Results 31 to 40 of about 136,245 (330)
Asymptotology of chemical reaction networks [PDF]
Chemical Engineering Science, 2010 23 pages, 8 figures, 84 refs, Corrected Journal ...
Gorban, Alexander +2 more
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Programmability of Chemical Reaction Networks [PDF]
, 2009 Motivated by the intriguing complexity of biochemical circuitry within individual cells we study Stochastic Chemical Reaction Networks (SCRNs), a formal model that considers a set of chemical reactions acting on a finite number of molecules in a well-stirred solution according to standard chemical kinetics equations.
Matthew Cook 0001 +3 more
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Thermodynamics of non-elementary chemical reaction networks
New Journal of Physics, 2020 We develop a thermodynamic framework for closed and open chemical networks applicable to non-elementary reactions that do not need to obey mass action kinetics.
Francesco Avanzini +2 more
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Leaderless Deterministic Chemical Reaction Networks [PDF]
Natural Computing, 2013 This paper answers an open question of Chen, Doty, and Soloveichik [1], who showed that a function f:N^k --> N^l is deterministically computable by a stochastic chemical reaction network (CRN) if and only if the graph of f is a semilinear subset of N^{k+l}.
David Doty, Monir Hajiaghayi
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A model of spatio-temporal regulation within biomaterials using DNA reaction–diffusion waveguides
Royal Society Open Science, 2022 In multi-cellular organisms, cells and tissues coordinate biochemical signal propagation across length scales spanning micrometres to metres. Designing synthetic materials with similar capacities for coordinated signal propagation could allow these ...
Phillip J. Dorsey +2 more
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Concordant chemical reaction networks and the Species-Reaction Graph [PDF]
Mathematical Biosciences, 2012 In a recent paper it was shown that, for chemical reaction networks possessing a subtle structural property called concordance, dynamical behavior of a very circumscribed (and largely stable) kind is enforced, so long as the kinetics lies within the very broad and natural weakly monotonic class.
Guy Shinar, Martin Feinberg
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Hessian geometry of nonequilibrium chemical reaction networks and entropy production decompositions
Physical Review Research, 2022 We derive the Hessian geometric structure of nonequilibrium chemical reaction networks on the flux and force spaces induced by the Legendre duality of convex dissipation functions and characterize their dynamics as a generalized flow. With this geometric
Tetsuya J. Kobayashi +3 more
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Chemical master versus chemical langevin for first-order reaction networks [PDF]
, 2008 Markov jump processes are widely used to model interacting species in circumstances where discreteness and stochasticity are relevant. Such models have been particularly successful in computational cell biology, and in this case, the interactions are ...
Higham, Desmond J., Khanin, Raya
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Determining Interconnections in Chemical Reaction Networks [PDF]
2007 American Control Conference, 2007 We present a methodology for robust determination of chemical reaction network interconnections. Given time series data that are collected from experiments and taking into account the measurement error, we minimize the 1-norm of the decision variables (reaction rates) keeping the data in close Euler-flt with a general model structure based on mass ...
Papachristodoulou, A, Recht, B, IEEE
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What makes a reaction network “chemical”?
Journal of Cheminformatics, 2022 Abstract Background Reaction networks (RNs) comprise a set X of species and a set $$\mathscr {R}$$ R of reactions $$Y\rightarrow Y'$$ Y → Y ′
Müller, Stefan +2 more
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