Carles Sanchez, Jorge Bernal, Debora Gil, & F. Javier Sanchez. (2013). On-line lumen centre detection in gastrointestinal and respiratory endoscopy. In Klaus Miguel Angel and Drechsler Stefan and González Ballester Raj and Wesarg Cristina and Shekhar Marius George and Oyarzun Laura M. and L. Erdt (Ed.), Second International Workshop Clinical Image-Based Procedures (Vol. 8361, pp. 31–38). LNCS. Springer International Publishing.
Abstract: We present in this paper a novel lumen centre detection for gastrointestinal and respiratory endoscopic images. The proposed method is based on the appearance and geometry of the lumen, which we defined as the darkest image region which centre is a hub of image gradients. Experimental results validated on the first public annotated gastro-respiratory database prove the reliability of the method for a wide range of images (with precision over 95 %).
Keywords: Lumen centre detection; Bronchoscopy; Colonoscopy
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Jorge Bernal, F. Javier Sanchez, & Fernando Vilariño. (2013). Impact of Image Preprocessing Methods on Polyp Localization in Colonoscopy Frames. In 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (pp. 7350–7354).
Abstract: In this paper we present our image preprocessing methods as a key part of our automatic polyp localization scheme. These methods are used to assess the impact of different endoluminal scene elements when characterizing polyps. More precisely we tackle the influence of specular highlights, blood vessels and black mask surrounding the scene. Experimental results prove that the appropriate handling of these elements leads to a great improvement in polyp localization results.
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Carles Sanchez, Debora Gil, Antoni Rosell, Albert Andaluz, & F. Javier Sanchez. (2013). Segmentation of Tracheal Rings in Videobronchoscopy combining Geometry and Appearance. In Sebastiano Battiato and José Braz (Ed.), Proceedings of the International Conference on Computer Vision Theory and Applications (Vol. 1, pp. 153–161). LNCS. Portugal: SciTePress.
Abstract: Videobronchoscopy is a medical imaging technique that allows interactive navigation inside the respiratory pathways and minimal invasive interventions. Tracheal procedures are ordinary interventions that require measurement of the percentage of obstructed pathway for injury (stenosis) assessment. Visual assessment of stenosis in videobronchoscopic sequences requires high expertise of trachea anatomy and is prone to human error. Accurate detection of tracheal rings is the basis for automated estimation of the size of stenosed trachea. Processing of videobronchoscopic images acquired at the operating room is a challenging task due to the wide range of artifacts and acquisition conditions. We present a model of the geometric-appearance of tracheal rings for its detection in videobronchoscopic videos. Experiments on sequences acquired at the operating room, show a performance close to inter-observer variability
Keywords: Video-bronchoscopy, tracheal ring segmentation, trachea geometric and appearance model
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Joan M. Nuñez, Debora Gil, & Fernando Vilariño. (2013). Finger joint characterization from X-ray images for rheymatoid arthritis assessment. In 6th International Conference on Biomedical Electronics and Devices (pp. 288–292). SciTePress.
Abstract: In this study we propose amodular systemfor automatic rheumatoid arthritis assessment which provides a joint space width measure. A hand joint model is proposed based on the accurate analysis of a X-ray finger joint image sample set. This model shows that the sclerosis and the lower bone are the main necessary features in order to perform a proper finger joint characterization. We propose sclerosis and lower bone detection methods as well as the experimental setup necessary for its performance assessment. Our characterization is used to propose and compute a joint space width score which is shown to be related to the different degrees of arthritis. This assertion is verified by comparing our proposed score with Sharp Van der Heijde score, confirming that the lower our score is the more advanced is the patient affection.
Keywords: Rheumatoid Arthritis; X-Ray; Hand Joint; Sclerosis; Sharp Van der Heijde
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Joan M. Nuñez, Jorge Bernal, F. Javier Sanchez, & Fernando Vilariño. (2013). Blood Vessel Characterization in Colonoscopy Images to Improve Polyp Localization. In Proceedings of the International Conference on Computer Vision Theory and Applications (Vol. 1, pp. 162–171). SciTePress.
Abstract: This paper presents an approach to mitigate the contribution of blood vessels to the energy image used at different tasks of automatic colonoscopy image analysis. This goal is achieved by introducing a characterization of endoluminal scene objects which allows us to differentiate between the trace of 2-dimensional visual objects,such as vessels, and shades from 3-dimensional visual objects, such as folds. The proposed characterization is based on the influence that the object shape has in the resulting visual feature, and it leads to the development of a blood vessel attenuation algorithm. A database consisting of manually labelled masks was built in order to test the performance of our method, which shows an encouraging success in blood vessel mitigation while keeping other structures intact. Moreover, by extending our method to the only available polyp localization
algorithm tested on a public database, blood vessel mitigation proved to have a positive influence on the overall performance.
Keywords: Colonoscopy; Blood vessel; Linear features; Valley detection
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Mirko Arnold, Anarta Ghosh, Glen Doherty, Hugh Mulcahy, Stephen Patchett, & Gerard Lacey. (2013). Towards Automatic Direct Observation of Procedure and Skill (DOPS) in Colonoscopy. In Proceedings of the International Conference on Computer Vision Theory and Applications (pp. 48–53).
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Carles Sanchez, F. Javier Sanchez, Antoni Rosell, & Debora Gil. (2012). An illumination model of the trachea appearance in videobronchoscopy images. In Image Analysis and Recognition (Vol. 7325, pp. 313–320). LNCS. Springer Berlin Heidelberg.
Abstract: Videobronchoscopy is a medical imaging technique that allows interactive navigation inside the respiratory pathways. This imaging modality provides realistic images and allows non-invasive minimal intervention procedures. Tracheal procedures are routinary interventions that require assessment of the percentage of obstructed pathway for injury (stenosis) detection. Visual assessment in videobronchoscopic sequences requires high expertise of trachea anatomy and is prone to human error.
This paper introduces an automatic method for the estimation of steneosed trachea percentage reduction in videobronchoscopic images. We look for tracheal rings , whose deformation determines the degree of obstruction. For ring extraction , we present a ring detector based on an illumination and appearance model. This model allows us to parametrise the ring detection. Finally, we can infer optimal estimation parameters for any video resolution.
Keywords: Bronchoscopy, tracheal ring, stenosis assesment, trachea appearance model, segmentation
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Jorge Bernal, F. Javier Sanchez, & Fernando Vilariño. (2012). Towards Automatic Polyp Detection with a Polyp Appearance Model. PR - Pattern Recognition, 45(9), 3166–3182.
Abstract: This work aims at the automatic polyp detection by using a model of polyp appearance in the context of the analysis of colonoscopy videos. Our method consists of three stages: region segmentation, region description and region classification. The performance of our region segmentation method guarantees that if a polyp is present in the image, it will be exclusively and totally contained in a single region. The output of the algorithm also defines which regions can be considered as non-informative. We define as our region descriptor the novel Sector Accumulation-Depth of Valleys Accumulation (SA-DOVA), which provides a necessary but not sufficient condition for the polyp presence. Finally, we classify our segmented regions according to the maximal values of the SA-DOVA descriptor. Our preliminary classification results are promising, especially when classifying those parts of the image that do not contain a polyp inside.
Keywords: Colonoscopy,PolypDetection,RegionSegmentation,SA-DOVA descriptot
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Santiago Segui, Michal Drozdzal, Fernando Vilariño, Carolina Malagelada, Fernando Azpiroz, Petia Radeva, et al. (2012). Categorization and Segmentation of Intestinal Content Frames for Wireless Capsule Endoscopy. TITB - IEEE Transactions on Information Technology in Biomedicine, 16(6), 1341–1352.
Abstract: Wireless capsule endoscopy (WCE) is a device that allows the direct visualization of gastrointestinal tract with minimal discomfort for the patient, but at the price of a large amount of time for screening. In order to reduce this time, several works have proposed to automatically remove all the frames showing intestinal content. These methods label frames as {intestinal content – clear} without discriminating between types of content (with different physiological meaning) or the portion of image covered. In addition, since the presence of intestinal content has been identified as an indicator of intestinal motility, its accurate quantification can show a potential clinical relevance. In this paper, we present a method for the robust detection and segmentation of intestinal content in WCE images, together with its further discrimination between turbid liquid and bubbles. Our proposal is based on a twofold system. First, frames presenting intestinal content are detected by a support vector machine classifier using color and textural information. Second, intestinal content frames are segmented into {turbid, bubbles, and clear} regions. We show a detailed validation using a large dataset. Our system outperforms previous methods and, for the first time, discriminates between turbid from bubbles media.
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Jorge Bernal. (2012). Polyp Localization and Segmentation in Colonoscopy Images by Means of a Model of Appearance for Polyps (F. Javier Sanchez, & Fernando Vilariño, Eds.). Ph.D. thesis, Ediciones Graficas Rey, .
Abstract: Colorectal cancer is the fourth most common cause of cancer death worldwide and its survival rate depends on the stage in which it is detected on hence the necessity for an early colon screening. There are several screening techniques but colonoscopy is still nowadays the gold standard, although it has some drawbacks such as the miss rate. Our contribution, in the field of intelligent systems for colonoscopy, aims at providing a polyp localization and a polyp segmentation system based on a model of appearance for polyps. To develop both methods we define a model of appearance for polyps, which describes a polyp as enclosed by intensity valleys. The novelty of our contribution resides on the fact that we include in our model aspects of the image formation and we also consider the presence of other elements from the endoluminal scene such as specular highlights and blood vessels, which have an impact on the performance of our methods. In order to develop our polyp localization method we accumulate valley information in order to generate energy maps, which are also used to guide the polyp segmentation. Our methods achieve promising results in polyp localization and segmentation. As we want to explore the usability of our methods we present a comparative analysis between physicians fixations obtained via an eye tracking device and our polyp localization method. The results show that our method is indistinguishable to novice physicians although it is far from expert physicians.
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Jorge Bernal, F. Javier Sanchez, & Fernando Vilariño. (2011). Current Challenges on Polyp Detection in Colonoscopy Videos: From Region Segmentation to Region Classification. a Pattern Recognition-based Approach.ased Approach. In K. Djemal (Ed.), 2nd International Workshop on Medical Image Analysis and Descriptionfor Diagnosis Systems (pp. 62–71). SciTePress.
Abstract: In this paper we present our approach on real-time polyp detection in colonoscopy videos. Our method consists of three stages: Image Segmentation, Region Description and Image Classification. Taking into account the constraints of our project, we introduce our segmentation system that is based on the model of appearance of the polyp that we have defined after observing real videos from colonoscopy processes. The output of this stage will ideally be a low number of regions of which one of them should cover the whole polyp region (if there is one in the image). This regions will be described in terms of features and, as a result of a machine learning schema, classified based on the values that they have for the several features that we will use on their description. Although we are still on the early stages of the project, we present some preliminary segmentation results that indicates that we are going in a good direction.
Keywords: Medical Imaging, Colonoscopy, Pattern Recognition, Segmentation, Polyp Detection, Region Description, Machine Learning, Real-time.
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Jorge Bernal, F. Javier Sanchez, & Fernando Vilariño. (2011). A Region Segmentation Method for Colonoscopy Images Using a Model of Polyp Appearance. In Mario João and Hernández J. and S. Vitrià (Ed.), 5th Iberian Conference on Pattern Recognition and Image Analysis (Vol. 6669, pp. 134–143 ). LNCS.
Abstract: This work aims at the segmentation of colonoscopy images into a minimum number of informative regions. Our method performs in a way such, if a polyp is present in the image, it will be exclusively and totally contained in a single region. This result can be used in later stages to classify regions as polyp-containing candidates. The output of the algorithm also defines which regions can be considered as non-informative. The algorithm starts with a high number of initial regions and merges them taking into account the model of polyp appearance obtained from available data. The results show that our segmentations of polyp regions are more accurate than state-of-the-art methods.
Keywords: Colonoscopy, Polyp Detection, Region Merging, Region Segmentation.
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Jorge Bernal, Fernando Vilariño, & F. Javier Sanchez. (2011). Towards Intelligent Systems for Colonoscopy. In Paul Miskovitz (Ed.), Colonoscopy (Vol. 1, pp. 257–282). Intech.
Abstract: In this chapter we present tools that can be used to build intelligent systems for colonoscopy.
The idea is, by using methods based on computer vision and artificial intelligence, add significant value to the colonoscopy procedure. Intelligent systems are being used to assist in other medical interventions
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Jorge Bernal, F. Javier Sanchez, & Fernando Vilariño. (2011). Integration of Valley Orientation Distribution for Polyp Region Identification in Colonoscopy. In In MICCAI 2011 Workshop on Computational and Clinical Applications in Abdominal Imaging (Vol. 6668, pp. 76–83). Lecture Notes in Computer Science. Springer Link.
Abstract: This work presents a region descriptor based on the integration of the information that the depth of valleys image provides. The depth of valleys image is based on the presence of intensity valleys around polyps due to the image acquisition. Our proposed method consists of defining, for each point, a series of radial sectors around it and then accumulates the maxima of the depth of valleys image only if the orientation of the intensity valley coincides with the orientation of the sector above. We apply our descriptor to a prior segmentation of the images and we present promising results on polyp detection, outperforming other approaches that also integrate depth of valleys information.
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Jorge Bernal, F. Javier Sanchez, & Fernando Vilariño. (2011). Depth of Valleys Accumulation Algorithm for Object Detection. In 14th Congrès Català en Intel·ligencia Artificial (Vol. 1, pp. 71–80).
Abstract: This work aims at detecting in which regions the objects in the image are by using information about the intensity of valleys, which appear to surround ob- jects in images where the source of light is in the line of direction than the camera. We present our depth of valleys accumulation method, which consists of two stages: first, the definition of the depth of valleys image which combines the output of a ridges and valleys detector with the morphological gradient to measure how deep is a point inside a valley and second, an algorithm that denotes points of the image as interior to objects those which are inside complete or incomplete boundaries in the depth of valleys image. To evaluate the performance of our method we have tested it on several application domains. Our results on object region identification are promising, specially in the field of polyp detection in colonoscopy videos, and we also show its applicability in different areas.
Keywords: Object Recognition, Object Region Identification, Image Analysis, Image Processing
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