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StochKit-FF: Efficient Systems Biology on Multicore Architectures

Aldinucci, Marco and Bracciali, Andrea and Liò, Pietro and Sorathiya, Anil and Torquati, Massimo (2010) StochKit-FF: Efficient Systems Biology on Multicore Architectures. Technical Report del Dipartimento di Informatica . Università di Pisa, Pisa, IT.

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    The stochastic modelling of biological systems is an informative, and in some cases, very adequate technique, which may however result in being more expensive than other modelling approaches, such as differential equations. We present StochKit-FF, a parallel version of StochKit, a reference toolkit for stochastic simulations. StochKit-FF is based on the FastFlow programming toolkit for multicores and exploits the novel concept of selective memory. We experiment StochKit-FF on a model of HIV infection dynamics, with the aim of extracting information from efficiently run experiments, here in terms of average and variance and, on a longer term, of more structured data.

    Item Type: Book
    Uncontrolled Keywords: stochastic models, parallel computing, multicore, systems biology
    Subjects: Area01 - Scienze matematiche e informatiche > INF/01 - Informatica
    Divisions: Dipartimenti (until 2012) > DIPARTIMENTO DI INFORMATICA
    Depositing User: dott.ssa Sandra Faita
    Date Deposited: 04 Dec 2014 09:49
    Last Modified: 04 Dec 2014 09:49
    URI: http://eprints.adm.unipi.it/id/eprint/2256

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