4 papers
Interpretable structural-semantic decoding reveals language-like organisation of regulatory information in DNA
Li Yang, Dongbo Wang
Decoding how linear DNA encodes regulatory information remains a central challenge. Existing decoding approaches lack interpretability and struggle to reveal the underlying coding…
A DNA-Centric Mechanism for Protein Targeting in 6mA Methylation
Li Yang, Dongbo Wang
How DNA-binding proteins locate specific genomic targets remains a central challenge in molecular biology. Traditional protein-centric approaches, which rely on wet-lab experiments…
Large Language Models as AI Agents for Digital Atoms and Molecules: Catalyzing a New Era in Computational Biophysics
Yijie Xia, Xiaohan Lin, Zicheng Ma +9
In computational biophysics, where molecular data is expanding rapidly and system complexity is increasing exponentially, large language models (LLMs) and agent-based systems are f…
Language-Inspired Modeling Reveals Redundant Encoding of N4-acetylcytidine(ac4C) Modifications in mRNA
Li Yang, Dongbo Wang
The ac4C modification on mRNA has been demonstrated to be associated with various diseases; however, its molecular mechanism remains unclear. The wet lab experiments produced relat…