504 citations · 580 across the 6 of their papers we have counts for
6 papers
Transition path dynamics of a nanoparticle in a bistable optical trap
Niels Zijlstra, Daniel Nettels, Rohit Satija +2
Many processes in chemistry, physics, and biology involve rare events in which the system escapes from a metastable state by surmounting an activation barrier. Examples range from…
Transient probability currents provide upper and lower bounds on non-equilibrium steady-state currents in the Smoluchowski picture
Jeremy Copperman, David Aristoff, Dmitrii E. Makarov +2
Probability currents are fundamental in characterizing the kinetics of non-equilibrium processes. Notably, the steady-state current for a source-sink system can provide th…
Influence of Local and Residual Structures on the Scaling Behavior and Dimensions of Unfolded Proteins
Zhisong Wang, Kevin W. Plaxco, Dmitrii E. Makarov
Although recent spectroscopic studies of chemically denatured proteins hint at significant nonrandom residual structure, the results of extensive small angle X-ray scattering studi…
Untying molecular friction knots
Serdal Kirmizialtin, Dmitrii E. Makarov
Motivated by recent advances in single molecule manipulation techniques that enabled several groups to tie knots in individual polymer strands and to monitor their dynamics, we hav…
Theoretical studies of the kinetics of mechanical unfolding of cross-linked polymer chains and their implications for single molecule pulling experiments
Kilho Eom, Dmitrii E Makarov, Gregory J. Rodin
We have used kinetic Monte Carlo simulations to study the kinetics of unfolding of cross-linked polymer chains under mechanical loading. As the ends of a chain are pulled apart, th…
Van der Waals Energies in Density Functional Theory
Walter Kohn, Yigal Meir, Dmitrii E. Makarov
In principle, density functional theory yields the correct ground-state densities and energies of electronic systems under the action of a static external potential. However, tradi…