加速数据驱动的多体分子动力学模拟。

IF 5.8 1区 化学 Q2 CHEMISTRY, PHYSICAL Journal of Chemical Theory and Computation Pub Date : 2025-02-25 Epub Date: 2025-02-14 DOI:10.1021/acs.jctc.4c01333
Shreya Gupta, Ethan F Bull-Vulpe, Henry Agnew, Shishir Iyer, Xuanyu Zhu, Ruihan Zhou, Christopher Knight, Francesco Paesani
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引用次数: 0

摘要

MBX软件为分子动力学模拟提供了一个先进的平台,利用了最先进的MB-pol和MB-nrg数据驱动的多体势能函数。在过去的十年中,这些势能函数整合了基于物理和机器学习的多体术语,这些术语是在“黄金标准”耦合聚类理论水平上计算的电子结构数据上训练的。MBX最近的进步集中在优化其性能上,从而发布了MBX v1.2。虽然MB-pol和MB-nrg固有的多体特性保证了高精度,但它带来了计算挑战。MBX v1.2通过显著的性能改进解决了这些挑战,包括增强的并行性,充分利用了现代多核cpu的强大功能。这些进步能够在纳秒时间尺度上对凝聚相系统进行模拟,显著扩展了由数据驱动的多体势能函数驱动的复杂分子系统的高精度、预测性模拟的范围。
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MBX V1.2: Accelerating Data-Driven Many-Body Molecular Dynamics Simulations.

The MBX software provides an advanced platform for molecular dynamics simulations, leveraging state-of-the-art MB-pol and MB-nrg data-driven many-body potential energy functions. Developed over the past decade, these potential energy functions integrate physics-based and machine-learned many-body terms trained on electronic structure data calculated at the "gold standard" coupled-cluster level of theory. Recent advancements in MBX have focused on optimizing its performance, resulting in the release of MBX v1.2. While the inherently many-body nature of MB-pol and MB-nrg ensures high accuracy, it poses computational challenges. MBX v1.2 addresses these challenges with significant performance improvements, including enhanced parallelism that fully harnesses the power of modern multicore CPUs. These advancements enable simulations on nanosecond time scales for condensed-phase systems, significantly expanding the scope of high-accuracy, predictive simulations of complex molecular systems powered by data-driven many-body potential energy functions.

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来源期刊
Journal of Chemical Theory and Computation
Journal of Chemical Theory and Computation 化学-物理:原子、分子和化学物理
CiteScore
9.90
自引率
16.40%
发文量
568
审稿时长
1 months
期刊介绍: The Journal of Chemical Theory and Computation invites new and original contributions with the understanding that, if accepted, they will not be published elsewhere. Papers reporting new theories, methodology, and/or important applications in quantum electronic structure, molecular dynamics, and statistical mechanics are appropriate for submission to this Journal. Specific topics include advances in or applications of ab initio quantum mechanics, density functional theory, design and properties of new materials, surface science, Monte Carlo simulations, solvation models, QM/MM calculations, biomolecular structure prediction, and molecular dynamics in the broadest sense including gas-phase dynamics, ab initio dynamics, biomolecular dynamics, and protein folding. The Journal does not consider papers that are straightforward applications of known methods including DFT and molecular dynamics. The Journal favors submissions that include advances in theory or methodology with applications to compelling problems.
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