通过主动学习微调图神经网络:释放在非水系统上训练的图神经网络用于水溶二氧化碳还原的潜力。

IF 5.5 1区 化学 Q2 CHEMISTRY, PHYSICAL
Journal of Chemical Theory and Computation Pub Date : 2025-03-25 Epub Date: 2025-03-14 DOI:10.1021/acs.jctc.5c00089
Zihao Jiao, Yu Mao, Ruihu Lu, Ya Liu, Liejin Guo, Ziyun Wang
{"title":"通过主动学习微调图神经网络:释放在非水系统上训练的图神经网络用于水溶二氧化碳还原的潜力。","authors":"Zihao Jiao, Yu Mao, Ruihu Lu, Ya Liu, Liejin Guo, Ziyun Wang","doi":"10.1021/acs.jctc.5c00089","DOIUrl":null,"url":null,"abstract":"<p><p>Graph neural networks (GNNs) have revolutionized catalysis research with their efficiency and accuracy in modeling complex chemical interactions. However, adapting GNNs trained on nonaqueous data sets to aqueous systems poses notable challenges due to intricate water interactions. In this study, we proposed an active learning-based fine-tuning approach to extend the applicability of GNNs to aqueous environments. The geometry optimization and transition state search workflows are designed to reduce computational costs while maintaining DFT-level accuracy. Applied to the CO<sub>2</sub> reduction reaction, the workflow delivers a 2-3-fold acceleration in geometry optimization through a relaxed force threshold combined with DFT refinement. The versatility of the transition state search algorithm was demonstrated on key C-C coupling pathways, pinpointing *CO-*COH as the most energetically favorable pathway in aqueous systems of Cu and Cu-based Ag, Au, and Zn alloys. The Brønsted-Evans-Polanyi relationship remains robust under water-induced fluctuations, with alloyed metals such as Al, Ga, and Pd, along with Ag, Au, and Zn, exhibiting coupling efficiency comparable to that of Cu. Additionally, perturbation-based training on forces and energies extends the application of GNNs to aqueous ab initio molecular dynamics simulations, enabling efficient modeling of dynamical trajectories. This work presents novel approaches to adapting nonaqueous models for application in aqueous systems, highlighting GNNs' potential in solvated environments and laying a foundation for accelerating predictions of catalytic mechanisms under realistic conditions.</p>","PeriodicalId":45,"journal":{"name":"Journal of Chemical Theory and Computation","volume":" ","pages":"3176-3186"},"PeriodicalIF":5.5000,"publicationDate":"2025-03-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Fine-Tuning Graph Neural Networks via Active Learning: Unlocking the Potential of Graph Neural Networks Trained on Nonaqueous Systems for Aqueous CO<sub>2</sub> Reduction.\",\"authors\":\"Zihao Jiao, Yu Mao, Ruihu Lu, Ya Liu, Liejin Guo, Ziyun Wang\",\"doi\":\"10.1021/acs.jctc.5c00089\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p>Graph neural networks (GNNs) have revolutionized catalysis research with their efficiency and accuracy in modeling complex chemical interactions. However, adapting GNNs trained on nonaqueous data sets to aqueous systems poses notable challenges due to intricate water interactions. In this study, we proposed an active learning-based fine-tuning approach to extend the applicability of GNNs to aqueous environments. The geometry optimization and transition state search workflows are designed to reduce computational costs while maintaining DFT-level accuracy. Applied to the CO<sub>2</sub> reduction reaction, the workflow delivers a 2-3-fold acceleration in geometry optimization through a relaxed force threshold combined with DFT refinement. The versatility of the transition state search algorithm was demonstrated on key C-C coupling pathways, pinpointing *CO-*COH as the most energetically favorable pathway in aqueous systems of Cu and Cu-based Ag, Au, and Zn alloys. The Brønsted-Evans-Polanyi relationship remains robust under water-induced fluctuations, with alloyed metals such as Al, Ga, and Pd, along with Ag, Au, and Zn, exhibiting coupling efficiency comparable to that of Cu. Additionally, perturbation-based training on forces and energies extends the application of GNNs to aqueous ab initio molecular dynamics simulations, enabling efficient modeling of dynamical trajectories. This work presents novel approaches to adapting nonaqueous models for application in aqueous systems, highlighting GNNs' potential in solvated environments and laying a foundation for accelerating predictions of catalytic mechanisms under realistic conditions.</p>\",\"PeriodicalId\":45,\"journal\":{\"name\":\"Journal of Chemical Theory and Computation\",\"volume\":\" \",\"pages\":\"3176-3186\"},\"PeriodicalIF\":5.5000,\"publicationDate\":\"2025-03-25\",\"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://doi.org/10.1021/acs.jctc.5c00089\",\"RegionNum\":1,\"RegionCategory\":\"化学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"2025/3/14 0:00:00\",\"PubModel\":\"Epub\",\"JCR\":\"Q2\",\"JCRName\":\"CHEMISTRY, PHYSICAL\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Chemical Theory and Computation","FirstCategoryId":"92","ListUrlMain":"https://doi.org/10.1021/acs.jctc.5c00089","RegionNum":1,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2025/3/14 0:00:00","PubModel":"Epub","JCR":"Q2","JCRName":"CHEMISTRY, PHYSICAL","Score":null,"Total":0}
引用次数: 0

摘要

图神经网络(GNNs)在模拟复杂化学相互作用方面的效率和准确性彻底改变了催化研究。然而,由于复杂的水相互作用,将在非水数据集上训练的gnn应用于水系统面临着显著的挑战。在这项研究中,我们提出了一种基于主动学习的微调方法来扩展gnn在水环境中的适用性。几何优化和过渡状态搜索工作流旨在降低计算成本,同时保持dft级精度。应用于二氧化碳还原反应,该工作流程通过放宽力阈值并结合DFT细化,在几何优化方面提供了2-3倍的加速。在关键的C-C耦合途径上证明了过渡态搜索算法的通用性,确定了*CO-*COH是Cu和Cu基Ag、Au和Zn合金水体系中能量最有利的途径。Brønsted-Evans-Polanyi关系在水引起的波动下仍然稳固,合金金属如Al、Ga和Pd,以及Ag、Au和Zn表现出与Cu相当的耦合效率。此外,基于微扰的力和能量训练扩展了gnn在水溶液从头算分子动力学模拟中的应用,使动态轨迹的有效建模成为可能。这项工作提出了将非水模型应用于水系统的新方法,突出了gnn在溶剂化环境中的潜力,并为在现实条件下加速预测催化机制奠定了基础。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Fine-Tuning Graph Neural Networks via Active Learning: Unlocking the Potential of Graph Neural Networks Trained on Nonaqueous Systems for Aqueous CO2 Reduction.

Graph neural networks (GNNs) have revolutionized catalysis research with their efficiency and accuracy in modeling complex chemical interactions. However, adapting GNNs trained on nonaqueous data sets to aqueous systems poses notable challenges due to intricate water interactions. In this study, we proposed an active learning-based fine-tuning approach to extend the applicability of GNNs to aqueous environments. The geometry optimization and transition state search workflows are designed to reduce computational costs while maintaining DFT-level accuracy. Applied to the CO2 reduction reaction, the workflow delivers a 2-3-fold acceleration in geometry optimization through a relaxed force threshold combined with DFT refinement. The versatility of the transition state search algorithm was demonstrated on key C-C coupling pathways, pinpointing *CO-*COH as the most energetically favorable pathway in aqueous systems of Cu and Cu-based Ag, Au, and Zn alloys. The Brønsted-Evans-Polanyi relationship remains robust under water-induced fluctuations, with alloyed metals such as Al, Ga, and Pd, along with Ag, Au, and Zn, exhibiting coupling efficiency comparable to that of Cu. Additionally, perturbation-based training on forces and energies extends the application of GNNs to aqueous ab initio molecular dynamics simulations, enabling efficient modeling of dynamical trajectories. This work presents novel approaches to adapting nonaqueous models for application in aqueous systems, highlighting GNNs' potential in solvated environments and laying a foundation for accelerating predictions of catalytic mechanisms under realistic conditions.

求助全文
通过发布文献求助,成功后即可免费获取论文全文。 去求助
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.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
copy
已复制链接
快去分享给好友吧!
我知道了
右上角分享
点击右上角分享
0
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:604180095
Book学术官方微信