Milestoning with coarse memory

Early Events in Helix Unfolding under External Forces: A Milestoning Analysis

(2012) Steven M. Kreuzer et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Unassisted Transport of N-Acetyl-l-tryptophanamide through Membrane: Experiment and Simulation of Kinetics

(2012) Alfredo E. Cardenas et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Experiments and Comprehensive Simulations of the Formation of a Helical Turn

(2012) Gouri S. Jas et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Transition Path Times for Nucleic Acid Folding Determined from Energy-Landscape Analysis of Single-Molecule Trajectories

(2012) Krishna Neupane et al.   PHYSICAL REVIEW LETTERS

Single-Molecule Fluorescence Experiments Determine Protein Folding Transition Path Times

(2012) H. S. Chung et al.   SCIENCE

How Conformational Dynamics of DNA Polymerase Select Correct Substrates: Experiments and Simulations

(2012) Serdal Kirmizialtin et al.   STRUCTURE

Milestoning with transition memory

(2011) Alexander T. Hawk et al.   JOURNAL OF CHEMICAL PHYSICS

Polymer reversal rate calculated via locally scaled diffusion map

(2011) Wenwei Zheng et al.   JOURNAL OF CHEMICAL PHYSICS

Markov state models based on milestoning

(2011) Christof Schütte et al.   JOURNAL OF CHEMICAL PHYSICS

Markov models of molecular kinetics: Generation and validation

(2011) Jan-Hendrik Prinz et al.   JOURNAL OF CHEMICAL PHYSICS

Flow-Dependent Unfolding and Refolding of an RNA by Nonequilibrium Umbrella Sampling

(2011) Alex Dickson et al.   Journal of Chemical Theory and Computation

Revisiting and Computing Reaction Coordinates with Directional Milestoning

(2011) Serdal Kirmizialtin et al.   JOURNAL OF PHYSICAL CHEMISTRY A

A harmonic transition state approximation for the duration of reactive events in complex molecular rearrangements

(2010) Srabanti Chaudhury et al.   JOURNAL OF CHEMICAL PHYSICS

Milestoning without a Reaction Coordinate

(2010) Peter Májek et al.   Journal of Chemical Theory and Computation

On the Approximation Quality of Markov State Models

(2010) Marco Sarich et al.   MULTISCALE MODELING & SIMULATION

Atomically detailed simulation of the recovery stroke in myosin by Milestoning

(2010) R. Elber et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Nonequilibrium umbrella sampling in spaces of many order parameters

(2009) Alex Dickson et al.   JOURNAL OF CHEMICAL PHYSICS

Revisiting the finite temperature string method for the calculation of reaction tubes and free energies

(2009) Eric Vanden-Eijnden et al.   JOURNAL OF CHEMICAL PHYSICS

Markovian milestoning with Voronoi tessellations

(2009) Eric Vanden-Eijnden et al.   JOURNAL OF CHEMICAL PHYSICS

Exact rate calculations by trajectory parallelization and tilting

(2009) Eric Vanden-Eijnden et al.   JOURNAL OF CHEMICAL PHYSICS

Separating forward and backward pathways in nonequilibrium umbrella sampling

(2009) Alex Dickson et al.   JOURNAL OF CHEMICAL PHYSICS

Experimental determination of upper bound for transition path times in protein folding from single-molecule photon-by-photon trajectories

(2009) H. S. Chung et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The rate constant of polymer reversal inside a pore

(2008) Lei Huang et al.   JOURNAL OF CHEMICAL PHYSICS

On the assumptions underlying milestoning

(2008) Eric Vanden-Eijnden et al.   JOURNAL OF CHEMICAL PHYSICS

Coarse Master Equations for Peptide Folding Dynamics†

(2008) Nicolae-Viorel Buchete et al.   JOURNAL OF PHYSICAL CHEMISTRY B