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Genome Medicine|December 2, 2025
PathHDNN: a pathway hierarchical-informed deep neural network framework for predicting immunotherapy response and mechanism interpretationXiangmei Li, Bingyue Pan, Yalan He, et al.Advanced Science (Weinheim, Baden-Wurttemberg, Germany)|November 5, 2024
CITMIC: Comprehensive Estimation of Cell Infiltration in Tumor Microenvironment based on Individualized Intercellular CrosstalkXilong Zhao, Jiashuo Wu, Jiyin Lai, et al.Computers in Biology and Medicine|April 27, 2023
DTSEA: A network-based drug target set enrichment analysis method for drug repurposing against COVID-19Yinchun Su, Jiashuo Wu, Xiangmei Li, et al.Briefings in Bioinformatics|May 27, 2024
IDMIR: identification of dysregulated miRNAs associated with disease based on a miRNA-miRNA interaction network constructed through gene expression dataJiashuo Wu, Xilong Zhao, Yalan He, et al.Journal of Translational Medicine|May 9, 2025
ProgModule: A novel computational framework to identify mutation driver modules for predicting cancer prognosis and immunotherapy responseXiangmei Li, Bingyue Pan, Xilong Zhao, et al.Gigascience|December 20, 2023
DrugSim2DR: systematic prediction of drug functional similarities in the context of specific disease for drug repurposingJiashuo Wu, Ji Li, Yalan He, et al.Science Advances|June 10, 2026
PathTIGR: A pathway topology-informed graph representation learning framework for immunotherapy response predictionXiangmei Li, Yalan He, Jiashuo Wu, et al.Molecular Therapy. Nucleic Acids|September 25, 2023
PathwayTMB: A pathway-based tumor mutational burden analysis method for predicting the clinical outcome of cancer immunotherapyXiangmei Li, Yalan He, Ying Jiang, et al.Gigascience|December 20, 2024
ssMutPA: single-sample mutation-based pathway analysis approach for cancer precision medicineYalan He, Jiyin Lai, Qian Wang, et al.Journal of Chemical Information and Modeling|March 26, 2025
Knowledge-Based Artificial Intelligence System for Drug PrioritizationYinchun Su, Jiashuo Wu, Xilong Zhao, et al.Pageof 1