Multimodal reasoning based on knowledge graph embedding for specific diseases. - Chaoyu Zhu; Zhihao Yang; Xiaoqiong Xia; Nan Li; Fan Zhong 002; Lei Liu 054 (Bioinform., 2022)

MDTips: a multimodal-data-based drug-target interaction prediction system fusing knowledge, gene expression profile, and structural data. - Xiaoqiong Xia; Chaoyu Zhu; Fan Zhong 002; Lei Liu 054 (Bioinform., 2023)

TransCDR: a deep learning model for enhancing the generalizability of cancer drug response prediction through transfer learning and multimodal data fusion for drug representation. - Xiaoqiong Xia; Chaoyu Zhu; Yuqi Shan; Fan Zhong 002; Lei Liu 054 (CoRR, 2023)

RDKG-115: Assisting drug repurposing and discovery for rare diseases by trimodal knowledge graph embedding. - Chaoyu Zhu; Xiaoqiong Xia; Nan Li; Fan Zhong 002; Zhihao Yang; Lei Liu 054 (Comput. Biol. Medicine, 2023)

A comparison of scRNA-seq annotation methods based on experimentally labeled immune cell subtype dataset. - Qiqing Fu; Chenyu Dong; Yunhe Liu; Xiaoqiong Xia; Gang Liu; Fan Zhong 002; Lei Liu 054 (Briefings Bioinform., 2024)

SciSt: single-cell reference-informed spatial gene expression prediction from pathological images. - Yixin Li; Fan Zhong 002; Lei Liu 054 (Briefings Bioinform., 2025)

EnTao-GPM: DNA Foundation Model for Predicting the Germline Pathogenic Mutations. - Zekai Lin; Haoran Sun; Yucheng Guo; Yujie Yang; Yanwen Wang; Bozhen Hu; Chonghang Ye; Qirong Yang; Fan Zhong 002; Xiaoming Zhang; Lei Liu 054 (CoRR, 2025)

Learning to Seek Evidence: A Verifiable Reasoning Agent with Causal Faithfulness Analysis. - Yuhang Huang; Zekai Lin; Fan Zhong 002; Lei Liu 054 (CoRR, 2025)

Uncovering latent biological function associations through gene set embeddings. - Yuhang Huang; Fan Zhong 002; Lei Liu 054 (BMC Bioinform., 2025)

Computational identification of FOXP3-associated spatial prognostic markers in HCC via digital pathology. - Yixin Li; Fan Zhong 002; Lei Liu 054 (Comput. Methods Programs Biomed., 2026)