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A Logic for Checking the Probabilistic Steady-State Properties of Reaction Networks

Authors: Picard, Vincent; Siegel, Anne; Bourdon, Jérémie;

A Logic for Checking the Probabilistic Steady-State Properties of Reaction Networks

Abstract

Designing probabilistic reaction models and determining their stochastic kinetic parameters are major issues in systems biology. To assist in the construction of reaction network models, we introduce a logic that allows one to express asymptotic properties about the steady-state stochastic dynamics of a reaction network. Basically, the formulas can express properties on expectancies, variances, and covariances. If a formula encoding for experimental observations on the system is not satisfiable, then the reaction network model can be rejected. We demonstrate that deciding the satisfiability of a formula is NP-hard, but we provide a decision method based on solving systems of polynomial constraints. We illustrate our method on a toy example.

Keywords

logic, Stochastic Processes, Models, Statistical, Markov chains, Systems Biology, 510, 004, Kinetics, Models, Chemical, Humans, steady state, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], constraints, Algorithms, Metabolic Networks and Pathways, stochastic modeling, [INFO.INFO-BI] Computer Science [cs]/Bioinformatics [q-bio.QM]

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citations
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
1
Average
Average
Average
Green
bronze