, and medical intervention. Since manual anno- tation su ers limited…

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…

Recent advances in 3D fully convolutional networks (FCN) have made it feasible to produce dense voxel-wise predictions of full volumetric images. In this work, we show that a multi-class 3D FCN trained on manually labeled CT scans of seven…

Delineation of anatomical structures is often the first step of many medical image analysis workflows. While convolutional neural networks achieve high performance, these do not incorporate anatomical shape information. We introduce a novel…

Automated segmentation of left ventricular cavity (LVC) in temporal cardiac image sequences (multiple time points) is a fundamental requirement for quantitative analysis of its structural and functional changes. Deep learning based methods…

Recently, state-of-the-art results have been achieved in semantic segmentation using fully convolutional networks (FCNs). Most of these networks employ encoder-decoder style architecture similar to U-Net and are trained with images and the…

Background: The assessment of left ventricular (LV) function by myocardial perfusion SPECT (MPS) relies on accurate myocardial segmentation. The purpose of this paper is to develop and validate a new method incorporating deep learning with…

Pancreas segmentation in computed tomography imaging has been historically difficult for automated methods because of the large shape and size variations between patients. In this work, we describe a custom-build 3D fully convolutional…

Deep neural networks yield promising results in a wide range of computer vision applications, including landmark detection. A major challenge for accurate anatomical landmark detection in volumetric images such as clinical CT scans is that…

Purpose: Aortic dissections are life-threatening cardiovascular conditions requiring accurate segmentation of true lumen (TL), false lumen (FL), and false lumen thrombosis (FLT) from CTA images for effective management. Manual segmentation…

Cardiac Magnetic Resonance (CMR) imaging is commonly used to assess cardiac structure and function. One disadvantage of CMR is that post-processing of exams is tedious. Without automation, precise assessment of cardiac function via CMR…

Convolutional neural network (CNN) based segmentation methods provide an efficient and automated way for clinicians to assess the structure and function of the heart in cardiac MR images. While CNNs can generally perform the segmentation…

Accurate vascular segmentation is essential for coronary visualization and the diagnosis of coronary heart disease. This task involves the extraction of sparse tree-like vascular branches from the volumetric space. However, existing methods…

Convolutional Neural Networks (CNNs) have been recently employed to solve problems from both the computer vision and medical image analysis fields. Despite their popularity, most approaches are only able to process 2D images while most…

Accurate and reliable brain tumor segmentation is a critical component in cancer diagnosis, treatment planning, and treatment outcome evaluation. Build upon successful deep learning techniques, a novel brain tumor segmentation method is…

We desgin a novel fully convolutional network architecture for shapes, denoted by Shape Fully Convolutional Networks (SFCN). 3D shapes are represented as graph structures in the SFCN architecture, based on novel graph convolution and…

We introduce DeepNAT, a 3D Deep convolutional neural network for the automatic segmentation of NeuroAnaTomy in T1-weighted magnetic resonance images. DeepNAT is an end-to-end learning-based approach to brain segmentation that jointly learns…

Semantic segmentation of blood vessels is an important task in medical image analysis, but its progress is often hindered by the scarcity of large annotated datasets and the poor generalization of models across different imaging modalities.…

Segmentation of cardiac structures is one of the fundamental steps to estimate volumetric indices of the heart. This step is still performed semi-automatically in clinical routine, and is thus prone to inter- and intra-observer variability.…