5 papers
Knowledge-Augmented Long-CoT Generation for Complex Biomolecular Reasoning
Tianwen Lyu, Xiang Zhuang, Keyan Ding +5
Understanding complex biomolecular mechanisms requires multi-step reasoning across molecular interactions, signaling cascades, and metabolic pathways. While large language models(L…
Breaking the Modality Barrier: Generative Modeling for Accurate Molecule Retrieval from Mass Spectra
Yiwen Zhang, Keyan Ding, Yihang Wu +4
Retrieving molecular structures from tandem mass spectra is a crucial step in rapid compound identification. Existing retrieval methods, such as traditional mass spectral library m…
SciToolAgent: A Knowledge Graph-Driven Scientific Agent for Multi-Tool Integration
Keyan Ding, Jing Yu, Junjie Huang +3
Scientific research increasingly relies on specialized computational tools, yet effectively utilizing these tools demands substantial domain expertise. While Large Language Models…
Enhancing Safe and Controllable Protein Generation via Knowledge Preference Optimization
Yuhao Wang, Keyan Ding, Kehua Feng +5
Protein language models have emerged as powerful tools for sequence generation, offering substantial advantages in functional optimization and denovo design. However, these models…
Boosting LLM's Molecular Structure Elucidation with Knowledge Enhanced Tree Search Reasoning
Xiang Zhuang, Bin Wu, Jiyu Cui +6
Molecular structure elucidation involves deducing a molecule's structure from various types of spectral data, which is crucial in chemical experimental analysis. While large langua…