An algorithm to estimate delay times in petri net models of signaling pathways with experimental data

Authors:
Kanji Hioka;Yoshimasa Miwa;Chen Li;Qi-Wei Ge;Hiroshi Matsuno;Satoru Miyano
Affiliations:
Yamaguchi University, Yamaguchi, Japan;Yamaguchi University, Yamaguchi, Japan;University of Tokyo, Minatoku, Tokyo, Japan;Yamaguchi University, Yamaguchi, Japan;Yamaguchi University, Yamaguchi, Japan;University of Tokyo, Minatoku, Tokyo, Japan
Venue:
Proceedings of the 3rd International Conference on Bio-Inspired Models of Network, Information and Computing Sytems
Year:
2008

Citing 3
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Abstract

In this paper, we propose an algorithm to estimate delay times in a Petri net model of signaling pathways based on biological experimental data. Firstly, we demonstrate a modeling method of signaling pathways with discrete Petri net using ErbB4 signaling pathway. Then, we propose a delay time estimation algorithm for Petri net models with experimental data. The estimated delay times are assigned to the transitions of the Petri net model of the ErbB4 signaling pathway that is simulated on Cell Illustrator 3.0. The simulation results are evaluated by comparing with the experimental data.