40 citations · 41 across the 12 of their papers we have counts for
13 papers
Modern view of activated rate processes: unidirectional fluxes at equilibrium, correlation functions, and splitting probabilities
Alexander M. Berezhkovskii, Kevin Song, Dmitrii E. Makarov
More than 80 years ago Kramers published a paper calculating how fast a Brownian particle escapes from a potential well over an activation barrier. Since then Kramers' model has be…
Speed limits on biomolecular processes from fundamental physical constants
Dmitrii E Makarov
Many of the timescales of life have speed limits set by quantum-mechanical constraints along with non-fundamental quantities, such as the temperature of the environment, which are…
Thermodynamic inference from noisy single-molecule time series
Todd R. Gingrich, Oleg A. Igoshin, Anatoly B. Kolomeisky +1
Single-molecule or single-particle tracking measurements inherently yield noisy microscopic trajectories, often significantly constrained by the diffraction limit and by the finite…
Energy Barriers for Reversible Chain Scission and Healing under Tension with Displacement Control
Mohammad A. Ansari, Kenneth M. Liechti, Dmitrii E. Makarov +1
Polymer chain scission is a key mechanism for fracture of soft materials. It is well known from single-molecule force spectroscopy experiments that the critical condition for chain…
What the Boltzmann money game teaches us about statistical mechanics (and maybe economics)
Dmitrii E. Makarov
This note explains why a large class of fair, or reversible "money games", i.e., stochastic models of wealth redistribution among agents, lead to steady states described by canonic…
Droplet growth, Ostwald's rule, and emergence of order in Fused in Sarcoma
Farkhad Maksudov, Mauro L. Mugnai, Laura Dominguez +2
The low complexity domain of Fused in Sarcoma (FUS-LC consisting of 214 residues) undergoes phase separation, resulting in a dense liquid-like phase that forms early and slowly mat…
Static vs dynamic rough energy landscapes: Where is diffusion faster?
Dmitrii E. Makarov, Peter Sollich
Molecules in dense environments, such as biological cells, are subjected to forces that fluctuate both in time and in space. While spatial fluctuations are captured by Lifson-Jacks…
Quantum Transition Rates in Arbitrary Physical Processes
Adolfo del Campo, András Grabarits, Dmitrii Makarov +1
We introduce a framework for computing time-dependent quantum transition rates (QTRs) that describe the pace of evolution of a quantum state from a given subspace to a target subsp…
Towards Markov-State Holography
Xizhu Zhao, Dmitrii E. Makarov, Aljaž Godec
Experiments, in particular on biological systems, typically probe lower-dimensional observables which are projections of high-dimensional dynamics. In order to infer consistent mod…
Hallmarks of Deception in Asset-Exchange Models
Kristian Blom, Dmitrii E. Makarov, Aljaž Godec
We investigate the transient and steady-state dynamics of the Bennati-Dragulescu-Yakovenko money game in the presence of probabilistic cheaters, who can misrepresent their financia…
The significance of fuzzy boundaries of the barrier regions in single-molecule measurements of failed barrier crossing attempts
Alexander M. Berezhkovskii, Dmitrii E. Makarov
A recent experimental study reports on measuring the temporal duration and the spatial extent of failed attempts to cross an activation barrier (i.e., "loops") for a folding transi…
Nonequilibrium statistical mechanics of money/energy exchange models
Maggie Miao, Kristian Blom, Dmitrii E. Makarov
Many-body dynamical models in which Boltzmann statistics can be derived directly from the underlying dynamical laws without invoking the fundamental postulates of statistical mecha…
Milestoning estimators of dissipation in systems observed at a coarse resolution: When ignorance is truly bliss
Kristian Blom, Kevin Song, Etienne Vouga +2
Many non-equilibrium, active processes are observed at a coarse-grained level, where different microscopic configurations are projected onto the same observable state. Such "lumped…