Petrov, Tatjana ; Ganguly, Arnab ; Koeppl, Heinz (2024)
Model Decomposition and Stochastic Fragments.
In: Electronic Notes in Theoretical Computer Science, 2012, 284
doi: 10.26083/tuprints-00026720
Artikel, Zweitveröffentlichung, Verlagsversion
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Kurzbeschreibung (Abstract)
In this paper, we discuss a method for decomposition, abstraction and reconstruction of the stochastic semantics of rule-based systems with conserved number of agents. Abstraction is induced by counting fragments instead of the species, which are the standard entities of information in molecular signaling. The rule-set can be decomposed to smaller rule-sets, so that the fragment-based dynamics of the whole rule-set is exactly a composition of species-based dynamics of smaller rule-sets. The reconstruction of the transient species-based dynamics is possible for certain initial distributions. We show that, if all the rules in a rule set are reversible, the reconstruction of the species-based dynamics is always possible at the stationary distribution. We use a case study of colloidal aggregation to demonstrate that the method can reduce the state space exponentially with respect to the standard, species-based description.
| Typ des Eintrags: | Artikel |
|---|---|
| Erschienen: | 2024 |
| Autor(en): | Petrov, Tatjana ; Ganguly, Arnab ; Koeppl, Heinz |
| Art des Eintrags: | Zweitveröffentlichung |
| Titel: | Model Decomposition and Stochastic Fragments |
| Sprache: | Englisch |
| Publikationsjahr: | 30 April 2024 |
| Ort: | Darmstadt |
| Publikationsdatum der Erstveröffentlichung: | 20 Juni 2012 |
| Ort der Erstveröffentlichung: | Amsterdam |
| Verlag: | Elsevier |
| Titel der Zeitschrift, Zeitung oder Schriftenreihe: | Electronic Notes in Theoretical Computer Science |
| Jahrgang/Volume einer Zeitschrift: | 284 |
| DOI: | 10.26083/tuprints-00026720 |
| URL / URN: | https://tuprints.ulb.tu-darmstadt.de/26720 |
| Zugehörige Links: | |
| Herkunft: | Zweitveröffentlichungsservice |
| Kurzbeschreibung (Abstract): | In this paper, we discuss a method for decomposition, abstraction and reconstruction of the stochastic semantics of rule-based systems with conserved number of agents. Abstraction is induced by counting fragments instead of the species, which are the standard entities of information in molecular signaling. The rule-set can be decomposed to smaller rule-sets, so that the fragment-based dynamics of the whole rule-set is exactly a composition of species-based dynamics of smaller rule-sets. The reconstruction of the transient species-based dynamics is possible for certain initial distributions. We show that, if all the rules in a rule set are reversible, the reconstruction of the species-based dynamics is always possible at the stationary distribution. We use a case study of colloidal aggregation to demonstrate that the method can reduce the state space exponentially with respect to the standard, species-based description. |
| Freie Schlagworte: | cell signaling, continuous-time Markov chain, lumpability |
| Status: | Verlagsversion |
| URN: | urn:nbn:de:tuda-tuprints-267207 |
| Sachgruppe der Dewey Dezimalklassifikatin (DDC): | 500 Naturwissenschaften und Mathematik > 570 Biowissenschaften, Biologie 600 Technik, Medizin, angewandte Wissenschaften > 621.3 Elektrotechnik, Elektronik |
| Hinterlegungsdatum: | 30 Apr 2024 09:12 |
| Letzte Änderung: | 13 Mai 2024 09:52 |
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- Model Decomposition and Stochastic Fragments. (deposited 30 Apr 2024 09:12) [Gegenwärtig angezeigt]
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