A pioneering multi-modal framework with TCR-peptide-HLA sequence and structure features incorporating an attention mechanism designed to accurately identify tumor antigens with immunogenic properties, which presents a brand-new and promising approach for cancer immunotherapies that target tumor antigens.
The results indicate that this fully automated, open-source system holds potential value for improving the efficiency and sustainability of molecular synthesis, and the integration of organic and enzymatic synthesis enhances molecule construction efficiency.
LiTEN achieves state-of-the-art accuracy on standard benchmarks, consistently outperforming leading approaches in both precision and speed, and enables comprehensive modeling tasks, ranging from geometry optimization to free energy surface construction, with high computational efficiency for large biomolecules.
Qun Su, Kai Zhu, Qiaolin Gou et al.· Nature Communications· 2 citations
The authors develop mRNABERT, a foundational AI model that designs entire mRNA sequences and demonstrates superior performance across comprehensive benchmarks, which signifies a substantial leap forward in mRNA research and therapeutic development.
Ying Xiong, Aowen Wang, Yu Kang et al.· Nature Communications· 23 citations· ⚡1
OmniMol is presented, a framework using hypergraphs to improve predictions of molecular properties, addressing challenges of imperfect data annotation and enhancing model explainability, and achieves state-of-the-art performance in properties prediction.
Token-Mol is presented, a token-only 3D drug design model that encodes both 2D and 3D structural information, along with molecular properties, into discrete tokens, which introduces a Gaussian cross-entropy loss function tailored for regression tasks, enabling superior performance across multiple downstream application...
Ji-Ke Wang, Rui Qin, Mingyang Wang et al.· Nature Communications· 30 citations· ⚡1
It is demonstrated that linker-free PROTACs can outperform traditional designs, marking a paradigm shift in PROTAC development for targeted protein degradation.
A committor-based method that promotes frequent transitions between the metastable states of the system and allows extensive sampling of the process transition state ensemble and highlights the advantages of a graph-based approach in describing the role of solvent molecules in systems, such as ion pair dissociation or...
Peilin Kang, Jin-Tu Zhang, Enrico Trizio et al.· Journal of Chemical Theory a...· 7 citations
A deep learning framework that integrates knowledge graph embedding and pre-training strategies to overcome the intractable cold start issue, achieving superior performance and interpretability in drug repurposing is introduced.
Kun Li, Jiacai Yi, Qing Ye et al.· Communications Chemistry· 1 citation
A comprehensive overview of how enhanced sampling methods are reshaping the field, with a particular focus on the data-driven construction of collective variables, is provided.
Kai Zhu, Enrico Trizio, Jintu Zhang et al.· Chemical Reviews· 58 citations
HiCLR is the first foundation model that can be broadly applied to various synthesis-related tasks, and it achieves state-of-the-art performance in reaction classification, reaction condition recommendation, reaction yield prediction, synthesis planning, and even molecular property prediction.
Jialu Wu, Yiheng Zhu, Xiaorui Wang et al.· JACS Au· 0 citations
RSGPT, a generative model pre-trained on ten billion data points, achieving state-of-the-art performance for synthesis planning, and introduces reinforcement learning to capture the relationships among products, reactants, and templates more accurately.
Yafeng Deng, Xinda Zhao, Hanyu Sun et al.· Nature Communications· 18 citations· ⚡2
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