Yi-Fan Hou, Lina Zhang, Quanhao Zhang, Fuchun Ge and Pavlo O. Dral*,
{"title":"利用物理信息主动学习加速量子化学模拟","authors":"Yi-Fan Hou, Lina Zhang, Quanhao Zhang, Fuchun Ge and Pavlo O. Dral*, ","doi":"10.1021/acs.jctc.4c0082110.1021/acs.jctc.4c00821","DOIUrl":null,"url":null,"abstract":"<p >Quantum chemical simulations can be greatly accelerated by constructing machine learning potentials, which is often done using active learning (AL). The usefulness of the constructed potentials is often limited by the high effort required and their insufficient robustness in the simulations. Here, we introduce the end-to-end AL for constructing robust data-efficient potentials with affordable investment of time and resources and minimum human interference. Our AL protocol is based on the physics-informed sampling of training points, automatic selection of initial data, uncertainty quantification, and convergence monitoring. The versatility of this protocol is shown in our implementation of quasi-classical molecular dynamics for simulating vibrational spectra, conformer search of a key biochemical molecule, and time-resolved mechanism of the Diels–Alder reaction. These investigations took us days instead of weeks of pure quantum chemical calculations on a high-performance computing cluster.</p>","PeriodicalId":45,"journal":{"name":"Journal of Chemical Theory and Computation","volume":null,"pages":null},"PeriodicalIF":5.7000,"publicationDate":"2024-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Physics-Informed Active Learning for Accelerating Quantum Chemical Simulations\",\"authors\":\"Yi-Fan Hou, Lina Zhang, Quanhao Zhang, Fuchun Ge and Pavlo O. Dral*, \",\"doi\":\"10.1021/acs.jctc.4c0082110.1021/acs.jctc.4c00821\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p >Quantum chemical simulations can be greatly accelerated by constructing machine learning potentials, which is often done using active learning (AL). The usefulness of the constructed potentials is often limited by the high effort required and their insufficient robustness in the simulations. Here, we introduce the end-to-end AL for constructing robust data-efficient potentials with affordable investment of time and resources and minimum human interference. Our AL protocol is based on the physics-informed sampling of training points, automatic selection of initial data, uncertainty quantification, and convergence monitoring. The versatility of this protocol is shown in our implementation of quasi-classical molecular dynamics for simulating vibrational spectra, conformer search of a key biochemical molecule, and time-resolved mechanism of the Diels–Alder reaction. These investigations took us days instead of weeks of pure quantum chemical calculations on a high-performance computing cluster.</p>\",\"PeriodicalId\":45,\"journal\":{\"name\":\"Journal of Chemical Theory and Computation\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":5.7000,\"publicationDate\":\"2024-09-12\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Journal of Chemical Theory and Computation\",\"FirstCategoryId\":\"92\",\"ListUrlMain\":\"https://pubs.acs.org/doi/10.1021/acs.jctc.4c00821\",\"RegionNum\":1,\"RegionCategory\":\"化学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q2\",\"JCRName\":\"CHEMISTRY, PHYSICAL\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Chemical Theory and Computation","FirstCategoryId":"92","ListUrlMain":"https://pubs.acs.org/doi/10.1021/acs.jctc.4c00821","RegionNum":1,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"CHEMISTRY, PHYSICAL","Score":null,"Total":0}
引用次数: 0
摘要
量子化学模拟可以通过构建机器学习势能(通常使用主动学习(AL))来大大加速。所构建的势能的实用性往往受到所需的高强度工作及其在模拟中的鲁棒性不足的限制。在这里,我们引入了端到端 AL,用于构建稳健、数据高效的势能,并将时间和资源投入控制在可承受的范围内,将人为干扰降至最低。我们的 AL 协议基于训练点的物理信息采样、初始数据的自动选择、不确定性量化和收敛监控。我们在实施准经典分子动力学模拟振动光谱、关键生化分子的构象搜索以及 Diels-Alder 反应的时间分辨机理时,证明了这一协议的多功能性。在高性能计算集群上进行纯量子化学计算时,这些研究只需要几天而不是几周的时间。
Physics-Informed Active Learning for Accelerating Quantum Chemical Simulations
Quantum chemical simulations can be greatly accelerated by constructing machine learning potentials, which is often done using active learning (AL). The usefulness of the constructed potentials is often limited by the high effort required and their insufficient robustness in the simulations. Here, we introduce the end-to-end AL for constructing robust data-efficient potentials with affordable investment of time and resources and minimum human interference. Our AL protocol is based on the physics-informed sampling of training points, automatic selection of initial data, uncertainty quantification, and convergence monitoring. The versatility of this protocol is shown in our implementation of quasi-classical molecular dynamics for simulating vibrational spectra, conformer search of a key biochemical molecule, and time-resolved mechanism of the Diels–Alder reaction. These investigations took us days instead of weeks of pure quantum chemical calculations on a high-performance computing cluster.
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.