Showing papers by "Udo Seifert published in 2004"
TL;DR: It is shown that the distribution of work required to drive the system from an initial equilibrium state to another is Gaussian for slow but finite driving by projection method techniques exploiting a small parameter defined as the switching rate between the two states of the system.
Abstract: Diffusive motion in an externally driven potential is considered. It is shown that the distribution of work required to drive the system from an initial equilibrium state to another is Gaussian for slow but finite driving. Our result is obtained by projection method techniques exploiting a small parameter defined as the switching rate between the two states of the system. The exact solution for a simple model system shows that such an expansion may fail in higher orders, since the mean and the variance following from the exact distribution show nonanalytic behavior.
87 citations
TL;DR: A new method for obtaining the full profile of a molecule's free energy profile by introducing a periodic ramp and using Jarzynski's relation for obtaining equilibrium quantities from nonequilibrium data is proposed.
Abstract: Single molecule pulling experiments provide information about interactions in biomolecules that cannot be obtained by any other method. However, the reconstruction of the molecule's free energy profile from the experimental data is still a challenge, in particular, for the unstable barrier regions. We propose a new method for obtaining the full profile by introducing a periodic ramp and using Jarzynski's relation for obtaining equilibrium quantities from nonequilibrium data. Our simulated experiments show that this method delivers significant more accurate data than previous methods, under the constraint of equal experimental effort.
67 citations
TL;DR: The competition between adhesion and tether formation in bound vesicles is investigated and a theoretical model is developed in which tethers are induced by the application of a pulling force to the top of a strongly adhered vesicle.
Abstract: The competition between adhesion and tether formation in bound vesicles is investigated A theoretical model is developed in which tethers are induced by the application of a pulling force to the top of a strongly adhered vesicle A critical onset force is identified where the tether spontaneously appears as part of a first order shape transition Further growth of the tether initiates a detachment process that culminates in a continuous unbinding of the vesicle at a finite detachment force Both critical forces, as well as all shape parameters, are calculated as a function of the reduced volume and the strength of adhesive potential
61 citations
TL;DR: For systems described by univariate birth-death or chemical master equations driven out of equilibrium by externally controlled time-dependent transition rates, a nonlinear fluctuation theorem is derived in this article.
Abstract: For systems described by univariate birth–death or chemical master equations driven out of equilibrium by externally controlled time-dependent transition rates, a nonlinear fluctuation theorem is derived. For paradigmatic chemical reactions, this theorem acquires a particularly transparent form.
49 citations
TL;DR: In this article, the authors show that in the case of a profile with two minima (like folded/unfolded), periodic driving leads to a stochastic resonance-like phenomenon.
Abstract: Mechanical single-molecule experiments probe the energy profile of biomolecules. We show that in the case of a profile with two minima (like folded/unfolded), periodic driving leads to a stochastic resonance-like phenomenon. We demonstrate that the analysis of such data can be used to extract four basic parameters of such a transition and discuss the statistical requirements of the data acquisition. As advantages of the proposed scheme, a polymeric linker is explicitly included and thermal fluctuations within each well need not be resolved.
11 citations