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Author |
David Roche; Debora Gil; Jesus Giraldo |
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Title |
Mathematical modeling of G protein-coupled receptor function: What can we learn from empirical and mechanistic models? |
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Book Chapter |
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Year ![sorted by Year field, descending order (down)](http://refbase.cvc.uab.es/img/sort_desc.gif) |
2014 |
Publication |
G Protein-Coupled Receptors – Modeling and Simulation Advances in Experimental Medicine and Biology |
Abbreviated Journal |
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Volume |
796 |
Issue |
3 |
Pages |
159-181 |
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Keywords |
β-arrestin; biased agonism; curve fitting; empirical modeling; evolutionary algorithm; functional selectivity; G protein; GPCR; Hill coefficient; intrinsic efficacy; inverse agonism; mathematical modeling; mechanistic modeling; operational model; parameter optimization; receptor dimer; receptor oligomerization; receptor constitutive activity; signal transduction; two-state model |
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Abstract |
Empirical and mechanistic models differ in their approaches to the analysis of pharmacological effect. Whereas the parameters of the former are not physical constants those of the latter embody the nature, often complex, of biology. Empirical models are exclusively used for curve fitting, merely to characterize the shape of the E/[A] curves. Mechanistic models, on the contrary, enable the examination of mechanistic hypotheses by parameter simulation. Regretfully, the many parameters that mechanistic models may include can represent a great difficulty for curve fitting, representing, thus, a challenge for computational method development. In the present study some empirical and mechanistic models are shown and the connections, which may appear in a number of cases between them, are analyzed from the curves they yield. It may be concluded that systematic and careful curve shape analysis can be extremely useful for the understanding of receptor function, ligand classification and drug discovery, thus providing a common language for the communication between pharmacologists and medicinal chemists. |
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Springer Netherlands |
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0065-2598 |
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978-94-007-7422-3 |
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IAM; 600.075 |
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no |
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IAM @ iam @ RGG2014 |
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2197 |
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Author |
Patricia Marquez; Debora Gil; R.Mester; Aura Hernandez-Sabate |
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Title |
Local Analysis of Confidence Measures for Optical Flow Quality Evaluation |
Type |
Conference Article |
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Year ![sorted by Year field, descending order (down)](http://refbase.cvc.uab.es/img/sort_desc.gif) |
2014 |
Publication |
9th International Conference on Computer Vision Theory and Applications |
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3 |
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Pages |
450-457 |
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Keywords |
Optical Flow; Confidence Measure; Performance Evaluation. |
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Abstract |
Optical Flow (OF) techniques facing the complexity of real sequences have been developed in the last years. Even using the most appropriate technique for our specific problem, at some points the output flow might fail to achieve the minimum error required for the system. Confidence measures computed from either input data or OF output should discard those points where OF is not accurate enough for its further use. It follows that evaluating the capabilities of a confidence measure for bounding OF error is as important as the definition
itself. In this paper we analyze different confidence measures and point out their advantages and limitations for their use in real world settings. We also explore the agreement with current tools for their evaluation of confidence measures performance. |
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Lisboa; January 2014 |
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VISAPP |
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IAM; ADAS; 600.044; 600.060; 600.057; 601.145; 600.076; 600.075 |
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Admin @ si @ MGM2014 |
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2432 |
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Author |
Sergio Vera; Debora Gil; Miguel Angel Gonzalez Ballester |
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Title |
Anatomical parameterization for volumetric meshing of the liver |
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Conference Article |
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Year ![sorted by Year field, descending order (down)](http://refbase.cvc.uab.es/img/sort_desc.gif) |
2014 |
Publication |
SPIE – Medical Imaging |
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9036 |
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Keywords |
Coordinate System; Anatomy Modeling; Parameterization |
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Abstract |
A coordinate system describing the interior of organs is a powerful tool for a systematic localization of injured tissue. If the same coordinate values are assigned to specific anatomical landmarks, the coordinate system allows integration of data across different medical image modalities. Harmonic mappings have been used to produce parametric coordinate systems over the surface of anatomical shapes, given their flexibility to set values
at specific locations through boundary conditions. However, most of the existing implementations in medical imaging restrict to either anatomical surfaces, or the depth coordinate with boundary conditions is given at sites
of limited geometric diversity. In this paper we present a method for anatomical volumetric parameterization that extends current harmonic parameterizations to the interior anatomy using information provided by the
volume medial surface. We have applied the methodology to define a common reference system for the liver shape and functional anatomy. This reference system sets a solid base for creating anatomical models of the patient’s liver, and allows comparing livers from several patients in a common framework of reference. |
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Amsterdam; September 2014 |
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SPIE-MI |
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IAM; 600.075 |
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Admin @ si @ VGG2014 |
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2456 |
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Author |
Enric Marti; Antoni Gurgui; Debora Gil; Aura Hernandez-Sabate; Jaume Rocarias; Ferran Poveda |
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Title |
ABP on line: Seguimiento, estregas y evaluación en aprendizaje basado en proyectos |
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Miscellaneous |
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Year ![sorted by Year field, descending order (down)](http://refbase.cvc.uab.es/img/sort_desc.gif) |
2014 |
Publication |
8th International Congress on University Teaching and Innovation |
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Tarragona; juliol 2014 |
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CIDUI |
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IAM; ADAS; 600.076; 600.063; 600.075 |
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Admin @ si @ MGG2014 |
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2457 |
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Author |
Carles Sanchez; Oriol Ramos Terrades; Patricia Marquez; Enric Marti; Jaume Rocarias; Debora Gil |
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Title |
Evaluación automática de prácticas en Moodle para el aprendizaje autónomo en Ingenierías |
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Miscellaneous |
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Year ![sorted by Year field, descending order (down)](http://refbase.cvc.uab.es/img/sort_desc.gif) |
2014 |
Publication |
8th International Congress on University Teaching and Innovation |
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Tarragona; juliol 2014 |
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IAM; 600.075;DAG |
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Admin @ si @ SRM2014 |
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2458 |
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Author |
Patricia Marquez; H. Kause; A. Fuster; Aura Hernandez-Sabate; L. Florack; Debora Gil; Hans van Assen |
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Title |
Factors Affecting Optical Flow Performance in Tagging Magnetic Resonance Imaging |
Type |
Conference Article |
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Year ![sorted by Year field, descending order (down)](http://refbase.cvc.uab.es/img/sort_desc.gif) |
2014 |
Publication |
17th International Conference on Medical Image Computing and Computer Assisted Intervention |
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Volume |
8896 |
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Pages |
231-238 |
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Optical flow; Performance Evaluation; Synthetic Database; ANOVA; Tagging Magnetic Resonance Imaging |
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Abstract |
Changes in cardiac deformation patterns are correlated with cardiac pathologies. Deformation can be extracted from tagging Magnetic Resonance Imaging (tMRI) using Optical Flow (OF) techniques. For applications of OF in a clinical setting it is important to assess to what extent the performance of a particular OF method is stable across dierent clinical acquisition artifacts. This paper presents a statistical validation framework, based on ANOVA, to assess the motion and appearance factors that have the largest in uence on OF accuracy drop.
In order to validate this framework, we created a database of simulated tMRI data including the most common artifacts of MRI and test three dierent OF methods, including HARP. |
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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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978-3-319-14677-5 |
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STACOM |
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IAM; ADAS; 600.060; 601.145; 600.076; 600.075 |
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Admin @ si @ MKF2014 |
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2495 |
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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 |
Type |
Conference Article |
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Year ![sorted by Year field, descending order (down)](http://refbase.cvc.uab.es/img/sort_desc.gif) |
2014 |
Publication |
1st MICCAI Workshop on Computer-Assisted and Robotic Endoscopy |
Abbreviated Journal |
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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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Notes |
MV; IAM; 600.044; 600.047; 600.060; 600.075 |
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no |
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Admin @ si @ BGS2014b |
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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 ![sorted by Year field, descending order (down)](http://refbase.cvc.uab.es/img/sort_desc.gif) |
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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0302-9743 |
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978-3-319-11757-7 |
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ICIAR |
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Notes |
IAM; DAG; 600.060; 600.061; 600.077; 600.075 |
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no |
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Call Number |
Admin @ si @ BGB2014 |
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2559 |
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Author |
Carles Sanchez |
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Title |
Tracheal Structure Characterization using Geometric and Appearance Models for Efficient Assessment of Stenosis in Videobronchoscopy |
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Book Whole |
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Year ![sorted by Year field, descending order (down)](http://refbase.cvc.uab.es/img/sort_desc.gif) |
2014 |
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PhD Thesis, Universitat Autonoma de Barcelona-CVC |
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Recent advances in endoscopic devices have increased their use for minimal invasive diagnostic and intervention procedures. Among all endoscopic modalities, bronchoscopy is one of the most frequent with around 261 millions of procedures per year. Although the use of bronchoscopy is spread among clinical facilities it presents some drawbacks, being the visual inspection for the assessment of anatomical measurements the most prevalent of them. In
particular, inaccuracies in the estimation of the degree of stenosis (the percentage of obstructed airway) decreases its diagnostic yield and might lead to erroneous treatments. An objective computation of tracheal stenosis in bronchoscopy videos would constitute a breakthrough for this non-invasive technique and a reduction in treatment cost.
This thesis settles the first steps towards on-line reliable extraction of anatomical information from videobronchoscopy for computation of objective measures. In particular, we focus on the computation of the degree of stenosis, which is obtained by comparing the area delimited by a healthy tracheal ring and the stenosed lumen. Reliable extraction of airway structures in interventional videobronchoscopy is a challenging task. This is mainly due to the large variety of acquisition conditions (positions and illumination), devices (different digitalizations) and in videos acquired at the operating room the unpredicted presence of surgical devices (such as probe ends). This thesis contributes to on-line stenosis assessment in several ways. We
propose a parametric strategy for the extraction of lumen and tracheal rings regions based on the characterization of their geometry and appearance that guide a deformable model. The geometric and appearance characterization is based on a physical model describing the way bronchoscopy images are obtained and includes local and global descriptions. In order to ensure a systematic applicability we present a statistical framework to select the optimal
parameters of our method. Experiments perform on the first public annotated database, show that the performance of our method is comparable to the one provided by clinicians and its computation time allows for a on-line implementation in the operating room. |
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Ph.D. thesis |
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Publisher |
Ediciones Graficas Rey |
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Editor |
F. Javier Sanchez;Debora Gil;Jorge Bernal |
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978-84-940902-9-5 |
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IAM; 600.075 |
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Admin @ si @ San2014 |
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2575 |
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Author |
Antonio Esteban Lansaque |
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Title |
3D reconstruction and recognition using structured ligth |
Type |
Report |
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Year ![sorted by Year field, descending order (down)](http://refbase.cvc.uab.es/img/sort_desc.gif) |
2014 |
Publication |
CVC Technical Report |
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179 |
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This work covers the problem of 3D reconstruction, recognition and 6DOF pose estimation. The goal of this project is to reconstruct a 3D scene and to align an object model of the industrial pieces onto the reconstructed scene. The reconstruction algorithm is based on stereo techniques and the recognition algorithm is based on SHOT descriptors computed on a set of uniform keypoints. Correspondences are used to estimate a first 6DOF transformation that maps the model onto the scene and then ICP algorithm is used to refine the transformation. In order to check the effectiveness of the proposed algorithm, several experiments were performed. These experiments were conducted on a lab environment in order to get results under the same conditions in all of them. Although obtained results are not real time results, the proposed algorithm ends up with high rates of object recognition. |
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UAB; September 2014 |
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Master's thesis |
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IAM; 600.075 |
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no |
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Admin @ si @ Est2014 |
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2578 |
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