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A Computational Framework to Assess the Efficacy of Cytotoxic Molecules and Vascular Disrupting Agents against Solid Tumours

M. Pons-Salort, B. van der Sanden, A. Juhem, A. Popov, A. Stéphanou (2012)

Mathematical Modelling of Natural Phenomena

A computational framework for testing the effects of cytotoxic molecules, specific to a given phase of the cell cycle, and vascular disrupting agents (VDAs) is presented. The model is based on a cellular automaton to describe tumour cell states transitions from proliferation to death. It is coupled with a model describing the tumour vasculature and its adaptation to the blood rheological constraints when alterations are induced by VDAs treatment....

A dominant height growth model for eucalyptus plantations in Portugal

Ayana Mateus, Margarida Tomé (2009)

Discussiones Mathematicae Probability and Statistics

Eucalyptus globulus Labill is one of the most important economic forest species in Portugal, occupying an area of 875.10³ ha in a total forest area of 3346.10³ ha (Tomé et al., 2007). The main goal of this study is to develop a dominant height growth model for Eucalyptus, applicable throughout the country, representing an improve of the curves that are part of the whole stand model existing in Portugal, the GLOBULUS model (Tomé et al., 2001). The dominant height growth model will be built on a biological...

A hyperbolic model of chemotaxis on a network: a numerical study

G. Bretti, R. Natalini, M. Ribot (2014)

ESAIM: Mathematical Modelling and Numerical Analysis - Modélisation Mathématique et Analyse Numérique

In this paper we deal with a semilinear hyperbolic chemotaxis model in one space dimension evolving on a network, with suitable transmission conditions at nodes. This framework is motivated by tissue-engineering scaffolds used for improving wound healing. We introduce a numerical scheme, which guarantees global mass densities conservation. Moreover our scheme is able to yield a correct approximation of the effects of the source term at equilibrium. Several numerical tests are presented to show the...

A quasi-Newton algorithm based on a reduced model for fluid-structure interaction problems in blood flows

Jean-Frédéric Gerbeau, Marina Vidrascu (2003)

ESAIM: Mathematical Modelling and Numerical Analysis - Modélisation Mathématique et Analyse Numérique

We propose a quasi-Newton algorithm for solving fluid-structure interaction problems. The basic idea of the method is to build an approximate tangent operator which is cost effective and which takes into account the so-called added mass effect. Various test cases show that the method allows a significant reduction of the computational effort compared to relaxed fixed point algorithms. We present 2D and 3D fluid-structure simulations performed either with a simple 1D structure model or with shells...

A Quasi-Newton Algorithm Based on a Reduced Model for Fluid-Structure Interaction Problems in Blood Flows

Jean-Frédéric Gerbeau, Marina Vidrascu (2010)

ESAIM: Mathematical Modelling and Numerical Analysis

We propose a quasi-Newton algorithm for solving fluid-structure interaction problems. The basic idea of the method is to build an approximate tangent operator which is cost effective and which takes into account the so-called added mass effect. Various test cases show that the method allows a significant reduction of the computational effort compared to relaxed fixed point algorithms. We present 2D and 3D fluid-structure simulations performed either with a simple 1D structure model or with...

A three dimensional finite element method for biological active soft tissue Formulation in cylindrical polar coordinates

Christian Bourdarias, Stéphane Gerbi, Jacques Ohayon (2010)

ESAIM: Mathematical Modelling and Numerical Analysis

A hyperelastic constitutive law, for use in anatomically accurate finite element models of living structures, is suggested for the passive and the active mechanical properties of incompressible biological tissues. This law considers the passive and active states as a same hyperelastic continuum medium, and uses an activation function in order to describe the whole contraction phase. The variational and the FE formulations are also presented, and the FE code has been validated and applied to describe...

A three dimensional finite element method for biological active soft tissue formulation in cylindrical polar coordinates

Christian Bourdarias, Stéphane Gerbi, Jacques Ohayon (2003)

ESAIM: Mathematical Modelling and Numerical Analysis - Modélisation Mathématique et Analyse Numérique

A hyperelastic constitutive law, for use in anatomically accurate finite element models of living structures, is suggested for the passive and the active mechanical properties of incompressible biological tissues. This law considers the passive and active states as a same hyperelastic continuum medium, and uses an activation function in order to describe the whole contraction phase. The variational and the FE formulations are also presented, and the FE code has been validated and applied to describe...

An Extension of 3D Zernike Moments for Shape Description and Retrieval of Maps Defined in Rectangular Solids

Atilla Sit, Julie C Mitchell, George N Phillips, Stephen J Wright (2013)

Molecular Based Mathematical Biology

Zernike polynomials have been widely used in the description and shape retrieval of 3D objects. These orthonormal polynomials allow for efficient description and reconstruction of objects that can be scaled to fit within the unit ball. However, maps defined within box-shaped regions ¶ for example, rectangular prisms or cubes ¶ are not well suited to representation by Zernike polynomials, because these functions are not orthogonal over such regions. In particular, the representations require many...

Analysis of the Growth Control Network Specific for Human Lung Adenocarcinoma Cells

G. Pinna, A. Zinovyev, N. Araujo, N. Morozova, A. Harel-Bellan (2012)

Mathematical Modelling of Natural Phenomena

Many cancer-associated genes and pathways remain to be identified in order to clarify the molecular mechanisms underlying cancer progression. In this area, genome-wide loss-of-function screens appear to be powerful biological tools, allowing the accumulation of large amounts of data. However, this approach currently lacks analytical tools to exploit the data with maximum efficiency, for which systems biology methods analyzing complex cellular networks...

Analysis of The Impact of Diabetes on The Dynamical Transmission of Tuberculosis

D.P. Moualeu, S. Bowong, J.J. Tewa, Y. Emvudu (2012)

Mathematical Modelling of Natural Phenomena

Tuberculosis (TB) remains a major global health problem. A possible risk factor for TB is diabetes (DM), which is predicted to increase dramatically over the next two decades, particularly in low and middle income countries, where TB is widespread. This study aimed to assess the strength of the association between TB and DM. We present a deterministic model for TB in a community in order to determine the impact of DM in the spread of the disease....

Backpropagation generalized delta rule for the selective attention Sigma-if artificial neural network

Maciej Huk (2012)

International Journal of Applied Mathematics and Computer Science

In this paper the Sigma-if artificial neural network model is considered, which is a generalization of an MLP network with sigmoidal neurons. It was found to be a potentially universal tool for automatic creation of distributed classification and selective attention systems. To overcome the high nonlinearity of the aggregation function of Sigma-if neurons, the training process of the Sigma-if network combines an error backpropagation algorithm with the self-consistency paradigm widely used in physics....

Computer Simulation of Protein-Protein Association in Photosynthesis

I.B. Kovalenko, A.M. Abaturova, A.N. Diakonova, O.S. Knyazeva, D.M. Ustinin, S.S. Khruschev, G.Yu. Riznichenko, A.B. Rubin (2011)

Mathematical Modelling of Natural Phenomena

The paper is devoted to the method of computer simulation of protein interactions taking part in photosynthetic electron transport reactions. Using this method we have studied kinetic characteristics of protein-protein complex formation for four pairs of proteins involved in photosynthesis at a variety of ionic strength values. Computer simulations describe non-monotonic dependences of complex formation rates on the ionic strength as the result of...

Could changes in national tuberculosis vaccination policies be ill-informed ?

D.J. Gerberry, F.A. Milner (2012)

Mathematical Modelling of Natural Phenomena

National policies regarding the BCG vaccine for tuberculosis vary greatly throughout the international community and several countries are currently considering discontinuing universal vaccination. Detractors of BCG point to its uncertain effectiveness and its interference with the detection and treatment of latent tuberculosis infection (LTBI). In order to quantify the trade-off between vaccination and treatment of LTBI, a mathematical model was designed and calibrated to data from Brazil, Ghana,...

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