Delay Stochastic Simulation of Biological Systems: A Purely Delayed Approach

Roberto Barbuti, Giulio Caravagna, Andrea Maggiolo-Schettini, Paolo Milazzo

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Delays in biological systems may be used to model events for which the underlying dynamics cannot be precisely observed. Mathematical modeling of biological systems with delays is usually based on Delay Differential Equations (DDEs), a kind of differential equations in which the derivative of the unknown function at a certain time is given in terms of the values of the function at previous times. In the literature, delay stochastic simulation algorithms have been proposed. These algorithms follow a “delay as duration” approach, which is not suitable for biological systems in which species involved in a delayed interaction can be involved at the same time in other interactions. We show on a DDE model of tumor growth that the delay as duration approach for stochastic simulation is not precise, and we propose a simulation algorithm based on a “purely delayed” interpretation of delays which provides better results on the considered model. Moreover, we give a formal definition of a stochastic simulation algorithm which combines both the delay as duration approach and the purely delayed approach.
Original languageEnglish
Title of host publicationTransactions on Computational Systems Biology XIII
EditorsCorrado Priami, Ralph-Johan Back, Ion Petre, Erik de Vink
PublisherSpringer Berlin Heidelberg
Pages61-84
Number of pages24
ISBN (Electronic)978-3-642-19748-2
ISBN (Print)978-3-642-19747-5
DOIs
Publication statusPublished - 2011

Publication series

NameLecture Notes in Computer Science
PublisherSpringer Berlin Heidelberg
Volume6575
ISSN (Print)0302-9743

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