Uncovering operational interactions in genetic networks using asynchronous Boolean dynamics |
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Authors: | L Tournier M Chaves |
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Institution: | a INRIA Sophia, COMORE Team, 2004, Route des lucioles, B.P. 93, F-06902 Sophia-Antipolis Cedex, France |
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Abstract: | Biological networks of large dimensions, with their diagram of interactions, are often well represented by a Boolean model with a family of logical rules. The state space of a Boolean model is finite, and its asynchronous dynamics are fully described by a transition graph in the state space. In this context, a model reduction method will be developed for identifying the active or operational interactions responsible for a given dynamic behaviour. The first step in this procedure is the decomposition of the asynchronous transition graph into its strongly connected components, to obtain a “reduced” and hierarchically organized graph of transitions. The second step consists of the identification of a partial graph of interactions and a sub-family of logical rules that remain operational in a given region of the state space. This model reduction method and its usefulness are illustrated by an application to a model of programmed cell death. The method identifies two mechanisms used by the cell to respond to death-receptor stimulation and decide between the survival and apoptotic pathways. |
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Keywords: | Boolean networks Asynchronous transition graph Model reduction Apoptosis _method=retrieve& _eid=1-s2 0-S0022519309002653& _mathId=si66 gif& _pii=S0022519309002653& _issn=00225193& _acct=C000069490& _version=1& _userid=6211566& md5=73e551f8b65a7b2d2cc62883591504d9')" style="cursor:pointer NFκB signalling pathway" target="_blank">" alt="Click to view the MathML source" title="Click to view the MathML source">NFκB signalling pathway |
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