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Author |
Jorge Bernal; Debora Gil; Carles Sanchez; F. Javier Sanchez |
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Title |
Discarding Non Informative Regions for Efficient Colonoscopy Image Analysis |
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Conference Article |
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Year |
2014 |
Publication |
1st MICCAI Workshop on Computer-Assisted and Robotic Endoscopy |
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Volume |
8899 |
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Pages |
1-10 |
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Keywords |
Image Segmentation; Polyps, Colonoscopy; Valley Information; Energy Maps |
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Abstract |
In this paper we present a novel polyp region segmentation method for colonoscopy videos. Our method uses valley information associated to polyp boundaries in order to provide an initial segmentation. This first segmentation is refined to eliminate boundary discontinuities caused by image artifacts or other elements of the scene. Experimental results over a publicly annotated database show that our method outperforms both general and specific segmentation methods by providing more accurate regions rich in polyp content. We also prove how image preprocessing is needed to improve final polyp region segmentation. |
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Boston; USA; September 2014 |
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Springer International Publishing |
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0302-9743 |
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978-3-319-13409-3 |
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CARE |
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MV; IAM; 600.044; 600.047; 600.060; 600.075 |
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Admin @ si @ BGS2014b |
Serial |
2503 |
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Author |
Francesco Brughi; Debora Gil; Llorenç Badiella; Eva Jove Casabella; Oriol Ramos Terrades |
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Title |
Exploring the impact of inter-query variability on the performance of retrieval systems |
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Conference Article |
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Year |
2014 |
Publication |
11th International Conference on Image Analysis and Recognition |
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Volume |
8814 |
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Pages |
413–420 |
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This paper introduces a framework for evaluating the performance of information retrieval systems. Current evaluation metrics provide an average score that does not consider performance variability across the query set. In this manner, conclusions lack of any statistical significance, yielding poor inference to cases outside the query set and possibly unfair comparisons. We propose to apply statistical methods in order to obtain a more informative measure for problems in which different query classes can be identified. In this context, we assess the performance variability on two levels: overall variability across the whole query set and specific query class-related variability. To this end, we estimate confidence bands for precision-recall curves, and we apply ANOVA in order to assess the significance of the performance across different query classes. |
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Algarve; Portugal; October 2014 |
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Springer International Publishing |
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LNCS |
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0302-9743 |
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978-3-319-11757-7 |
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ICIAR |
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IAM; DAG; 600.060; 600.061; 600.077; 600.075 |
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Admin @ si @ BGB2014 |
Serial |
2559 |
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Author |
Antoni Gurgui; Debora Gil; Enric Marti; Vicente Grau |
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Title |
Left-Ventricle Basal Region Constrained Parametric Mapping to Unitary Domain |
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Conference Article |
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Year |
2016 |
Publication |
7th International Workshop on Statistical Atlases & Computational Modelling of the Heart |
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Volume |
10124 |
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Pages |
163-171 |
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Keywords |
Laplacian; Constrained maps; Parameterization; Basal ring |
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Due to its complex geometry, the basal ring is often omitted when putting different heart geometries into correspondence. In this paper, we present the first results on a new mapping of the left ventricle basal rings onto a normalized coordinate system using a fold-over free approach to the solution to the Laplacian. To guarantee correspondences between different basal rings, we imposed some internal constrained positions at anatomical landmarks in the normalized coordinate system. To prevent internal fold-overs, constraints are handled by cutting the volume into regions defined by anatomical features and mapping each piece of the volume separately. Initial results presented in this paper indicate that our method is able to handle internal constrains without introducing fold-overs and thus guarantees one-to-one mappings between different basal ring geometries. |
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Athens; October 2016 |
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STACOM |
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IAM; |
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Admin @ si @ GGM2016 |
Serial |
2884 |
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Author |
Carles Sanchez; Debora Gil; Jorge Bernal; F. Javier Sanchez; Marta Diez-Ferrer; Antoni Rosell |
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Title |
Navigation Path Retrieval from Videobronchoscopy using Bronchial Branches |
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Conference Article |
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Year |
2016 |
Publication |
19th International Conference on Medical Image Computing and Computer Assisted Intervention Workshops |
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9401 |
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62-70 |
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Keywords |
Bronchoscopy navigation; Lumen center; Brochial branches; Navigation path; Videobronchoscopy |
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Abstract |
Bronchoscopy biopsy can be used to diagnose lung cancer without risking complications of other interventions like transthoracic needle aspiration. During bronchoscopy, the clinician has to navigate through the bronchial tree to the target lesion. A main drawback is the difficulty to check whether the exploration is following the correct path. The usual guidance using fluoroscopy implies repeated radiation of the clinician, while alternative systems (like electromagnetic navigation) require specific equipment that increases intervention costs. We propose to compute the navigated path using anatomical landmarks extracted from the sole analysis of videobronchoscopy images. Such landmarks allow matching the current exploration to the path previously planned on a CT to indicate clinician whether the planning is being correctly followed or not. We present a feasibility study of our landmark based CT-video matching using bronchoscopic videos simulated on a virtual bronchoscopy interactive interface. |
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Quebec; Canada; September 2016 |
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MICCAIW |
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IAM; MV; 600.060; 600.075 |
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no |
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Admin @ si @ SGB2016 |
Serial |
2885 |
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Author |
Debora Gil; Oriol Ramos Terrades; Elisa Minchole; Carles Sanchez; Noelia Cubero de Frutos; Marta Diez-Ferrer; Rosa Maria Ortiz; Antoni Rosell |
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Title |
Classification of Confocal Endomicroscopy Patterns for Diagnosis of Lung Cancer |
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Conference Article |
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Year |
2017 |
Publication |
6th Workshop on Clinical Image-based Procedures: Translational Research in Medical Imaging |
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Volume |
10550 |
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Pages |
151-159 |
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Abstract |
Confocal Laser Endomicroscopy (CLE) is an emerging imaging technique that allows the in-vivo acquisition of cell patterns of potentially malignant lesions. Such patterns could discriminate between inflammatory and neoplastic lesions and, thus, serve as a first in-vivo biopsy to discard cases that do not actually require a cell biopsy.
The goal of this work is to explore whether CLE images obtained during videobronchoscopy contain enough visual information to discriminate between benign and malign peripheral lesions for lung cancer diagnosis. To do so, we have performed a pilot comparative study with 12 patients (6 adenocarcinoma and 6 benign-inflammatory) using 2 different methods for CLE pattern analysis: visual analysis by 3 experts and a novel methodology that uses graph methods to find patterns in pre-trained feature spaces. Our preliminary results indicate that although visual analysis can only achieve a 60.2% of accuracy, the accuracy of the proposed unsupervised image pattern classification raises to 84.6%.
We conclude that CLE images visual information allow in-vivo detection of neoplastic lesions and graph structural analysis applied to deep-learning feature spaces can achieve competitive results. |
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Quebec; Canada; September 2017 |
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LNCS |
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IAM; 600.096; 600.075; 600.145 |
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Admin @ si @ GRM2017 |
Serial |
2957 |
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Author |
Esmitt Ramirez; Carles Sanchez; Agnes Borras; Marta Diez-Ferrer; Antoni Rosell; Debora Gil |
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Title |
Image-Based Bronchial Anatomy Codification for Biopsy Guiding in Video Bronchoscopy |
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Conference Article |
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Year |
2018 |
Publication |
OR 2.0 Context-Aware Operating Theaters, Computer Assisted Robotic Endoscopy, Clinical Image-Based Procedures, and Skin Image Analysis |
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11041 |
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Keywords |
Biopsy guiding; Bronchoscopy; Lung biopsy; Intervention guiding; Airway codification |
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Abstract |
Bronchoscopy examinations allow biopsy of pulmonary nodules with minimum risk for the patient. Even for experienced bronchoscopists, it is difficult to guide the bronchoscope to most distal lesions and obtain an accurate diagnosis. This paper presents an image-based codification of the bronchial anatomy for bronchoscopy biopsy guiding. The 3D anatomy of each patient is codified as a binary tree with nodes representing bronchial levels and edges labeled using their position on images projecting the 3D anatomy from a set of branching points. The paths from the root to leaves provide a codification of navigation routes with spatially consistent labels according to the anatomy observes in video bronchoscopy explorations. We evaluate our labeling approach as a guiding system in terms of the number of bronchial levels correctly codified, also in the number of labels-based instructions correctly supplied, using generalized mixed models and computer-generated data. Results obtained for three independent observers prove the consistency and reproducibility of our guiding system. We trust that our codification based on viewer’s projection might be used as a foundation for the navigation process in Virtual Bronchoscopy systems. |
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Granada; September 2018 |
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LNCS |
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MICCAIW |
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IAM; 600.096; 600.075; 601.323; 600.145 |
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no |
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Admin @ si @ RSB2018b |
Serial |
3137 |
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Author |
Debora Gil; Antonio Esteban Lansaque; Sebastian Stefaniga; Mihail Gaianu; Carles Sanchez |
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Title |
Data Augmentation from Sketch |
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Conference Article |
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Year |
2019 |
Publication |
International Workshop on Uncertainty for Safe Utilization of Machine Learning in Medical Imaging |
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11840 |
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155-162 |
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Data augmentation; cycleGANs; Multi-objective optimization |
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State of the art machine learning methods need huge amounts of data with unambiguous annotations for their training. In the context of medical imaging this is, in general, a very difficult task due to limited access to clinical data, the time required for manual annotations and variability across experts. Simulated data could serve for data augmentation provided that its appearance was comparable to the actual appearance of intra-operative acquisitions. Generative Adversarial Networks (GANs) are a powerful tool for artistic style transfer, but lack a criteria for selecting epochs ensuring also preservation of intra-operative content.
We propose a multi-objective optimization strategy for a selection of cycleGAN epochs ensuring a mapping between virtual images and the intra-operative domain preserving anatomical content. Our approach has been applied to simulate intra-operative bronchoscopic videos and chest CT scans from virtual sketches generated using simple graphical primitives. |
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Shenzhen; China; October 2019 |
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IAM; 600.145; 601.337; 600.139; 600.145 |
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Admin @ si @ GES2019 |
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3359 |
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Author |
Debora Gil; Jaume Garcia; Mariano Vazquez; Ruth Aris; Guilleaume Houzeaux |
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Title |
Patient-Sensitive Anatomic and Functional 3D Model of the Left Ventricle Function |
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Conference Article |
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2008 |
Publication |
8th World Congress on Computational Mechanichs (WCCM8) |
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Left Ventricle, Electromechanical Models, Image Processing, Magnetic Resonance. |
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Early diagnosis and accurate treatment of Left Ventricle (LV) dysfunction significantly increases the patient survival. Impairment of LV contractility due to cardiovascular diseases is reflected in its motion patterns. Recent advances in medical imaging, such as Magnetic Resonance (MR), have encouraged research on 3D simulation and modelling of the LV dynamics. Most of the existing 3D models [1] consider just the gross anatomy of the LV and restore a truncated ellipse which deforms along the cardiac cycle. The contraction mechanics of any muscle strongly depends on the spatial orientation of its muscular fibers since the motion that the muscle undergoes mainly takes place along the fibers. It follows that such simplified models do not allow evaluation of the heart electro-mechanical function and coupling, which has recently risen as the key point for understanding the LV functionality [2]. In order to thoroughly understand the LV mechanics it is necessary to consider the complete anatomy of the LV given by the orientation of the myocardial fibres in 3D space as described by Torrent Guasp [3].
We propose developing a 3D patient-sensitive model of the LV integrating, for the first time, the ven- tricular band anatomy (fibers orientation), the LV gross anatomy and its functionality. Such model will represent the LV function as a natural consequence of its own ventricular band anatomy. This might be decisive in restoring a proper LV contraction in patients undergoing pace marker treatment.
The LV function is defined as soon as the propagation of the contractile electromechanical pulse has been modelled. In our experiments we have used the wave equation for the propagation of the electric pulse. The electromechanical wave moves on the myocardial surface and should have a conductivity tensor oriented along the muscular fibers. Thus, whatever mathematical model for electric pulse propa- gation [4] we consider, the complete anatomy of the LV should be extracted.
The LV gross anatomy is obtained by processing multi slice MR images recorded for each patient. Information about the myocardial fibers distribution can only be extracted by Diffusion Tensor Imag- ing (DTI), which can not provide in vivo information for each patient. As a first approach, we have
Figure 1: Scheme for the Left Ventricle Patient-Sensitive Model.
computed an average model of fibers from several DTI studies of canine hearts. This rough anatomy is the input for our electro-mechanical propagation model simulating LV dynamics. The average fiber orientation is updated until the simulated LV motion agrees with the experimental evidence provided by the LV motion observed in tagged MR (TMR) sequences. Experimental LV motion is recovered by applying image processing, differential geometry and interpolation techniques to 2D TMR slices [5]. The pipeline in figure 1 outlines the interaction between simulations and experimental data leading to our patient-tailored model. |
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Venice; Italy |
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9788496736559 |
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IAM; |
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IAM @ iam @ GGV2008b |
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993 |
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Author |
C. Santa-Marta; Jaume Garcia; A. Bajo; J.J. Vaquero; M. Ledesma-Carbayo; Debora Gil |
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Title |
Influence of the Temporal Resolution on the Quantification of Displacement Fields in Cardiac Magnetic Resonance Tagged Images |
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Conference Article |
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2008 |
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XXVI Congreso Anual de la Sociedad Española de Ingenieria Biomedica |
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352–353 |
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It is difficult to acquire tagged cardiac MR images with a high temporal and spatial resolution using clinical MR scanners. However, if such images are used for quantifying scores based on motion, it is essential a resolution as high as possibl e. This paper explores the influence of the temporal resolution of a tagged series on the quantification of myocardial dynamic parameters. To such purpose we have designed a SPAMM (Spatial Modulation of Magnetization) sequence allowing acquisition of sequences at simple and double temporal resolution. Sequences are processed to compute myocardial motion by an automatic technique based on the tracking of the harmonic phase of tagged images (the Harmonic Phase Flow, HPF). The results have been compared to manual tracking of myocardial tags. The error in displacement fields for double resolution sequences reduces 17%. |
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Valladolid |
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Roberto hornero, Saniel Abasolo |
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CASEIB |
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IAM @ iam @ SGB2008 |
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1033 |
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Cristina Cañero; Petia Radeva; Oriol Pujol; Ricardo Toledo; Debora Gil; J. Saludes; Juan J. Villanueva; B. Garcia del Blanco; J. Mauri; E. Fernandez-Nofrerias; J.A. Gomez-Hospital; E. Iraculis; J. Comin; C. Quiles; F. Jara; A. Cequier; E. Esplugas |
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Optimal Stent Implantation: Three-dimensional Evaluation of the Mutual Position of Stent and Vessel via Intracoronary Ecography |
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1999 |
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Proceedings of International Conference on Computer in Cardiology (CIC´99) |
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We present a new automatic technique to visualize and quantify the mutual position between the stent and the vessel wall by considering their three-dimensional reconstruction. Two deformable generalized cylinders adapt to the image features in all IVUS planes corresponding to the vessel wall and the stent in order to reconstruct the boundaries of the stent and the vessel in space. The image features that characterize the stent and the vessel wall are determined in terms of edge and ridge image detectors taking into account the gray level of the image pixels. We show that the 30 reconstruction by deformable cylinders is accurate and robust due to the spatial data coherence in the considered volumetric IVUS image. The main clinic utility of the stent and vessel reconstruction by deformable’ cylinders consists of its possibility to visualize and to assess the optimal stent introduction. |
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MILAB; RV; IAM; ADAS; HuPBA |
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IAM @ iam @ CRP1999a |
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1491 |
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