Energy and information flows in autonomous systems

J Ehrich, DA Sivak - Frontiers in Physics, 2023 - frontiersin.org
Multi-component molecular machines are ubiquitous in biology. We review recent progress
on describing their thermodynamic properties using autonomous bipartite Markovian …

Challenges in inferring the directionality of active molecular processes from single-molecule fluorescence resonance energy transfer trajectories

A Godec, DE Makarov - The journal of physical chemistry letters, 2022 - ACS Publications
We discuss some of the practical challenges that one faces in using stochastic
thermodynamics to infer directionality of molecular machines from experimental single …

Thermodynamic inference in partially accessible Markov networks: a unifying perspective from transition-based waiting time distributions

J Van der Meer, B Ertel, U Seifert - Physical Review X, 2022 - APS
The inference of thermodynamic quantities from the description of an only partially
accessible physical system is a central challenge in stochastic thermodynamics. A common …

Is stochastic thermodynamics the key to understanding the energy costs of computation?

DH Wolpert, J Korbel, CW Lynn, F Tasnim… - Proceedings of the …, 2024 - pnas.org
The relationship between the thermodynamic and computational properties of physical
systems has been a major theoretical interest since at least the 19th century. It has also …

Time-resolved statistics of snippets as general framework for model-free entropy estimators

J van der Meer, J Degünther, U Seifert - Physical Review Letters, 2023 - APS
Irreversibility is commonly quantified by entropy production. An external observer can
estimate it through measuring an observable that is antisymmetric under time reversal like a …

Milestoning estimators of dissipation in systems observed at a coarse resolution

K Blom, K Song, E Vouga, A Godec… - Proceedings of the …, 2024 - National Acad Sciences
Many nonequilibrium, active processes are observed at a coarse-grained level, where
different microscopic configurations are projected onto the same observable state. Such …

Thermodynamic bounds on time-reversal asymmetry

S Liang, S Pigolotti - Physical Review E, 2023 - APS
Quantifying irreversibility of a system using finite information constitutes a major challenge in
stochastic thermodynamics. We introduce an observable that measures the time-reversal …

Inferring scale-dependent non-equilibrium activity using carbon nanotubes

A Bacanu, JF Pelletier, Y Jung, N Fakhri - Nature Nanotechnology, 2023 - nature.com
In living systems, irreversible, yet stochastic, molecular interactions form multiscale
structures (such as cytoskeletal networks), which mediate processes (such as cytokinesis …

Fluctuating entropy production on the coarse-grained level: Inference and localization of irreversibility

J Degünther, J van der Meer, U Seifert - Physical Review Research, 2024 - APS
Stochastic thermodynamics provides the framework to analyze thermodynamic laws and
quantities along individual trajectories of small but fully observable systems. If the …

Uncovering nonequilibrium from unresolved events

PE Harunari - Physical Review E, 2024 - APS
Closely related to the laws of thermodynamics, the detection and quantification of
disequilibria are crucial in unraveling the complexities of nature, particularly those beneath …