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Laura Igual; Joan Carles Soliva; Sergio Escalera; Roger Gimeno; Oscar Vilarroya; Petia Radeva |
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Automatic Brain Caudate Nuclei Segmentation and Classification in Diagnostic of Attention-Deficit/Hyperactivity Disorder |
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2012 |
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Computerized Medical Imaging and Graphics |
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CMIG |
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36 |
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8 |
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591-600 |
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Automatic caudate segmentation; Attention-Deficit/Hyperactivity Disorder; Diagnostic test; Machine learning; Decision stumps; Dissociated dipoles |
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We present a fully automatic diagnostic imaging test for Attention-Deficit/Hyperactivity Disorder diagnosis assistance based on previously found evidences of caudate nucleus volumetric abnormalities. The proposed method consists of different steps: a new automatic method for external and internal segmentation of caudate based on Machine Learning methodologies; the definition of a set of new volume relation features, 3D Dissociated Dipoles, used for caudate representation and classification. We separately validate the contributions using real data from a pediatric population and show precise internal caudate segmentation and discrimination power of the diagnostic test, showing significant performance improvements in comparison to other state-of-the-art methods. |
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OR; HuPBA; MILAB |
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Admin @ si @ ISE2012 |
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2143 |
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Laura Igual; Joan Carles Soliva; Antonio Hernandez; Sergio Escalera; Xavier Jimenez ; Oscar Vilarroya; Petia Radeva |
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A fully-automatic caudate nucleus segmentation of brain MRI: Application in volumetric analysis of pediatric attention-deficit/hyperactivity disorder |
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2011 |
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BioMedical Engineering Online |
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BEO |
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10 |
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105 |
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1-23 |
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Brain caudate nucleus; segmentation; MRI; atlas-based strategy; Graph Cut framework |
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Background
Accurate automatic segmentation of the caudate nucleus in magnetic resonance images (MRI) of the brain is of great interest in the analysis of developmental disorders. Segmentation methods based on a single atlas or on multiple atlases have been shown to suitably localize caudate structure. However, the atlas prior information may not represent the structure of interest correctly. It may therefore be useful to introduce a more flexible technique for accurate segmentations.
Method
We present Cau-dateCut: a new fully-automatic method of segmenting the caudate nucleus in MRI. CaudateCut combines an atlas-based segmentation strategy with the Graph Cut energy-minimization framework. We adapt the Graph Cut model to make it suitable for segmenting small, low-contrast structures, such as the caudate nucleus, by defining new energy function data and boundary potentials. In particular, we exploit information concerning the intensity and geometry, and we add supervised energies based on contextual brain structures. Furthermore, we reinforce boundary detection using a new multi-scale edgeness measure.
Results
We apply the novel CaudateCut method to the segmentation of the caudate nucleus to a new set of 39 pediatric attention-deficit/hyperactivity disorder (ADHD) patients and 40 control children, as well as to a public database of 18 subjects. We evaluate the quality of the segmentation using several volumetric and voxel by voxel measures. Our results show improved performance in terms of segmentation compared to state-of-the-art approaches, obtaining a mean overlap of 80.75%. Moreover, we present a quantitative volumetric analysis of caudate abnormalities in pediatric ADHD, the results of which show strong correlation with expert manual analysis.
Conclusion
CaudateCut generates segmentation results that are comparable to gold-standard segmentations and which are reliable in the analysis of differentiating neuroanatomical abnormalities between healthy controls and pediatric ADHD. |
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1475-925X |
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MILAB;HuPBA |
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Admin @ si @ ISH2011 |
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1882 |
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Jean-Pascal Jacob; Mariella Dimiccoli; Lionel Moisan |
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Active skeleton for bacteria modeling |
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2016 |
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Computer Methods in Biomechanics and Biomedical Engineering: Imaging and Visualization |
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CMBBE |
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5 |
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4 |
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274-286 |
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Bacteria modelling; medial axis; active contours; active skeleton; shape contraints |
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The investigation of spatio-temporal dynamics of bacterial cells and their molecular components requires automated image analysis tools to track cell shape properties and molecular component locations inside the cells. In the study of bacteria aging, the molecular components of interest are protein aggregates accumulated near bacteria boundaries. This particular location makes very ambiguous the correspondence between aggregates and cells, since computing accurately bacteria boundaries in phase-contrast time-lapse imaging is a challenging task. This paper proposes an active skeleton formulation for bacteria modeling which provides several advantages: an easy computation of shape properties (perimeter, length, thickness, orientation), an improved boundary accuracy in noisy images, and a natural bacteria-centered coordinate system that permits the intrinsic location of molecular components inside the cell. Starting from an initial skeleton estimate, the medial axis of the bacterium is obtained by minimizing an energy function which incorporates bacteria shape constraints. Experimental results on biological images and comparative evaluation of the performances validate the proposed approach for modeling cigar-shaped bacteria like Escherichia coli. The Image-J plugin of the proposed method can be found online at this http URL |
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MILAB |
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Admin @ si @ JDM2016 |
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2711 |
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Fahad Shahbaz Khan; Joost Van de Weijer; Muhammad Anwer Rao; Michael Felsberg; Carlo Gatta |
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Title |
Semantic Pyramids for Gender and Action Recognition |
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2014 |
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IEEE Transactions on Image Processing |
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TIP |
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23 |
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8 |
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3633-3645 |
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Person description is a challenging problem in computer vision. We investigated two major aspects of person description: 1) gender and 2) action recognition in still images. Most state-of-the-art approaches for gender and action recognition rely on the description of a single body part, such as face or full-body. However, relying on a single body part is suboptimal due to significant variations in scale, viewpoint, and pose in real-world images. This paper proposes a semantic pyramid approach for pose normalization. Our approach is fully automatic and based on combining information from full-body, upper-body, and face regions for gender and action recognition in still images. The proposed approach does not require any annotations for upper-body and face of a person. Instead, we rely on pretrained state-of-the-art upper-body and face detectors to automatically extract semantic information of a person. Given multiple bounding boxes from each body part detector, we then propose a simple method to select the best candidate bounding box, which is used for feature extraction. Finally, the extracted features from the full-body, upper-body, and face regions are combined into a single representation for classification. To validate the proposed approach for gender recognition, experiments are performed on three large data sets namely: 1) human attribute; 2) head-shoulder; and 3) proxemics. For action recognition, we perform experiments on four data sets most used for benchmarking action recognition in still images: 1) Sports; 2) Willow; 3) PASCAL VOC 2010; and 4) Stanford-40. Our experiments clearly demonstrate that the proposed approach, despite its simplicity, outperforms state-of-the-art methods for gender and action recognition. |
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1057-7149 |
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CIC; LAMP; 601.160; 600.074; 600.079;MILAB |
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Admin @ si @ KWR2014 |
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2507 |
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Karim Lekadir; Alfiia Galimzianova; Angels Betriu; Maria del Mar Vila; Laura Igual; Daniel L. Rubin; Elvira Fernandez-Giraldez; Petia Radeva; Sandy Napel |
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A Convolutional Neural Network for Automatic Characterization of Plaque Composition in Carotid Ultrasound |
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2017 |
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IEEE Journal Biomedical and Health Informatics |
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J-BHI |
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21 |
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1 |
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48-55 |
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Characterization of carotid plaque composition, more specifically the amount of lipid core, fibrous tissue, and calcified tissue, is an important task for the identification of plaques that are prone to rupture, and thus for early risk estimation of cardiovascular and cerebrovascular events. Due to its low costs and wide availability, carotid ultrasound has the potential to become the modality of choice for plaque characterization in clinical practice. However, its significant image noise, coupled with the small size of the plaques and their complex appearance, makes it difficult for automated techniques to discriminate between the different plaque constituents. In this paper, we propose to address this challenging problem by exploiting the unique capabilities of the emerging deep learning framework. More specifically, and unlike existing works which require a priori definition of specific imaging features or thresholding values, we propose to build a convolutional neural network (CNN) that will automatically extract from the images the information that is optimal for the identification of the different plaque constituents. We used approximately 90 000 patches extracted from a database of images and corresponding expert plaque characterizations to train and to validate the proposed CNN. The results of cross-validation experiments show a correlation of about 0.90 with the clinical assessment for the estimation of lipid core, fibrous cap, and calcified tissue areas, indicating the potential of deep learning for the challenging task of automatic characterization of plaque composition in carotid ultrasound. |
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MILAB; no menciona |
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Admin @ si @ LGB2017 |
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2931 |
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