Petri net based descriptions for systematic understanding of biological pathways
Petri net based descriptions for systematic understanding of biological pathways
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DOI：
10.1093/ietfec/e89-a.11.3166
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发表时间：
2006-11-01
影响因子：
0.5
通讯作者：
Miyano, Satoru
中科院分区：
文献类型：
--
作者：
Matsuno, Hiroshi;Li, Chen;Miyano, Satoru
Petri网最近已被计算机科学和生物学研究人员广泛接受为生物通路的描述方法。本文给出了一个概述的Petri网形式主义来描述生物途径，并讨论了它们在建模和模拟系统的理解生物途径。在回顾了各种类型的Petri网在生物途径建模中的使用后，我们展示了使用T-不变量、P-不变量、虹吸和陷阱分析生物途径基本属性的示例。混合Petri网的应用，通过模拟产生新的生物假说也说明了。
Petri nets have recently become widely accepted as a description method for biological pathways by researchers in computer science as well as those in biology. This paper gives an overview of Petri net formalisms to describe biological pathways and discusses their use in modelings and simulations for the systematic understandings of biological pathways. After reviewing the use of various types of Petri nets for the biological pathway modelings, we showed the examples that analyze fundamental properties of biological pathways using T-invariant, P-invariant, siphon, and trap. Applications of hybrid Petri nets for producing new biological hypotheses through simulations are also illustrated.