The stochastic evolution of a protocell: the Gillespie algorithm in a dynamically varying volume

DOI10.1155/2012/423627zbMATH Open1233.92013DBLPjournals/cmmm/CarlettiF12arXiv1112.1281OpenAlexW1973011350WikidataQ42559238 ScholiaQ42559238MaRDI QIDQ764164FDOQ764164

Authors: T. Carletti, Alessandro Filisetti 

Publication date: 13 March 2012

Published in: Computational \& Mathematical Methods in Medicine (Search for Journal in Brave)

Abstract: In the present paper we propose an improvement of the Gillespie algorithm allowing us to study the time evolution of an ensemble of chemical reactions occurring in a varying volume, whose growth is directly related to the amount of some specific molecules, belonging to the reactions set. This allows us to study the stochastic evolution of a protocell, whose volume increases because of the production of container molecules. Several protocells models are considered and compared with the deterministic models.

Full work available at URL: https://arxiv.org/abs/1112.1281

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Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Special processes (60K99) Computational methods for problems pertaining to biology (92-08) Cell biology (92C37) Kinetics in biochemical problems (pharmacokinetics, enzyme kinetics, etc.) (92C45)

Cites Work

• Life: An introduction to complex systems biology
• Title not available (Why is that?)
• Sufficient conditions for emergent synchronization in protocell models

Cited In (4)

• A multi-stage representation of cell proliferation as a Markov process
• Complex contagion in social systems with distrust
• A Gillespie algorithm for non-Markovian stochastic processes
• Mathematical modelling of molecule evolution in protocells

Uses Software

• STOCKS

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