Published in Phys Rev Lett on April 09, 2008
Constructing the equilibrium ensemble of folding pathways from short off-equilibrium simulations. Proc Natl Acad Sci U S A (2009) 3.92
String method in collective variables: minimum free energy paths and isocommittor surfaces. J Chem Phys (2006) 2.53
Nested stochastic simulation algorithm for chemical kinetic systems with disparate rates. J Chem Phys (2005) 2.37
Finite temperature string method for the study of rare events. J Phys Chem B (2005) 2.09
Large-scale conformational sampling of proteins using temperature-accelerated molecular dynamics. Proc Natl Acad Sci U S A (2010) 1.97
Transition-path theory and path-finding algorithms for the study of rare events. Annu Rev Phys Chem (2010) 1.95
Simplified and improved string method for computing the minimum energy paths in barrier-crossing events. J Chem Phys (2007) 1.71
Solvent coarse-graining and the string method applied to the hydrophobic collapse of a hydrated chain. Proc Natl Acad Sci U S A (2007) 1.67
Transition pathways in complex systems: Application of the finite-temperature string method to the alanine dipeptide. J Chem Phys (2005) 1.63
DREAM3: network inference using dynamic context likelihood of relatedness and the inferelator. PLoS One (2010) 1.39
Free energy of conformational transition paths in biomolecules: the string method and its application to myosin VI. J Chem Phys (2011) 1.34
Single-sweep methods for free energy calculations. J Chem Phys (2008) 1.32
Illustration of transition path theory on a collection of simple examples. J Chem Phys (2006) 1.31
Markov state models based on milestoning. J Chem Phys (2011) 1.29
Mapping the network of pathways of CO diffusion in myoglobin. J Am Chem Soc (2010) 1.21
Blue moon sampling, vectorial reaction coordinates, and unbiased constrained dynamics. Chemphyschem (2005) 1.13
Optimal partition and effective dynamics of complex networks. Proc Natl Acad Sci U S A (2008) 1.04
Free energy and kinetics of conformational transitions from Voronoi tessellated milestoning with restraining potentials. J Chem Theory Comput (2009) 0.98
The Inferelator 2.0: a scalable framework for reconstruction of dynamic regulatory network models. Conf Proc IEEE Eng Med Biol Soc (2009) 0.98
Noise-induced mixed-mode oscillations in a relaxation oscillator near the onset of a limit cycle. Chaos (2008) 0.90
Non-meanfield deterministic limits in chemical reaction kinetics. J Chem Phys (2006) 0.88
Mori-Zwanzig formalism as a practical computational tool. Faraday Discuss (2010) 0.88
Two distinct mechanisms of coherence in randomly perturbed dynamical systems. Phys Rev E Stat Nonlin Soft Matter Phys (2005) 0.87
Full kinetics of CO entry, internal diffusion, and exit in myoglobin from transition-path theory simulations. J Am Chem Soc (2015) 0.81
Regularity and synchrony in motor proteins. Bull Math Biol (2007) 0.81
Force-clamp analysis techniques give highest rank to stretched exponential unfolding kinetics in ubiquitin. Biophys J (2012) 0.79
Infinite swapping replica exchange molecular dynamics leads to a simple simulation patch using mixture potentials. J Chem Phys (2013) 0.78
On-the-fly free energy parameterization via temperature accelerated molecular dynamics. Chem Phys Lett (2012) 0.78
Noise can play an organizing role for the recurrent dynamics in excitable media. Proc Natl Acad Sci U S A (2007) 0.77
Regular gaits and optimal velocities for motor proteins. Biophys J (2008) 0.75
A climbing string method for saddle point search. J Chem Phys (2013) 0.75
New methods: general discussion. Faraday Discuss (2016) 0.75