Toward Automated Simulation Research Workflow through LLM Prompt Engineering Design.

IF 5.6 2区 化学 Q1 CHEMISTRY, MEDICINAL Journal of Chemical Information and Modeling Pub Date : 2025-01-13 Epub Date: 2024-12-30 DOI:10.1021/acs.jcim.4c01653
Zhihan Liu, Yubo Chai, Jianfeng Li
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Abstract

The advent of Large Language Models (LLMs) has created new opportunities for the automation of scientific research spanning both experimental processes and computational simulations. This study explores the feasibility of constructing an autonomous simulation agent (ASA) powered by LLMs through prompt engineering and automated program design to automate the entire simulation research process according to a human-provided research plan. This process includes experimental design, remote upload and simulation execution, data analysis, and report compilation. Using a well-studied simulation problem of polymer chain conformations as a test case, we assessed the long-task completion and reliability of ASAs powered by different LLMs, including GPT-4o, Claude-3.5, etc. Our findings revealed that ASA-GPT-4o achieved near-flawless execution on designated research missions, underscoring the potential of methods like ASA to achieve automation in simulation research processes to enhance research efficiency. The outlined automation can be iteratively performed for up to 20 cycles without human intervention, illustrating the potential of ASA for long-task workflow automation. Additionally, we discussed the intrinsic traits of ASA in managing extensive tasks, focusing on self-validation mechanisms, and the balance between local attention and global oversight.

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通过 LLM Prompt Engineering Design 实现自动化仿真研究工作流程。
大型语言模型(llm)的出现为跨越实验过程和计算模拟的科学研究自动化创造了新的机会。本研究探讨了通过快速工程和自动化程序设计,构建一个由llm驱动的自主仿真代理(ASA)的可行性,以根据人类提供的研究计划自动化整个仿真研究过程。该过程包括实验设计、远程上传和仿真执行、数据分析和报告编写。以聚合物链构象的模拟问题为例,我们评估了由不同llm(包括gpt - 40、Claude-3.5等)驱动的asa的长期任务完成情况和可靠性。我们的研究结果显示,ASA- gpt - 40在指定的研究任务中实现了近乎完美的执行,强调了ASA等方法在模拟研究过程中实现自动化以提高研究效率的潜力。概述的自动化可以在没有人工干预的情况下迭代执行多达20个周期,这说明了ASA在长任务工作流自动化方面的潜力。此外,我们还讨论了ASA在管理广泛任务方面的内在特征,重点关注自我验证机制,以及局部关注和全球监督之间的平衡。
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来源期刊
CiteScore
9.80
自引率
10.70%
发文量
529
审稿时长
1.4 months
期刊介绍: The Journal of Chemical Information and Modeling publishes papers reporting new methodology and/or important applications in the fields of chemical informatics and molecular modeling. Specific topics include the representation and computer-based searching of chemical databases, molecular modeling, computer-aided molecular design of new materials, catalysts, or ligands, development of new computational methods or efficient algorithms for chemical software, and biopharmaceutical chemistry including analyses of biological activity and other issues related to drug discovery. Astute chemists, computer scientists, and information specialists look to this monthly’s insightful research studies, programming innovations, and software reviews to keep current with advances in this integral, multidisciplinary field. As a subscriber you’ll stay abreast of database search systems, use of graph theory in chemical problems, substructure search systems, pattern recognition and clustering, analysis of chemical and physical data, molecular modeling, graphics and natural language interfaces, bibliometric and citation analysis, and synthesis design and reactions databases.
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