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Language models in molecular discovery

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arxiv 2309.16235 v1 pith:JQZ6WO3N submitted 2023-09-28 physics.chem-ph cs.AIcs.CLcs.LGq-bio.BM

classification physics.chem-phcs.AIcs.CLcs.LGq-bio.BM
keywords languagemodelsdiscoverychemistrymoleculardesigndrugscientific
verification ladder T0 review T1 audit T2 compute T3 formal
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The success of language models, especially transformer-based architectures, has trickled into other domains giving rise to "scientific language models" that operate on small molecules, proteins or polymers. In chemistry, language models contribute to accelerating the molecule discovery cycle as evidenced by promising recent findings in early-stage drug discovery. Here, we review the role of language models in molecular discovery, underlining their strength in de novo drug design, property prediction and reaction chemistry. We highlight valuable open-source software assets thus lowering the entry barrier to the field of scientific language modeling. Last, we sketch a vision for future molecular design that combines a chatbot interface with access to computational chemistry tools. Our contribution serves as a valuable resource for researchers, chemists, and AI enthusiasts interested in understanding how language models can and will be used to accelerate chemical discovery.

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  1. SciToolAgent: A Knowledge Graph-Driven Scientific Agent for Multi-Tool Integration

    cs.AI 2025-07 conditional novelty 4.0 of 10

    SciToolAgent uses a knowledge graph of over 500 scientific tools to help LLMs select and chain tools, reaching 94% accuracy on a new 531-question benchmark.

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