A Scalable Computational Framework for Establishing Long-Term Behavior of Stochastic Reaction Networks

Ankit Gupta; Corentin Briat; Mustafa Khammash

doi:10.1371/journal.pcbi.1003669

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Open Access

Peer-reviewed

Research Article

A Scalable Computational Framework for Establishing Long-Term Behavior of Stochastic Reaction Networks

Ankit Gupta ,

Contributed equally to this work with: Ankit Gupta, Corentin Briat

Affiliation Department of Biosystems Science and Engineering (D-BSSE), Swiss Federal Institute of Technology–Zürich (ETH-Z), Basel, Switzerland
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Corentin Briat ,

Contributed equally to this work with: Ankit Gupta, Corentin Briat

Affiliation Department of Biosystems Science and Engineering (D-BSSE), Swiss Federal Institute of Technology–Zürich (ETH-Z), Basel, Switzerland
⨯
Mustafa Khammash

* E-mail: mustafa.khammash@bsse.ethz.ch

Affiliation Department of Biosystems Science and Engineering (D-BSSE), Swiss Federal Institute of Technology–Zürich (ETH-Z), Basel, Switzerland
⨯

A Scalable Computational Framework for Establishing Long-Term Behavior of Stochastic Reaction Networks

Ankit Gupta,
Corentin Briat,
Mustafa Khammash

Published: June 26, 2014
https://doi.org/10.1371/journal.pcbi.1003669

About the Authors

Ankit Gupta

Contributed equally to this work with: Ankit Gupta, Corentin Briat

Affiliation Department of Biosystems Science and Engineering (D-BSSE), Swiss Federal Institute of Technology–Zürich (ETH-Z), Basel, Switzerland

Corentin Briat

Contributed equally to this work with: Ankit Gupta, Corentin Briat

Affiliation Department of Biosystems Science and Engineering (D-BSSE), Swiss Federal Institute of Technology–Zürich (ETH-Z), Basel, Switzerland

Mustafa Khammash

* E-mail: mustafa.khammash@bsse.ethz.ch

Affiliation Department of Biosystems Science and Engineering (D-BSSE), Swiss Federal Institute of Technology–Zürich (ETH-Z), Basel, Switzerland

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceived and designed the experiments: AG CB MK. Performed the experiments: CB AG. Analyzed the data: AG CB MK. Wrote the paper: AG CB MK. Developed the mathematical framework: AG. Developed the results for unimolecular and bimolecular reaction networks, and applied them to the examples: CB.

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Ergodicity
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Markov processes
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Reaction dynamics
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Monte Carlo method
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Differential equations
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Genetic networks
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