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Publications about 'probabilistic'
Articles in journal or book chapters
and J. K. Kim.
Derivation of stationary distributions of biochemical reaction networks via structure transformation.
Keyword(s): stationary distribution,
chemical reaction networks,
biochemical reaction networks,
chemical master equation,
Long-term behaviors of biochemical reaction networks (BRNs) are described by steady states in deterministic models and stationary distributions in stochastic models. Unlike deterministic steady states, stationary distributions capturing inherent fluctuations of reactions are extremely difficult to derive analytically due to the curse of dimensionality. Here, we develop a method to derive analytic stationary distributions from deterministic steady states by transforming BRNs to have a special dynamic property, called complex balancing. Specifically, we merge nodes and edges of BRNs to match in- and out-flows of each node. This allows us to derive the stationary distributions of a large class of BRNs, including autophosphorylation networks of EGFR, PAK1, and Aurora B kinase and a genetic toggle switch. This reveals the unique properties of their stochastic dynamics such as robustness, sensitivity, and multimodality. Importantly, we provide a user-friendly computational package, CASTANET, that automatically derives symbolic expressions of the stationary distributions of BRNs to understand their long-term stochasticity.
On some questions of rationality and decidability.
J. Comput. System Sci.,
Keyword(s): theory of computing and complexity.
Some results are given in the theory of rational power series over a broad class of semirings. In particular, it is shown that for unambiguous sets the notion of rationality is independent of the semiring over which representations are defined. The undecidability of the rationality of probabilistic word functions is also established.
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