Automated deep abstractions for stochastic chemical reaction networks
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Publication:2051806
DOI10.1016/J.IC.2021.104788OpenAlexW3190842559MaRDI QIDQ2051806FDOQ2051806
Authors: Denis Repin, Tatjana Petrov 
Publication date: 25 November 2021
Published in: Information and Computation (Search for Journal in Brave)
Full work available at URL: https://arxiv.org/abs/2002.01889
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Cites Work
- Deep learning
- Limit theorems for sequences of jump Markov processes approximating ordinary differential processes
- Multiscale modelling and simulation: a position paper
- Noise-induced mixing and multimodality in reaction networks
- Accuracy limitations and the measurement of errors in the stochastic simulation of chemically reacting systems
- Lumpability abstractions of rule-based systems
- Stochastic reduction method for biological chemical kinetics using time-scale separation
- Approximation and inference methods for stochastic biochemical kinetics -- a tutorial review
- Syntactic Markovian bisimulation for chemical reaction networks
- Deep abstractions of chemical reaction networks
- Efficient reduction of Kappa models by static inspection of the rule-set
Cited In (12)
- Abstraction-based segmental simulation of chemical reaction networks
- Bayesian learning of effective chemical master equations in crowded intracellular conditions
- Automated generation of conditional moment equations for stochastic reaction networks
- Semi-quantitative abstraction and analysis of chemical reaction networks
- Abstraction of Markov population dynamics via generative adversarial nets
- A generic framework to coarse-grain stochastic reaction networks by abstract interpretation
- Efficient and scalable prediction of stochastic reaction-diffusion processes using graph neural networks
- Approximate constrained lumping of polynomial differential equations
- Combining multi-target regression deep neural networks and kinetic modeling to predict relative fluxes in reaction systems
- Deep abstractions of chemical reaction networks
- Conservative deep neural networks for modeling competition of ribosomes with extended length
- Using a library of chemical reactions to fit systems of ordinary differential equations to agent-based models: a machine learning approach
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