Kinetic Theory Modeling and Efficient Numerical Simulation of Gene Regulatory Networks Based on Qualitative Descriptions
Article dans une revue avec comité de lecture
Auteur
CHINESTA SORIA, FranciscoMAGNIN, MorganROUX, Olivier AMMAR, Amine CUETO, EliasRésumé
In this work, we begin by considering the qualitative modeling of biological regulatory systems using process hitting, from which we define its probabilistic counterpart by considering the chemical master equation within a kinetic theory framework. The last equation is efficiently solved by considering a separated representation within the proper generalized decomposition framework that allows circumventing the so-called curse of dimensionality. Finally, model parameters can be added as extra-coordinates in order to obtain a parametric solution of the model.
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Article dans une revue avec comité de lectureAMMAR, Amine; ; ; CUETO, Elias; CHINESTA SORIA, Francisco (Omics Publishing Group, 2016)
The numerical solution of the Chemical Master Equation (CME) governing gene regulatory networks and cell signaling processes remains a challenging task due to its complexity, exponentially growing with the number of species ...
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Article dans une revue avec comité de lecture;AMMAR, Amine; CHINESTA SORIA, Francisco; ; (Springer, 2013)
Modeling frameworks bring structure and analysis tools to large and non-intuitive systems but come with certain inherent assumptions and limitations, sometimes to an inhibitive extent. By building bridges in existing models, ...
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Article dans une revue avec comité de lecture;ABISSET-CHAVANNE, Emmanuelle; AMMAR, Amine; CUETO, Elias; DUVAL, Jean-Louis; CHINESTA SORIA, Francisco (Elsevier, 2019)
This work aims at proposing a new procedure for parametric problems whose separated representation has been considered difficult, or whose SVD compression impacted the results in terms of performance and accuracy. The ...
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Article dans une revue avec comité de lectureAMMAR, Amine; CUETO, Elias; CHINESTA SORIA, Francisco (John Wiley and Sons, 2012)
The numerical solution of the chemical master equation (CME) governing gene regulatory networks and cell signaling processes remains a challenging task owing to its complexity, exponentially growing with the number of ...
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Article dans une revue avec comité de lectureGHNATIOS, Chady; ; ; ; CUETO, Elias; AMMAR, Amine; CHINESTA SORIA, Francisco (Wiley, 2020)
Composite manufacturing processes usually proceed from preimpregnated preforms that are consolidated by simultaneously applying heat and pressure, so as to ensure a perfect contact compulsory for making molecular diffusion ...