CRISPR-GPT for Agentic Automation of Gene-editing Experiments
Mihir Shah Xiaotong Wang Russ B. Altman Le Cong Henry C. Cousins William A. Johnson Denny Zhou Mengdi Wang Yuanhao Qu Kaixuan Huang Ming Yin Kanghong Zhan Dyllan Liu Di Yin
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Abstract
The introduction of genome engineering technology has transformed biomedical research, making it possible to make precise changes to genetic information. However, creating an efficient gene-editing system requires a deep understanding of CRISPR technology, and the complex experimental systems under investigation. While Large Language Models (LLMs) have shown promise in various tasks, they often lack specific knowledge and struggle to accurately solve biological design problems. In this work, we introduce CRISPR-GPT, an LLM agent augmented with domain knowledge and external tools to automate and enhance the design process of CRISPR-based gene-editing experiments. CRISPR-GPT leverages the reasoning ability of LLMs to facilitate the process of selecting CRISPR systems, designing guide RNAs, recommending cellular delivery methods, drafting protocols, and designing validation experiments to confirm editing outcomes. We showcase the potential of CRISPR-GPT for assisting non-expert researchers with gene-editing experiments from scratch and validate the agent's effectiveness in a real-world use case. Furthermore, we explore the ethical and regulatory considerations associated with automated gene-editing design, highlighting the need for responsible and transparent use of these tools. Our work aims to bridge the gap between beginner biological researchers and CRISPR genome engineering techniques, and demonstrate the potential of LLM agents in facilitating complex biological discovery tasks. The published version of this draft is available at https://www.nature.com/articles/s41551-025-01463-z.引用本文复制引用
Mihir Shah,Xiaotong Wang,Russ B. Altman,Le Cong,Henry C. Cousins,William A. Johnson,Denny Zhou,Mengdi Wang,Yuanhao Qu,Kaixuan Huang,Ming Yin,Kanghong Zhan,Dyllan Liu,Di Yin.CRISPR-GPT for Agentic Automation of Gene-editing Experiments[EB/OL].(2025-08-21)[2025-12-23].https://arxiv.org/abs/2404.18021.学科分类
生物科学研究方法、生物科学研究技术/生物科学理论、生物科学方法/自动化技术、自动化技术设备
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