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Segmentation in 3D scans is playing an increasingly important role in current clinical practice supporting diagnosis, tissue quantification, or treatment planning. The current 3D approaches based on convolutional neural networks usually…
Accurate segmentation of the heart is an important step towards evaluating cardiac function. In this paper, we present a fully automated framework for segmentation of the left (LV) and right (RV) ventricular cavities and the myocardium…
In brain tumor diagnosis and surgical planning, segmentation of tumor regions and accurate analysis of surrounding normal tissues are necessary for physicians. Pathological variability often renders difficulty to register a well-labeled…
Segmentation, i.e., the partitioning of volumetric data into components, is a crucial task in many image processing applications ever since such data could be generated. Most existing applications nowadays, specifically CNNs, make use of…
Deep learning approaches have achieved state-of-the-art performance in cardiac magnetic resonance (CMR) image segmentation. However, most approaches have focused on learning image intensity features for segmentation, whereas the…
The Allen Atlas of the adult mouse brain is a brain-wide, genome-wide data set that has been made available online, triggering a renaissance in neuroanatomy. In particular, it has been used to define brain regions in a computational,…
The analysis of single CT slices extracted at the third lumbar vertebra (L3) has garnered significant clinical interest in the past few years, in particular in regards to quantifying sarcopenia (muscle loss). In this paper, we propose an…
Brain tumor segmentation is a fundamental step in assessing a patient's cancer progression. However, manual segmentation demands significant expert time to identify tumors in 3D multimodal brain MRI scans accurately. This reliance on manual…
Background Analyzing images to accurately estimate the number of different cell types in the brain using automatic methods is a major objective in neuroscience. The automatic and selective detection and segmentation of neurons would be an…
Segmentation is essential for medical image analysis tasks such as intervention planning, therapy guidance, diagnosis, treatment decisions. Deep learning is becoming increasingly prominent for segmentation, where the lack of annotations,…
A computational anatomy atlas is a set of internal organ geometries. It is based on data of real patients and complemented with virtual cases by using a some numerical approach. Atlases are in demand in computational physiology, especially…
Sub-cortical brain structure segmentation in Magnetic Resonance Images (MRI) has attracted the interest of the research community for a long time because morphological changes in these structures are related to different neurodegenerative…
As deep learning methods continue to improve medical image segmentation performance, data annotation is still a big bottleneck due to the labor-intensive and time-consuming burden on medical experts, especially for 3D images. To…
This paper presents a fully automated method to segment the complex left atrial (LA) cavity, from 3D Gadolinium-enhanced magnetic resonance imaging (GE-MRI) scans. The proposed method consists of four steps: (1) preprocessing to convert the…
Segmentation of mandibles in CT scans during virtual surgical planning is crucial for 3D surgical planning in order to obtain a detailed surface representation of the patients bone. Automatic segmentation of mandibles in CT scans is a…
This paper aims to solve a fundamental problem in intensity-based 2D/3D registration, which concerns the limited capture range and need for very good initialization of state-of-the-art image registration methods. We propose a regression…
In this study, we proposed and validated a multi-atlas guided 3D fully convolutional network (FCN) ensemble model (M-FCN) for segmenting brain regions of interest (ROIs) from structural magnetic resonance images (MRIs). One major limitation…
Segmentation of COVID-19 lesions from chest CT scans is of great importance for better diagnosing the disease and investigating its extent. However, manual segmentation can be very time consuming and subjective, given the lesions' large…
The human lung is a complex respiratory organ, consisting of five distinct anatomic compartments called lobes. Accurate and automatic segmentation of these pulmonary lobes from computed tomography (CT) images is of clinical importance for…
Morphological analysis and identification of pathologies in the aorta are important for cardiovascular diagnosis and risk assessment in patients. Manual annotation is time-consuming and cumbersome in CT scans acquired without contrast…