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Thermodynamics of computational copying in biochemical systems

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Title: Thermodynamics of computational copying in biochemical systems
Authors: Ouldridge, TE
Govern, CC
Wolde, PRT
Item Type: Journal Article
Abstract: Living cells use readout molecules to record the state of receptor proteins, similar to measurements or copies in typical computational devices. But is this analogy rigorous? Can cells be optimally efficient, and if not, why? We show that, as in computation, a canonical biochemical readout network generates correlations; extracting no work from these correlations sets a lower bound on dissipation. For general input, the biochemical network cannot reach this bound, even with arbitrarily slow reactions or weak thermodynamic driving. It faces an accuracy-dissipation trade-off that is qualitatively distinct from and worse than implied by the bound, and more complex steady-state copy processes cannot perform better. Nonetheless, the cost remains close to the thermodynamic bound unless accuracy is extremely high. Additionally, we show that biomolecular reactions could be used in thermodynamically optimal devices under exogenous manipulation of chemical fuels, suggesting an experimental system for testing computational thermodynamics.
Issue Date: 7-Apr-2017
Date of Acceptance: 9-Mar-2017
URI: http://hdl.handle.net/10044/1/45561
DOI: https://dx.doi.org/10.1103/PhysRevX.7.021004
ISSN: 2160-3308
Publisher: American Physical Society
Journal / Book Title: Physical Review X
Volume: 7
Copyright Statement: © 2017 The Authors. Published by the American Physical Society under the terms of the Creative Commons Attribution 3.0 License. Further distribution of this work must maintain attribution to the author(s) and the published article’s title, journal citation, and DOI (https://creativecommons.org/licenses/by/3.0/)
Sponsor/Funder: The Royal Society
Funder's Grant Number: UF150067
Keywords: Science & Technology
Physical Sciences
Physics, Multidisciplinary
Physics
LANDAUERS PRINCIPLE
MAXWELLS DEMON
SIGNAL-TRANSDUCTION
INFORMATION
ENTROPY
IRREVERSIBILITY
DISSIPATION
GENERATION
PHYSICS
SPEED
q-bio.MN
cond-mat.stat-mech
physics.bio-ph
Publication Status: Published
Article Number: 021004
Appears in Collections:Faculty of Engineering
Bioengineering



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