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Delay Time Determination for the Timed Petri Net Model of a Signaling Pathway Based on Its Structural Information
Yoshimasa MIWA Yuki MURAKAMI Qi-Wei GE Chen LI Hiroshi MATSUNO Satoru MIYANO
IEICE TRANSACTIONS on Fundamentals of Electronics, Communications and Computer Sciences
Publication Date: 2010/12/01
Online ISSN: 1745-1337
Print ISSN: 0916-8508
Type of Manuscript: Special Section PAPER (Special Section on Theory of Concurrent Systems and its Applications)
Petri net, signaling pathway, firing delay time, stochastic decision rule, conflict resolution,
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This paper proposes a method to incorporate the concept of time for the inclusion of dynamics of signaling pathway in a Petri net model, i.e., to use timed Petri nets. Incorporation of delay times into a Petri net model makes it possible to conduct quantitative evaluation on a target signaling pathway. However, experimental data describing detailed reactions are not available in most cases. An algorithm given in this paper determines delay times of a timed Petri net only from the structural information of it. The suitability of this algorithm has been confirmed by the results of an application to the IL-1 signaling pathway.