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David Roche; Debora Gil; Jesus Giraldo |
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Title |
Multiple active receptor conformation, agonist efficacy and maximum effect of the system: the conformation-based operational model of agonism, |
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2013 |
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Drug Discovery Today |
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DDT |
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18 |
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7-8 |
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365-371 |
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The operational model of agonism assumes that the maximum effect a particular receptor system can achieve (the Em parameter) is fixed. Em estimates are above but close to the asymptotic maximum effects of endogenous agonists. The concept of Em is contradicted by superagonists and those positive allosteric modulators that significantly increase the maximum effect of endogenous agonists. An extension of the operational model is proposed that assumes that the Em parameter does not necessarily have a single value for a receptor system but has multiple values associated to multiple active receptor conformations. The model provides a mechanistic link between active receptor conformation and agonist efficacy, which can be useful for the analysis of agonist response under different receptor scenarios. |
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Elsevier |
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IAM; 600.057; 600.054 |
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IAM @ iam @ RGG2013a |
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2190 |
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Maurizio Mencuccini; Jordi Martinez-Vilalta; Josep Piñol; Lasse Loepfe; Mireia Burnat ; Xavier Alvarez; Juan Camacho; Debora Gil |
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Title |
A quantitative and statistically robust method for the determination of xylem conduit spatial distribution |
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2010 |
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American Journal of Botany |
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AJB |
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97 |
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8 |
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1247-1259 |
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Geyer; hydraulic conductivity; point pattern analysis; Ripley; Spatstat; vessel clusters; xylem anatomy; xylem network |
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Premise of the study: Because of their limited length, xylem conduits need to connect to each other to maintain water transport from roots to leaves. Conduit spatial distribution in a cross section plays an important role in aiding this connectivity. While indices of conduit spatial distribution already exist, they are not well defined statistically. * Methods: We used point pattern analysis to derive new spatial indices. One hundred and five cross-sectional images from different species were transformed into binary images. The resulting point patterns, based on the locations of the conduit centers-of-area, were analyzed to determine whether they departed from randomness. Conduit distribution was then modeled using a spatially explicit stochastic model. * Key results: The presence of conduit randomness, uniformity, or aggregation depended on the spatial scale of the analysis. The large majority of the images showed patterns significantly different from randomness at least at one spatial scale. A strong phylogenetic signal was detected in the spatial variables. * Conclusions: Conduit spatial arrangement has been largely conserved during evolution, especially at small spatial scales. Species in which conduits were aggregated in clusters had a lower conduit density compared to those with uniform distribution. Statistically sound spatial indices must be employed as an aid in the characterization of distributional patterns across species and in models of xylem water transport. Point pattern analysis is a very useful tool in identifying spatial patterns. |
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IAM; |
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IAM @ iam @ MMG2010 |
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1623 |
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Oriol Pujol; Debora Gil; Petia Radeva |
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Title |
Fundamentals of Stop and Go active models |
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2005 |
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Image and Vision Computing |
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23 |
Issue ![sorted by Issue field, ascending order (up)](http://refbase.cvc.uab.es/img/sort_asc.gif) |
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681-691 |
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Deformable models; Geodesic snakes; Region-based segmentation |
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An efficient snake formulation should conform to the idea of picking the smoothest curve among all the shapes approximating an object of interest. In current geodesic snakes, the regularizing curvature also affects the convergence stage, hindering the latter at concave regions. In the present work, we make use of characteristic functions to define a novel geodesic formulation that decouples regularity and convergence. This term decoupling endows the snake with higher adaptability to non-convex shapes. Convergence is ensured by splitting the definition of the external force into an attractive vector field and a repulsive one. In our paper, we propose to use likelihood maps as approximation of characteristic functions of object appearance. The better efficiency and accuracy of our decoupled scheme are illustrated in the particular case of feature space-based segmentation. |
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Butterworth-Heinemann |
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Newton, MA, USA |
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0262-8856 |
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IAM;MILAB;HuPBA |
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IAM @ iam @ PGR2005 |
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1629 |
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Aura Hernandez-Sabate; Lluis Albarracin; F. Javier Sanchez |
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Title |
Graph-Based Problem Explorer: A Software Tool to Support Algorithm Design Learning While Solving the Salesperson Problem |
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2020 |
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Mathematics |
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20 |
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8(9) |
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1595 |
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STEM education; Project-based learning; Coding; software tool |
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In this article, we present a sequence of activities in the form of a project in order to promote
learning on design and analysis of algorithms. The project is based on the resolution of a real problem, the salesperson problem, and it is theoretically grounded on the fundamentals of mathematical modelling. In order to support the students’ work, a multimedia tool, called Graph-based Problem Explorer (GbPExplorer), has been designed and refined to promote the development of computer literacy in engineering and science university students. This tool incorporates several modules to allow coding different algorithmic techniques solving the salesman problem. Based on an educational design research along five years, we observe that working with GbPExplorer during the project provides students with the possibility of representing the situation to be studied in the form of graphs and analyze them from a computational point of view. |
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September 2020 |
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IAM; ISE |
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Admin @ si @ |
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3722 |
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Author |
Debora Gil; Aura Hernandez-Sabate; Mireia Brunat;Steven Jansen; Jordi Martinez-Vilalta |
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Title |
Structure-preserving smoothing of biomedical images |
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Journal Article |
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2011 |
Publication |
Pattern Recognition |
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PR |
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44 |
Issue ![sorted by Issue field, ascending order (up)](http://refbase.cvc.uab.es/img/sort_asc.gif) |
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1842-1851 |
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Non-linear smoothing; Differential geometry; Anatomical structures; segmentation; Cardiac magnetic resonance; Computerized tomography |
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Smoothing of biomedical images should preserve gray-level transitions between adjacent tissues, while restoring contours consistent with anatomical structures. Anisotropic diffusion operators are based on image appearance discontinuities (either local or contextual) and might fail at weak inter-tissue transitions. Meanwhile, the output of block-wise and morphological operations is prone to present a block structure due to the shape and size of the considered pixel neighborhood. In this contribution, we use differential geometry concepts to define a diffusion operator that restricts to image consistent level-sets. In this manner, the final state is a non-uniform intensity image presenting homogeneous inter-tissue transitions along anatomical structures, while smoothing intra-structure texture. Experiments on different types of medical images (magnetic resonance, computerized tomography) illustrate its benefit on a further process (such as segmentation) of images. |
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0031-3203 |
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IAM; ADAS |
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IAM @ iam @ GHB2011 |
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1526 |
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