arXiv:2509.21861cs.LG2025-09被引 1

用光谱信息训练分子模型,实现从谱图反推结构、生成三维构象。

SpecMol: A Spectroscopy-Grounded Foundation Model for Multi-Task Molecular Learning

  • 融合光谱解析与分子表示学习,统一建模光谱与分子结构关系。
  • 在谱图转结构任务上准确还原核磁共振特征,优于现有通用模型。
  • 适合化学、药物研发人员用于结构推断与分子设计新范式。

大语言模型在分子科学中展现出巨大潜力,尤其在性质预测与分子设计方面。然而其在光谱分析领域的应用仍十分有限,尽管光谱是实验分子表征和结构验证的基础。光谱驱动的推理进展受限于缺乏标准化的光谱表示和全面评估协议,导致跨研究比较困难。为此,我们提出一个统一的光谱基础模型框架——SpecMol,集成光谱解读、分子表征学习与三维结构生成于单一界面。同时构建SpecMol-Bench评估基准,涵盖跨模态任务:谱图到结构解析、结构到谱图模拟、SMILES到3D构象生成。在该框架下,SpecMol能高精度实现光谱驱动的结构解析,复现实验核磁共振特征,并直接从SMILES生成化学有效的三维构象,在标准评估指标上持续优于现有通用分子语言模型。代码已开源。

原文摘要 · Abstract (English)

Large language models have emerged as transformative tools in molecular science, demonstrating remarkable potential in molecular property prediction and de novo molecular design. However, their application to spectroscopy remains notably limited, despite its foundational role in experimental molecular characterization and structural validation. Progress in spectroscopy-grounded reasoning has been hindered by the lack of standardized spectral representations and comprehensive evaluation protocols, making cross-study comparisons difficult. To bridge this gap, we present a unified framework for spectroscopy-grounded molecular modeling and evaluation. At its core, the SpecMol foundation model integrates spectral interpretation, molecular representation learning, and three-dimensional structure generation within a single interface. Complementing this, we establish SpecMol-Bench as a systematic evaluation protocol encompassing cross-modal tasks: spectra-to-structure elucidation, structure-to-spectra simulation, and SMILES-to-3D conformation generation. Under this unified framework, SpecMol achieves accurate spectra-driven structure elucidation and reproduces experimental nuclear magnetic resonance characteristics with high fidelity. The model also generates chemically valid three-dimensional conformations directly from SMILES strings and consistently outperforms existing general-purpose molecular language models across standardized evaluation metrics. Code is available at https://github.com/Eurekashen/SpecMol

分子建模光谱分析生成模型化学AI

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