Literature DB >> 24605768

How short is too short for the interactions of a water potential? Exploring the parameter space of a coarse-grained water model using uncertainty quantification.

Liam C Jacobson1, Robert M Kirby, Valeria Molinero.   

Abstract

Coarse-grained models are becoming increasingly popular due to their ability to access time and length scales that are prohibitively expensive with atomistic models. However, as a result of decreasing the degrees of freedom, coarse-grained models often have diminished accuracy, representability, and transferability compared with their finer grained counterparts. Uncertainty quantification (UQ) can help alleviate this challenge by providing an efficient and accurate method to evaluate the effect of model parameters on the properties of the system. This method is useful in finding parameter sets that fit the model to several experimental properties simultaneously. In this work we use UQ as a tool for the evaluation and optimization of a coarse-grained model. We efficiently sample the five-dimensional parameter space of the coarse-grained monatomic water (mW) model to determine what parameter sets best reproduce experimental thermodynamic, structural and dynamical properties of water. Generalized polynomial chaos (gPC) was used to reconstruct the analytical surfaces of density, enthalpy of vaporization, radial and angular distribution functions, and diffusivity of liquid water as a function of the input parameters. With these surfaces, we evaluated the sensitivity of these properties to perturbations of the model input parameters and the accuracy and representability of the coarse-grained models. In particular, we investigated what is the optimum length scale of the water-water interactions needed to reproduce the properties of liquid water with a monatomic model with two- and three-body interactions. We found that there is an optimum cutoff length of 4.3 Å, barely longer than the size of the first neighbor shell in water. As cutoffs deviate from this optimum value, the ability of the model to simultaneously reproduce the structure and thermodynamics is severely diminished.

Entities:  

Year:  2014        PMID: 24605768     DOI: 10.1021/jp5012928

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  4 in total

1.  Model reduction of rigid-body molecular dynamics via generalized multipole potentials.

Authors:  Paul N Patrone; Andrew Dienstfrey; G B McFadden
Journal:  Phys Rev E       Date:  2019-12       Impact factor: 2.529

2.  Bayesian calibration of coarse-grained forces: Efficiently addressing transferability.

Authors:  Paul N Patrone; Thomas W Rosch; Frederick R Phelan
Journal:  J Chem Phys       Date:  2016-04-21       Impact factor: 3.488

3.  Machine learning coarse grained models for water.

Authors:  Henry Chan; Mathew J Cherukara; Badri Narayanan; Troy D Loeffler; Chris Benmore; Stephen K Gray; Subramanian K R S Sankaranarayanan
Journal:  Nat Commun       Date:  2019-01-22       Impact factor: 14.919

4.  Bayesian selection for coarse-grained models of liquid water.

Authors:  Julija Zavadlav; Georgios Arampatzis; Petros Koumoutsakos
Journal:  Sci Rep       Date:  2019-01-14       Impact factor: 4.379

  4 in total

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