dorsal/arxiv
View SchemaSwitching Dynamics in Reaction Networks Induced by Molecular Discreteness
| Authors | Yuichi Togashi, Kunihiko Kaneko |
|---|---|
| Categories | |
| ArXiv ID | physics/0612060 |
| URL | https://arxiv.org/abs/physics/0612060 |
| DOI | 10.1088/0953-8984/19/6/065150 |
| Journal | J. Phys. Cond. Matt. 19, 065150 (2007) |
Abstract
To study the fluctuations and dynamics in chemical reaction processes, stochastic differential equations based on the rate equation involving chemical concentrations are often adopted. When the number of molecules is very small, however, the discreteness in the number of molecules cannot be neglected since the number of molecules must be an integer. This discreteness can be important in biochemical reactions, where the total number of molecules is not significantly larger than the number of chemical species. To elucidate the effects of such discreteness, we study autocatalytic reaction systems comprising several chemical species through stochastic particle simulations. The generation of novel states is observed; it is caused by the extinction of some molecular species due to the discreteness in their number. We demonstrate that the reaction dynamics are switched by a single molecule, which leads to the reconstruction of the acting network structure. We also show the strong dependence of the chemical concentrations on the system size, which is caused by transitions to discreteness-induced novel states.
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"abstract": "To study the fluctuations and dynamics in chemical reaction processes,\nstochastic differential equations based on the rate equation involving chemical\nconcentrations are often adopted. When the number of molecules is very small,\nhowever, the discreteness in the number of molecules cannot be neglected since\nthe number of molecules must be an integer. This discreteness can be important\nin biochemical reactions, where the total number of molecules is not\nsignificantly larger than the number of chemical species. To elucidate the\neffects of such discreteness, we study autocatalytic reaction systems\ncomprising several chemical species through stochastic particle simulations.\nThe generation of novel states is observed; it is caused by the extinction of\nsome molecular species due to the discreteness in their number. We demonstrate\nthat the reaction dynamics are switched by a single molecule, which leads to\nthe reconstruction of the acting network structure. We also show the strong\ndependence of the chemical concentrations on the system size, which is caused\nby transitions to discreteness-induced novel states.",
"arxiv_id": "physics/0612060",
"authors": [
"Yuichi Togashi",
"Kunihiko Kaneko"
],
"categories": [
"physics.chem-ph",
"physics.bio-ph",
"q-bio.MN"
],
"doi": "10.1088/0953-8984/19/6/065150",
"journal_ref": "J. Phys. Cond. Matt. 19, 065150 (2007)",
"title": "Switching Dynamics in Reaction Networks Induced by Molecular Discreteness",
"url": "https://arxiv.org/abs/physics/0612060"
},
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