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Onset of static and dynamic universality among molecular models of polymers.

ABSTRACT: A quantitatively accurate prediction of properties for entangled polymers is a long-standing challenge that must be addressed to enable efficient development of these materials. The complex nature of polymers is the fundamental origin of this challenge. Specifically, the chemistry, structure, and dynamics at the atomistic scale affect properties at the meso and macro scales. Therefore, quantitative predictions must start from atomistic molecular dynamics (AMD) simulations. Combined use of atomistic and coarse-grained (CG) models is a promising approach to estimate long-timescale behavior of entangled polymers. However, a systematic coarse-graining is still to be done for bridging the gap of length and time scales while retaining atomistic characteristics. Here we examine the gaps among models, using a generic mapping scheme based on power laws that are closely related to universality in polymer structure and dynamics. The scheme reveals the characteristic length and time for the onset of universality between the vastly different scales of an atomistic model of polyethylene and the bead-spring Kremer-Grest (KG) model. The mapping between CG model of polystyrene and the KG model demonstrates the fast onset of universality, and polymer dynamics up to the subsecond time scale are observed. Thus, quantitatively traceable timescales of polymer MD simulations can be significantly increased.

SUBMITTER: Takahashi KZ

PROVIDER: S-EPMC5620073 | biostudies-literature | 2017 Sep

REPOSITORIES: biostudies-literature

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Onset of static and dynamic universality among molecular models of polymers.

Takahashi Kazuaki Z KZ Nishimura Ryuto R Yamato Nobuyoshi N Yasuoka Kenji K Masubuchi Yuichi Y

Scientific reports 20170928 1

A quantitatively accurate prediction of properties for entangled polymers is a long-standing challenge that must be addressed to enable efficient development of these materials. The complex nature of polymers is the fundamental origin of this challenge. Specifically, the chemistry, structure, and dynamics at the atomistic scale affect properties at the meso and macro scales. Therefore, quantitative predictions must start from atomistic molecular dynamics (AMD) simulations. Combined use of atomis ...[more]

PMID: 28959052

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Project description:This paper describes a targeted maximum likelihood estimator (TMLE) for the parameters of longitudinal static and dynamic marginal structural models. We consider a longitudinal data structure consisting of baseline covariates, time-dependent intervention nodes, intermediate time-dependent covariates, and a possibly time-dependent outcome. The intervention nodes at each time point can include a binary treatment as well as a right-censoring indicator. Given a class of dynamic or static interventions, a marginal structural model is used to model the mean of the intervention-specific counterfactual outcome as a function of the intervention, time point, and possibly a subset of baseline covariates. Because the true shape of this function is rarely known, the marginal structural model is used as a working model. The causal quantity of interest is defined as the projection of the true function onto this working model. Iterated conditional expectation double robust estimators for marginal structural model parameters were previously proposed by Robins (2000, 2002) and Bang and Robins (2005). Here we build on this work and present a pooled TMLE for the parameters of marginal structural working models. We compare this pooled estimator to a stratified TMLE (Schnitzer et al. 2014) that is based on estimating the intervention-specific mean separately for each intervention of interest. The performance of the pooled TMLE is compared to the performance of the stratified TMLE and the performance of inverse probability weighted (IPW) estimators using simulations. Concepts are illustrated using an example in which the aim is to estimate the causal effect of delayed switch following immunological failure of first line antiretroviral therapy among HIV-infected patients. Data from the International Epidemiological Databases to Evaluate AIDS, Southern Africa are analyzed to investigate this question using both TML and IPW estimators. Our results demonstrate practical advantages of the pooled TMLE over an IPW estimator for working marginal structural models for survival, as well as cases in which the pooled TMLE is superior to its stratified counterpart.

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Onset of static and dynamic universality among molecular models of polymers.

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Onset of static and dynamic universality among molecular models of polymers.

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