The multiscale coarse-graining method. V. Isothermal-isobaric ensemble

A Das, HC Andersen - The Journal of chemical physics, 2010 - pubs.aip.org
The multiscale coarse-graining (MS-CG) method is a method for determining the effective
potential energy function for a coarse-grained (CG) model of a system using the data …

The multiscale coarse-graining method. I. A rigorous bridge between atomistic and coarse-grained models

WG Noid, JW Chu, GS Ayton, V Krishna… - The Journal of …, 2008 - pubs.aip.org
Coarse-grained (CG) models provide a computationally efficient method for rapidly
investigating the long time-and length-scale processes that play a critical role in many …

The multiscale coarse-graining method. II. Numerical implementation for coarse-grained molecular models

WG Noid, P Liu, Y Wang, JW Chu, GS Ayton… - The Journal of …, 2008 - pubs.aip.org
The multiscale coarse-graining (MS-CG) method [S. Izvekov and GA Voth, J. Phys. Chem. B
109, 2469 (2005); J. Chem. Phys. 123, 134105 (2005)] employs a variational principle to …

The multiscale coarse-graining method. IX. A general method for construction of three body coarse-grained force fields

A Das, HC Andersen - The Journal of chemical physics, 2012 - pubs.aip.org
The multiscale coarse-graining (MS-CG) method is a method for constructing a coarse-
grained (CG) model of a system using data obtained from molecular dynamics simulations of …

[HTML][HTML] The multiscale coarse-graining method. IV. Transferring coarse-grained potentials between temperatures

V Krishna, WG Noid, GA Voth - The Journal of chemical physics, 2009 - ncbi.nlm.nih.gov
This work develops a method for the construction of multiscale coarse-grained (MS-CG)
force fields at different temperatures based on available atomistic data at a given reference …

[HTML][HTML] Dynamic force matching: A method for constructing dynamical coarse-grained models with realistic time dependence

A Davtyan, JF Dama, GA Voth… - The Journal of Chemical …, 2015 - pubs.aip.org
Coarse-grained (CG) models of molecular systems, with fewer mechanical degrees of
freedom than an all-atom model, are used extensively in chemical physics. It is generally …

The multiscale coarse-graining method. III. A test of pairwise additivity of the coarse-grained potential and of new basis functions for the variational calculation

A Das, HC Andersen - The Journal of chemical physics, 2009 - pubs.aip.org
Molecular dynamics MD simulation is an invaluable tool in understanding structural and
dynamical properties of condensed phase systems. 1, 2 MD simulations with all-atom …

Multiscale coarse-graining and structural correlations: Connections to liquid-state theory

WG Noid, JW Chu, GS Ayton… - The Journal of Physical …, 2007 - ACS Publications
A statistical mechanical framework elucidates the significance of structural correlations
between coarse-grained (CG) sites in the multiscale coarse-graining (MS-CG) method …

The multiscale coarse-graining method. X. Improved algorithms for constructing coarse-grained potentials for molecular systems

A Das, L Lu, HC Andersen, GA Voth - The Journal of Chemical Physics, 2012 - pubs.aip.org
The multiscale coarse-graining (MS-CG) method uses simulation data for an atomistic model
of a system to construct a coarse-grained (CG) potential for a coarse-grained model of the …

The multiscale coarse-graining method. VIII. Multiresolution hierarchical basis functions and basis function selection in the construction of coarse-grained force fields

A Das, HC Andersen - The Journal of Chemical Physics, 2012 - pubs.aip.org
The multiscale coarse-graining (MS-CG) method is a method for determining the effective
potential energy function for a coarse-grained (CG) model of a molecular system using data …