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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? |
Type |
Book Chapter |
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Year |
2014 |
Publication |
G Protein-Coupled Receptors – Modeling and Simulation Advances in Experimental Medicine and Biology |
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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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IAM @ iam @ RGG2014 |
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2197 |
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Author |
H. Martin Kjer; Jens Fagertun; Sergio Vera; Debora Gil |
![download PDF file pdf](img/file_PDF.gif)
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Title |
Medial structure generation for registration of anatomical structures |
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2017 |
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Skeletonization, Theory, Methods and Applications |
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11 |
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IAM; 600.096; 600.075; 600.145 |
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Admin @ si @ MFV2017a |
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2935 |
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Author |
Aura Hernandez-Sabate; Debora Gil |
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Title |
The Benefits of IVUS Dynamics for Retrieving Stable Models of Arteries |
Type |
Book Chapter |
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Year |
2012 |
Publication |
Intravascular Ultrasound |
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185-206 |
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Intech |
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Editor |
Yasuhiro Honda |
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English |
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english |
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978-953-307-900-4 |
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IAM; ADAS |
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no |
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IAM @ iam @ HeG2012 |
Serial |
1684 |
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Author |
Debora Gil; Oriol Ramos Terrades; Raquel Perez |
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Title |
Topological Radiomics (TOPiomics): Early Detection of Genetic Abnormalities in Cancer Treatment Evolution |
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Book Chapter |
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Year |
2021 |
Publication |
Extended Abstracts GEOMVAP 2019, Trends in Mathematics 15 |
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15 |
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89–93 |
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Abstract |
Abnormalities in radiomic measures correlate to genomic alterations prone to alter the outcome of personalized anti-cancer treatments. TOPiomics is a new method for the early detection of variations in tumor imaging phenotype from a topological structure in multi-view radiomic spaces. |
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Springer Nature |
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IAM; DAG; 600.120; 600.145; 600.139 |
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no |
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Admin @ si @ GRP2021 |
Serial |
3594 |
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Author |
Debora Gil; F. Javier Sanchez; Gloria Fernandez Esparrach; Jorge Bernal |
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Title |
3D Stable Spatio-temporal Polyp Localization in Colonoscopy Videos |
Type |
Book Chapter |
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Year |
2015 |
Publication |
Computer-Assisted and Robotic Endoscopy. Revised selected papers of Second International Workshop, CARE 2015, Held in Conjunction with MICCAI 2015 |
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Volume |
9515 |
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Pages |
140-152 |
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Keywords |
Colonoscopy, Polyp Detection, Polyp Localization, Region Extraction, Watersheds |
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Abstract |
Computational intelligent systems could reduce polyp miss rate in colonoscopy for colon cancer diagnosis and, thus, increase the efficiency of the procedure. One of the main problems of existing polyp localization methods is a lack of spatio-temporal stability in their response. We propose to explore the response of a given polyp localization across temporal windows in order to select
those image regions presenting the highest stable spatio-temporal response.
Spatio-temporal stability is achieved by extracting 3D watershed regions on the
temporal window. Stability in localization response is statistically determined by analysis of the variance of the output of the localization method inside each 3D region. We have explored the benefits of considering spatio-temporal stability in two different tasks: polyp localization and polyp detection. Experimental results indicate an average improvement of 21:5% in polyp localization and 43:78% in polyp detection. |
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LNCS |
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CARE |
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IAM; MV; 600.075 |
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no |
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Call Number |
Admin @ si @ GSF2015 |
Serial |
2733 |
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Author |
Enric Marti; Jordi Regincos; Juan Jose Villanueva; Jaime Lopez-Krahe |
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Title |
Line drawing interpretation as polyhedral objects to man-machine interaction in CAD systems |
Type |
Book Chapter |
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Year |
1994 |
Publication |
Advances in Pattern Recognition and Image Analysis, |
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Pages |
158-169 |
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World Scientific Pub. |
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981-02-1872-9 |
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IAM;ISE |
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no |
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Call Number |
IAM @ iam @ MRL1994 |
Serial |
1609 |
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Author |
Jaume Garcia; Petia Radeva; Francesc Carreras |
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Title |
Combining Spectral and Active Shape methods to Track Tagged MRI |
Type |
Book Chapter |
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Year |
2004 |
Publication |
Recent Advances in Artificial Intelligence Research and Development |
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Pages |
37-44 |
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Keywords |
MR; tagged MR; ASM; LV segmentation; motion estimation. |
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Abstract |
Tagged magnetic resonance is a very usefull and unique tool that provides a complete local and global knowledge of the left ventricle (LV) motion. In this article we introduce a method capable of tracking and segmenting the LV. Spectral methods are applied in order to obtain the so called HARP images which encode information about movement and are the base for LV point-tracking. For segmentation we use Active Shapes (ASM) that model LV shape variation in order to overcome possible local misplacements of the boundary. We finally show experiments on both synthetic and real data which appear to be very promising. |
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IOS Press |
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CCIA |
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IAM;MILAB |
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no |
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Call Number |
IAM @ iam @ GRC2004 |
Serial |
1488 |
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Author |
Debora Gil; Petia Radeva |
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Title |
Inhibition of False Landmarks |
Type |
Book Chapter |
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Year |
2004 |
Publication |
Recent Advances in Artificial Intelligence Research and Development |
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Pages |
233-244 |
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Abstract |
We argue that a corner detector should be based on the degree of continuity of the tangent vector to the image level sets, work on the image domain and need no assumptions on neither the image local structure nor the particular geometry of the corner/junction. An operator measuring the degree of differentiability of the projection matrix on the image gradient fulfills the above requirements. Its high sensitivity to changes in vector directions makes it suitable for landmark location in real images prone to need smoothing to reduce the impact of noise. Because using smoothing kernels leads to corner misplacement, we suggest an alternative fake response remover based on the receptive field inhibition of spurious details. The combination of both orientation discontinuity detection and noise inhibition produce our Inhibition Orientation Energy (IOE) landmark locator. |
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IOS Press |
Place of Publication |
Barcelona (Spain) |
Editor |
al, J.V. et |
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IAM;MILAB |
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no |
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Call Number |
IAM @ iam @ GiR2004a |
Serial |
1533 |
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Permanent link to this record |
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Author |
Debora Gil; Petia Radeva |
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Title |
Curvature Vector Flow to Assure Convergent Deformable Models for Shape Modelling |
Type |
Book Chapter |
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Year |
2003 |
Publication |
Energy Minimization Methods In Computer Vision And Pattern Recognition |
Abbreviated Journal |
LNCS |
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Volume |
2683 |
Issue |
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Pages |
357-372 |
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Keywords |
Initial condition; Convex shape; Non convex analysis; Increase; Segmentation; Gradient; Standard; Standards; Concave shape; Flow models; Tracking; Edge detection; Curvature |
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Abstract |
Poor convergence to concave shapes is a main limitation of snakes as a standard segmentation and shape modelling technique. The gradient of the external energy of the snake represents a force that pushes the snake into concave regions, as its internal energy increases when new inexion points are created. In spite of the improvement of the external energy by the gradient vector ow technique, highly non convex shapes can not be obtained, yet. In the present paper, we develop a new external energy based on the geometry of the curve to be modelled. By tracking back the deformation of a curve that evolves by minimum curvature ow, we construct a distance map that encapsulates the natural way of adapting to non convex shapes. The gradient of this map, which we call curvature vector ow (CVF), is capable of attracting a snake towards any contour, whatever its geometry. Our experiments show that, any initial snake condition converges to the curve to be modelled in optimal time. |
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Springer, Berlin |
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Lisbon, PORTUGAL |
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Springer, B. |
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Lecture Notes in Computer Science |
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LNCS |
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ISSN |
0302-9743 |
ISBN |
3-540-40498-8 |
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IAM;MILAB |
Approved |
no |
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Call Number |
IAM @ iam @ GIR2003b |
Serial |
1535 |
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Permanent link to this record |
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Author |
Debora Gil; Oriol Rodriguez-Leor; Petia Radeva; Aura Hernandez-Sabate |
![download PDF file pdf](img/file_PDF.gif)
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Title |
Assessing Artery Motion Compensation in IVUS |
Type |
Book Chapter |
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Year |
2007 |
Publication |
Computer Analysis Of Images And Patterns |
Abbreviated Journal |
LNCS |
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Volume |
4673 |
Issue |
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Pages |
213-220 |
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Keywords |
validation standards; quality measures; IVUS motion compensation; conservation laws; Fourier development |
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Abstract |
Cardiac dynamics suppression is a main issue for visual improvement and computation of tissue mechanical properties in IntraVascular UltraSound (IVUS). Although in recent times several motion compensation techniques have arisen, there is a lack of objective evaluation of motion reduction in in vivo pullbacks. We consider that the assessment protocol deserves special attention for the sake of a clinical applicability as reliable as possible. Our work focuses on defining a quality measure and a validation protocol assessing IVUS motion compensation. On the grounds of continuum mechanics laws we introduce a novel score measuring motion reduction in in vivo sequences. Synthetic experiments validate the proposed score as measure of motion parameters accuracy; while results in in vivo pullbacks show its reliability in clinical cases. |
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Springerlink |
Place of Publication |
Heidelberg |
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Lecture Notes in Computer Science |
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978-3-540-74271-5 |
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IAM;MILAB |
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no |
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IAM @ iam @ GRR2007 |
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1540 |
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Permanent link to this record |
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Author |
Misael Rosales; Petia Radeva; Oriol Rodriguez; Debora Gil |
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Title |
Suppression of IVUS Image Rotation. A Kinematic Approach |
Type |
Book Chapter |
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Year |
2005 |
Publication |
Functional Imaging and Modeling of the Heart |
Abbreviated Journal |
LNCS |
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Volume |
3504 |
Issue |
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Pages |
889-892 |
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Abstract |
IntraVascular Ultrasound (IVUS) is an exploratory technique used in interventional procedures that shows cross section images of arteries and provides qualitative information about the causes and severity of the arterial lumen narrowing. Cross section analysis as well as visualization of plaque extension in a vessel segment during the catheter imaging pullback are the technique main advantages. However, IVUS sequence exhibits a periodic rotation artifact that makes difficult the longitudinal lesion inspection and hinders any segmentation algorithm. In this paper we propose a new kinematic method to estimate and remove the image rotation of IVUS images sequences. Results on several IVUS sequences show good results and prompt some of the clinical applications to vessel dynamics study, and relation to vessel pathology. |
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Springer Berlin / Heidelberg |
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Editor |
Frangi, Alejandro and Radeva, Petia and Santos, Andres and Hernandez, Monica |
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Lecture Notes in Computer Science |
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LNCS |
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3504 |
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IAM;MILAB |
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no |
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IAM @ iam @ RRR2005 |
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1645 |
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Author |
Sergio Vera; Debora Gil; Agnes Borras; F. Javier Sanchez; Frederic Perez; Marius G. Linguraru; Miguel Angel Gonzalez Ballester |
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Title |
Computation and Evaluation of Medial Surfaces for Shape Representation of Abdominal Organs |
Type |
Book Chapter |
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Year |
2012 |
Publication |
Workshop on Computational and Clinical Applications in Abdominal Imaging |
Abbreviated Journal |
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Volume |
7029 |
Issue |
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Pages |
223–230 |
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Keywords |
medial manifolds, abdomen. |
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Abstract |
Medial representations are powerful tools for describing and parameterizing the volumetric shape of anatomical structures. Existing methods show excellent results when applied to 2D
objects, but their quality drops across dimensions. This paper contributes to the computation of medial manifolds in two aspects. First, we provide a standard scheme for the computation of medial
manifolds that avoid degenerated medial axis segments; second, we introduce an energy based method which performs independently of the dimension. We evaluate quantitatively the performance of our
method with respect to existing approaches, by applying them to synthetic shapes of known medial geometry. Finally, we show results on shape representation of multiple abdominal organs,
exploring the use of medial manifolds for the representation of multi-organ relations. |
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Address |
Toronto; Canada; |
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Springer Link |
Place of Publication |
Berlin |
Editor |
H. Yoshida et al |
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Language |
English |
Summary Language |
English |
Original Title |
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Lecture Notes in Computer Science |
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LNCS |
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ISSN |
0302-9743 |
ISBN |
978-3-642-28556-1 |
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ABDI |
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Notes ![sorted by Notes field, ascending order (up)](img/sort_asc.gif) |
IAM;MV |
Approved |
no |
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Call Number |
IAM @ iam @ VGB2012 |
Serial |
1834 |
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Author |
Ignasi Rius; Dani Rowe; Jordi Gonzalez; Xavier Roca |
![goto web page url](img/www.gif)
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Title |
A 3D Dynamic Model of Human Actions for Probabilistic Image Tracking |
Type |
Book Chapter |
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Year |
2005 |
Publication |
Pattern Recognition and Image Analysis (IbPRIA 2005), LNCS 3522: 529–536 |
Abbreviated Journal |
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Estoril (Portugal) |
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ISE @ ise @ RRG2005b |
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544 |
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Author |
Dani Rowe; Ignasi Rius; Jordi Gonzalez; Xavier Roca; Juan J. Villanueva |
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Probabilistic Image-Based Tracking: Improving Particle Filtering |
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2005 |
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Pattern Recognition and Image Analysis (IbPRIA 2005), LNCS 3522: 85–92 |
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Estoril (Portugal) |
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ISE @ ise @ RRG2005a |
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545 |
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Author |
Mikhail Mozerov |
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Title |
An Effective Stereo Matching Algorithm with Optimal Path Cost Aggregation |
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2006 |
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28th Annual Symposium of the German Association for Pattern Recognition, LNCS 4174: 617–626 |
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Berlin (Germany) |
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ISE @ ise @ Moz2006 |
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677 |
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