Suppr超能文献

关于基于模拟缩放的自由能模拟:缩放参数区间的自适应优化。

On the simulated scaling based free energy simulations: Adaptive optimization of the scaling parameter intervals.

作者信息

Zheng Lianqing, Yang Wei

机构信息

Institute of Molecular Biophysics, Florida State University, Tallahassee, Florida 32306, USA.

出版信息

J Chem Phys. 2008 Sep 28;129(12):124107. doi: 10.1063/1.2982161.

Abstract

Recently, we developed a generalized ensemble based free energy simulation technique, the simulated scaling (SS) method [Li et al., J. Chem. Phys. 126, 024106 (2007)]. In the SS simulations, random walks in the scaling parameter space are realized and free energy values can be conveniently estimated based on trial biasing weights. To improve free energy convergence in the SS simulations, we adopt a recent adaptive algorithm to systematically optimize the scaling parameter intervals; here, the optimization target is the round-trip rate between two end chemical states. As demonstrated in our model studies on the solvation of chloride ion and methane, free energy convergence can be greatly improved when the round-trip rates are accelerated.

摘要

最近,我们开发了一种基于广义系综的自由能模拟技术——模拟标度(SS)方法[Li等人,《化学物理杂志》126, 024106 (2007)]。在SS模拟中,实现了标度参数空间中的随机游走,并且可以基于试验偏差权重方便地估计自由能值。为了提高SS模拟中的自由能收敛性,我们采用了一种最近的自适应算法来系统地优化标度参数区间;这里,优化目标是两个末端化学状态之间的往返速率。正如我们对氯离子和甲烷溶剂化的模型研究所表明的,当往返速率加快时,自由能收敛性可以得到极大改善。

文献检索

告别复杂PubMed语法,用中文像聊天一样搜索,搜遍4000万医学文献。AI智能推荐,让科研检索更轻松。

立即免费搜索

文件翻译

保留排版,准确专业,支持PDF/Word/PPT等文件格式,支持 12+语言互译。

免费翻译文档

深度研究

AI帮你快速写综述,25分钟生成高质量综述,智能提取关键信息,辅助科研写作。

立即免费体验