Note: This content is accessible to all versions of every browser. However, this browser does not seem to support current Web standards, preventing the display of our site's design details.

  

Stochastic Semantics of Signaling as a Composition of Agent-view Automata

Author(s):

H. Koeppl, Tatjana Petrov
Conference/Journal:

vol. 272, pp. 3-17, Proceedings of the 1st International Workshop on Static Analysis and Systems Biology (SASB 2010) 1st International Workshop on Static Analysis and Systems Biology
Abstract:

In this paper we present a formalism based on stochastic automata to describe the stochastic dynamics of signal transduction networks that are specified by rule-sets. Our formalism gives a modular description of the underlying stochastic process, in the sense that it is a composition of smaller units, agent-views. The view of an agent is an automaton that identifies all local modifi- cation changes of that agent (internal state modifications, binding and unbinding), but also those of interacting agents, which are tested within the same rule. We show how to represent the gener- ator matrix of the underlying Markov process of the whole rule-set as Kronecker sums of the rate matrices belonging to individual view-automata. In the absence of birth the automata are finite, since the number of different contexts in which one agent can appear in a rule-set is finite. We illustrate the framework by an example that is related to cellular signaling events.

Year:

2011
Type of Publication:

(01)Article
Supervisor:



File Download:

Request a copy of this publication.
(Uses JavaScript)
% Autogenerated BibTeX entry
@Article { KoePet:2011:IFA_3994,
    author={H. Koeppl and Tatjana Petrov},
    title={{Stochastic Semantics of Signaling as a Composition of
	  Agent-view Automata}},
    journal={NONE},
    year={2011},
    volume={272},
    number={},
    pages={3--17},
    month=may,
    url={http://control.ee.ethz.ch/index.cgi?page=publications;action=details;id=3994}
}
Permanent link