Von Neumann’s growth model: Statistical mechanics and biological applications

Martino, Andrea De; Marinari, Enzo; Romualdi, A.

doi:10.1140/epjst/e2012-01653-8

Cited by 2 publications

(1 citation statement)

References 40 publications

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“…What is still not possible to do with this method is predict the growth rate of the organisms. An attempt has been done in [57] where it was observed that adding a biomass reaction VN naturally tend to switch it off, because the configuration of fluxes without this reaction was already a solution. Nevertheless it is possible to have values different from 0 constraining the reaction with bounds, observing that the maximal ρ sustainable by the system decrease as the bound increase.…”

Section: Von Neumannmentioning

confidence: 99%

Boolean constraint satisfaction problems for reaction networks

A¹

2019

Preprint

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In this Thesis we will present a work at the boundary between Physics and Biology. On the one hand we studied theoretically, on a newly defined class of random networks, a constraint satisfaction problem (CSP) devised to understand the capabilities of a metabolic network. On the other hand we showed that it is possible to apply the same techniques in real networks by obtaining preliminary results on the real metabolic network of E.Coli. We will thus show in this Thesis that it is possible to analyze biological problems on metabolic networks both theoretically and practically by computer simulations of a simplified model.

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Section: Von Neumannmentioning

confidence: 99%

Boolean constraint satisfaction problems for reaction networks

A¹

2019

Preprint

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Thermodynamic and stoichiometric laws ruling the fates of growing systems

Kamimura,

Sughiyama,

Kobayashi

2024

Phys. Rev. Research

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We delve into growing open chemical reaction systems (CRSs) characterized by autocatalytic reactions within a variable volume, which changes in response to these reactions. Understanding the thermodynamics of such systems is crucial for comprehending biological cells and constructing protocells because it sheds light on the physical conditions necessary for their self-replication. Building on our recent work, where we developed a thermodynamic theory for growing CRSs featuring basic autocatalytic motifs with regular stoichiometric matrices, we now expand this theory to include scenarios where the stoichiometric matrix has a nontrivial left kernel space. This extension introduces conservation laws, which limit the variations in chemical species due to reactions, thereby confining the system's possible states to those compatible with its initial conditions. By considering both thermodynamic and stoichiometric constraints, we clarify the environmental and initial conditions that dictate the CRSs' fate—whether they grow, shrink, or reach equilibrium. We also find that the conserved quantities significantly influence the equilibrium state achieved by a growing CRS. These results are derived independently of specific thermodynamic potentials or reaction kinetics, therefore underscoring the fundamental impact of conservation laws on the growth of the system. Published by the American Physical Society 2024

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Von Neumann’s growth model: Statistical mechanics and biological applications

Cited by 2 publications

References 40 publications

Boolean constraint satisfaction problems for reaction networks

Boolean constraint satisfaction problems for reaction networks

Thermodynamic and stoichiometric laws ruling the fates of growing systems

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