Modelling and simulation of signal transductions in an apoptosis pathway by using timed Petri nets

Li Chen, Ge Qi-Wei, Mitsuru Nakata, Hiroshi Matsuno, Satoru Miyano
2007 Journal of Biosciences  
This paper first presents basic Petri net components representing molecular interactions and mechanisms of signaling pathways, and introduces a method to construct a Petri net model of a signaling pathway with these components. Then a simulation method of determining the delay time of transitions of Petri net model, i.e. the time taken in firing of each transition, is proposed based on some simple principles that the number of tokens flowed into a place is equivalent to the number of tokens
more » ... ed out. Finally, the availability of proposed method is confirmed by observing signaling transductions in biological pathways through simulation experiments of the apoptosis signaling pathways as an example.
doi:10.1007/s12038-007-0011-6 pmid:17426385 fatcat:5ybobi7tzbgffgliods7ctxzj4