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使用前向通量抽样研究罕见事件:最新突破和未来展望。

Studying rare events using forward-flux sampling: Recent breakthroughs and future outlook.

机构信息

Department of Chemical and Environmental Engineering, Yale University, New Haven, Connecticut 06520, USA.

出版信息

J Chem Phys. 2020 Feb 14;152(6):060901. doi: 10.1063/1.5127780.

Abstract

Rare events are processes that occur upon the emergence of unlikely fluctuations. Unlike what their name suggests, rare events are fairly ubiquitous in nature, as the occurrence of many structural transformations in biology and material sciences is predicated upon crossing large free energy barriers. Probing the kinetics and uncovering the molecular mechanisms of possible barrier crossings in a system is critical to predicting and controlling its structural and functional properties. Due to their activated nature, however, rare events are exceptionally difficult to study using conventional experimental and computational techniques. In recent decades, a wide variety of specialized computational techniques-known as advanced sampling techniques-have been developed to systematically capture improbable fluctuations relevant to rare events. In this perspective, we focus on a technique called forward flux sampling [Allen et al., J. Chem. Phys. 124, 024102 (2006)] and overview its recent methodological variants and extensions. We also provide a detailed overview of its application to study a wide variety of rare events and map out potential avenues for further explorations.

摘要

罕见事件是指在不太可能的波动出现时发生的过程。与它们的名称所暗示的不同,罕见事件在自然界中相当普遍,因为生物学和材料科学中的许多结构转变都是基于跨越大的自由能障碍。探测动力学并揭示系统中可能的障碍跨越的分子机制对于预测和控制其结构和功能特性至关重要。然而,由于它们的激活性质,罕见事件非常难以使用传统的实验和计算技术进行研究。在最近几十年中,已经开发出了各种各样的专门计算技术,称为高级采样技术,以系统地捕捉与罕见事件相关的不可能的波动。在本观点中,我们专注于一种称为正向通量采样的技术[Allen 等人,J. Chem. Phys. 124, 024102 (2006)],并概述其最近的方法变体和扩展。我们还详细概述了它在研究各种罕见事件中的应用,并规划了进一步探索的潜在途径。

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