26,585 research outputs found
Morphological and multi-level geometrical descriptor analysis in CT and MRI volumes for automatic pancreas segmentation
Automatic pancreas segmentation in 3D radiological scans is a critical, yet challenging task. As a prerequisite for computer-aided diagnosis (CADx) systems, accurate pancreas segmentation could generate both quantitative and qualitative information towards establishing the severity of a condition, and thus provide additional guidance for therapy planning. Since the pancreas is an organ of high inter-patient anatomical variability, previous segmentation approaches report lower quantitative accuracy scores in comparison to abdominal organs such as the liver or kidneys. This paper presents a novel approach for automatic pancreas segmentation in magnetic resonance imaging (MRI) and computer tomography (CT) scans. This method exploits 3D segmentation that, when coupled with geometrical and morphological characteristics of abdominal tissue, classifies distinct contours in tight pixel-range proximity as “pancreas” or “non-pancreas”. There are three main stages to this approach: (1) identify a major pancreas region and apply contrast enhancement to differentiate between pancreatic and surrounding tissue; (2) perform 3D segmentation via continuous max-flow and min-cuts approach, structured forest edge detection, and a training dataset of annotated pancreata; (3) eliminate non-pancreatic contours from resultant segmentation via morphological operations on area, structure and connectivity between distinct contours. The proposed method is evaluated on a dataset containing 82 CT image volumes, achieving mean Dice Similarity coefficient (DSC) of 79.3 ± 4.4%. Two MRI datasets containing 216 and 132 image volumes are evaluated, achieving mean DSC 79.6 ± 5.7% and 81.6 ± 5.1% respectively. This approach is statistically stable, reflected by lower metrics in standard deviation in comparison to state-of-the-art approaches
Joint morphological-lexical language modeling for processing morphologically rich languages with application to dialectal Arabic
Language modeling for an inflected language
such as Arabic poses new challenges for speech recognition and
machine translation due to its rich morphology. Rich morphology
results in large increases in out-of-vocabulary (OOV) rate and
poor language model parameter estimation in the absence of large
quantities of data. In this study, we present a joint
morphological-lexical language model (JMLLM) that takes
advantage of Arabic morphology. JMLLM combines
morphological segments with the underlying lexical items and
additional available information sources with regards to
morphological segments and lexical items in a single joint model.
Joint representation and modeling of morphological and lexical
items reduces the OOV rate and provides smooth probability
estimates while keeping the predictive power of whole words.
Speech recognition and machine translation experiments in
dialectal-Arabic show improvements over word and morpheme
based trigram language models. We also show that as the
tightness of integration between different information sources
increases, both speech recognition and machine translation
performances improve
Whole-brain vasculature reconstruction at the single capillary level
The distinct organization of the brain’s vascular network ensures that it is adequately supplied with oxygen and nutrients. However, despite this fundamental role, a detailed reconstruction of the brain-wide vasculature at the capillary level remains elusive, due to insufficient image quality using the best available techniques. Here, we demonstrate a novel approach that improves vascular demarcation by combining CLARITY with a vascular staining approach that can fill the entire blood vessel lumen and imaging with light-sheet fluorescence microscopy. This method significantly improves image contrast, particularly in depth, thereby allowing reliable application of automatic segmentation algorithms, which play an increasingly important role in high-throughput imaging of the terabyte-sized datasets now routinely produced. Furthermore, our novel method is compatible with endogenous fluorescence, thus allowing simultaneous investigations of vasculature and genetically targeted neurons. We believe our new method will be valuable for future brain-wide investigations of the capillary network
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