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Updated: Sep 10, 2025

A Web Tool for Generating High Quality Machine-readable Biological Pathways
Published on: February 8, 2017
Large language model guided automated reaction pathway exploration
Ruzhao Chen1, Yubang Liu1, Zhe Chen1
1School of Materials Science and Engineering, PCFM Lab, the Key Laboratory of Low-carbon Chemistry & Energy Conservation of Guangdong Province, Sun Yat-sen University, Guangzhou, P. R. China.
Abstract:
Fast and efficient automated exploration of reaction pathways is essential for studying reaction mechanisms and advancing data-driven approaches for reaction development and catalyst design. Here, we present a new program (utilizing Python and Fortran), capable of conducting automated, fast, and efficient exploration of reaction pathways for potential energy surfaces (PES) studies. This program integrates quantum mechanics and rule-based methodologies, underpinned by a Large Language Model-assisted chemical logic. Both active-learning methods in transition states sampling and parallel multi-step reaction searches with efficient filtering help enhance efficiency and accelerate PES searching. Its effectiveness and versatility in automating searches are exemplified through case studies of multi-step reactions, including the organic cycloaddition reaction, asymmetric Mannich-type reaction, and organometallic Pt-catalyzed reaction. ARplorer's capability to scale up for high-throughput screening significantly enhances its utility, positioning it as an efficient tool for data-driven reaction development and catalyst design.
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