Parallel biological in silico simulation

Patrick Amar 1, 2 Muriel Baillieul 3 Dominique Barth 3 Bertrand Lecun 3 Franck Quessette 3 Sandrine Vial 3
2 AMIB - Algorithms and Models for Integrative Biology
CNRS - Centre National de la Recherche Scientifique : UMR8623, Polytechnique - X, Inria Saclay - Ile de France, UP11 - Université Paris-Sud - Paris 11, LRI - Laboratoire de Recherche en Informatique, LIX - Laboratoire d'informatique de l'École polytechnique [Palaiseau]
Abstract : It is crucial to understand how biological systems work, in particular the metabolic pathways, if we want to be able to understand diseases. For instance, why and how the apoptosis mechanisms are disturbed in some cancers. One of the author has developed HSIM, a simulator dedicated to the biochemical simulation of the reactions inside the compartments of a virtual cell. Another author is the leader in the development of BOBPP a high level parallelization framework. In this article, we propose an important improvement of BOBPP in order to run HSIM in parallel. This will allow us to simulate more complex models, involving more chemical species and reactions, leading to more realistic results using a smaller amount of computing time.
Type de document :
Communication dans un congrès
29th Intenational Symposium on Computer and Information Sciences, Oct 2014, Krakow, Poland. Information Sciences and Systems, pp.387-394, 2014, 〈https://projekty.iitis.pl/iscis〉. 〈10.1007/978-3-319-09465-6_40〉
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https://hal.inria.fr/hal-01087811
Contributeur : Patrick Amar <>
Soumis le : mercredi 26 novembre 2014 - 16:43:49
Dernière modification le : jeudi 11 janvier 2018 - 06:23:08

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Patrick Amar, Muriel Baillieul, Dominique Barth, Bertrand Lecun, Franck Quessette, et al.. Parallel biological in silico simulation. 29th Intenational Symposium on Computer and Information Sciences, Oct 2014, Krakow, Poland. Information Sciences and Systems, pp.387-394, 2014, 〈https://projekty.iitis.pl/iscis〉. 〈10.1007/978-3-319-09465-6_40〉. 〈hal-01087811〉

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