Tree-Based Search for Stochastic Simulation Algorithm

Vo Hong, Thanh and Zunino, Roberto (2011) Tree-Based Search for Stochastic Simulation Algorithm. UNSPECIFIED.

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    Abstract

    In systems biology, the cell behavior is governed by a series of biochemical reactions. The stochastic simulation algorithm (SSA), which was introduced by Gillespie, is a standard method to properly realize the dynamic and stochastic nature of such systems. In general, SSA follows a two-step approach: finding the next reaction firing, and updating the system accordingly. In this paper we apply the Huffman tree, an optimal tree for data compression, so to improve the search for the next reaction firing.

    Item Type: Departmental Technical Report
    Department or Research center: Information Engineering and Computer Science
    Subjects: Q Science > QA Mathematics > QA075 Electronic computers. Computer science
    Report Number: DISI-11-478
    Repository staff approval on: 11 Nov 2011

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