A critical appraisal of Markov state models

Perspective: Markov models for long-timescale biomolecular dynamics

(2014) C. R. Schwantes et al.   JOURNAL OF CHEMICAL PHYSICS

Variational Approach to Molecular Kinetics

(2014) Feliks Nüske et al.   Journal of Chemical Theory and Computation

Approximating selected non-dominant timescales by Markov state models

(2013) Marco Sarich et al.   Communications in Mathematical Sciences

Efficient Bayesian estimation of Markov model transition matrices with given stationary distribution

(2013) Benjamin Trendelkamp-Schroer et al.   JOURNAL OF CHEMICAL PHYSICS

ZIBgridfree: efficient conformational analysis by partition-of-unity coupling

(2013) Alexander Bujotzek et al.   JOURNAL OF MATHEMATICAL CHEMISTRY

A Variational Approach to Modeling Slow Processes in Stochastic Dynamical Systems

(2013) Frank Noé et al.   MULTISCALE MODELING & SIMULATION

Cloud-based simulations on Google Exacycle reveal ligand modulation of GPCR activation pathways

(2013) Kai J. Kohlhoff et al.   Nature Chemistry

EMMA: A Software Package for Markov Model Building and Analysis

(2012) Martin Senne et al.   Journal of Chemical Theory and Computation

Estimating the Eigenvalue Error of Markov State Models

(2012) Natasa Djurdjevac et al.   MULTISCALE MODELING & SIMULATION

Markov models and dynamical fingerprints: Unraveling the complexity of molecular kinetics

(2011) Bettina G. Keller et al.   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

Everything you wanted to know about Markov State Models but were afraid to ask

(2010) Vijay S. Pande et al.   METHODS

On the Approximation Quality of Markov State Models

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

Observation uncertainty in reversible Markov chains

(2010) Philipp Metzner et al.   PHYSICAL REVIEW E

Sparse Spectral Approximations of High-Dimensional Problems Based on Hyperbolic Cross

(2010) Jie Shen et al.   SIAM JOURNAL ON NUMERICAL ANALYSIS

Constructing the equilibrium ensemble of folding pathways from short off-equilibrium simulations

(2009) Frank Noé et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Coarse Master Equations for Peptide Folding Dynamics†

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