Proceedings of the Korean Society for Bioinformatics Conference (한국생물정보학회:학술대회논문집)
- 2005.09a
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- Pages.348-353
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- 2005
On Modeling and Analyzing Signaling Pathways with Inhibitory Interactions Based on Petri Net
- Li, Chen (Graduate School of Science and Engineering) ;
- Suzuki, Shunichi (Graduate School of Science and Engineering) ;
- Ge, Qi-Wei (Faculty of Education, Yamaguchi University) ;
- Nakata, Mitsuru (Faculty of Education, Yamaguchi University) ;
- Matsuno, Hiroshi (Faculty of Science, Yamaguchi University) ;
- Miyano, Satoru (Human Genome Center Institute of Medical Science, University of Tokyo)
- Published : 2005.09.22
Abstract
In this paper we discuss the formulation and the analysis of a signaling pathway by Petri nets. In order to explicitly and formally describe the molecular mechanisms and pathological characteristics of signaling pathways, we propose a new modeling method to construct signaling pathways on the basis of formal representation of Petri net. Our proposed extended algorithm effectively finds basic enzymic components of signaling pathways by employing T-invariants of Petri nets with considering the origination leading to an occurrence of inhibition functions than existing methods. An application of the proposed algorithm is given with the example of Interleukin-1 and Interleukin-6 signaling pathways.
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