Integrating herb effect similarity for network-based herb target prediction. - Kuo Yang 001; Xuezhong Zhou; Runshun Zhang; Baoyan Liu; Lei Lei; Xiaoping Zhang; Hongwei Chu; Changkai Sun; Zhuye Gao; Hao Xu (BMEI, 2015)

Similarity-based algorithms for Disease Terminology Mapping. - Shiwen Ma; Kuo Yang 001; Xuezhong Zhou; Xue Xu; Wenwen Liu (BIBM, 2016)

Overlapping Functional Modules Detection in PPI Network with Pairwise Constrained Nonnegative Matrix Tri-Factorization. - Guangming Liu; Bianfang Chai; Kuo Yang 001; Xuezhong Zhou; Jian Yu 001 (BCB, 2017)

Heterogeneous network embedding for identifying symptom candidate genes. - Kuo Yang 001; Ning Wang 048; Guangming Liu; Ruyu Wang; Jian Yu 001; Runshun Zhang; Jianxin Chen; Xuezhong Zhou (J. Am. Medical Informatics Assoc., 2018)

Heterogeneous network propagation for herb target identification. - Kuo Yang 001; Guangming Liu; Ning Wang 048; Runshun Zhang; Jian Yu 001; Jianxin Chen; Xuezhong Zhou (BMC Medical Informatics Decis. Mak., 2018)

SymMap: an integrative database of traditional Chinese medicine enhanced by symptom mapping. - Yang Wu; Feilong Zhang; Kuo Yang 001; Shuangsang Fang; Dechao Bu; Hui Li 038; Liang Sun; Hairuo Hu; Kuo Gao; Wei Wang 269; Xuezhong Zhou; Yi Zhao 013; et al. (Nucleic Acids Res., 2019)

HerGePred: Heterogeneous Network Embedding Representation for Disease Gene Prediction. - Kuo Yang 001; Ruyu Wang; Guangming Liu; Zixin Shu; Ning Wang 048; Runshun Zhang; Jian Yu 001; Jianxin Chen; Xiaodong Li; Xuezhong Zhou (IEEE J. Biomed. Health Informatics, 2019)

Network-based gene prediction for TCM symptoms. - Yinyan Wang; Kuo Yang 001; Zixin Shu; Dengying Yan; Xuezhong Zhou (BIBM, 2020)

Disease phenotype synonymous prediction through network representation learning from PubMed database. - Shiwen Ma; Kuo Yang 001; Ning Wang 048; Qiang Zhu; Zhuye Gao; Runshun Zhang; Baoyan Liu; Xuezhong Zhou (Artif. Intell. Medicine, 2020)

Integrated network analysis of symptom clusters across disease conditions. - Kezhi Lu; Kuo Yang 001; Edouard Niyongabo; Zixin Shu; Jingjing Wang; Kai Chang; Qunsheng Zou; Jiyue Jiang; Caiyan Jia; Baoyan Liu; Xuezhong Zhou (J. Biomed. Informatics, 2020)

TCMPR: TCM Prescription recommendation based on subnetwork term mapping and deep learning. - Xin Dong 017; Yi Zheng; Zixin Shu; Kai Chang; Dengying Yan; Jianan Xia; Qiang Zhu; Kunyu Zhong; Xinyan Wang 002; Kuo Yang 001; Xuezhong Zhou (BIBM, 2021)

Phenonizer: A fine-grained phenotypic named entity recognizer for Chinese clinical texts. - Qunsheng Zou; Kuo Yang 001; Kai Chang; Xiaoping Zhang; Xiaodong Li; Xuezhong Zhou (BIBM, 2021)

RESurv: A Deep Survival Analysis Model to Reveal Population Heterogeneity by Individual Risk. - Qiguang Zheng; Qifan Shen; Xin Su 011; Kuo Yang 001; Zixin Shu; Xuezhong Zhou (BIBM, 2022)

Link Prediction based on Tensor Decomposition for the Knowledge Graph of COVID-19 Antiviral Drug. - Ting Jia; Yuxia Yang; Xi Lu; Qiang Zhu; Kuo Yang 001; Xuezhong Zhou (Data Intell., 2022)

PDGNet: Predicting Disease Genes Using a Deep Neural Network With Multi-View Features. - Kuo Yang 001; Yi Zheng; Kezhi Lu; Kai Chang; Ning Wang 048; Zixin Shu; Jian Yu 001; Baoyan Liu; Zhuye Gao; Xuezhong Zhou (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

Analysis of the effect of the interaction between medical and comorbidities on hospital readmission in patients with rheumatoid arthritis based on case data. - Lifeng Fa; Kuo Yang 001; Jinlong Yu; Ning Xu; Zhenzhen Han; Hongtao Guo; Lei Zhang (BIBM, 2023)

Application of constraint-based frequent closed itemsets Mining in TCM Clinical data Analysis. - Jinlong Yu; Lei Zhang; Ning Xu; Lifeng Fa; Kuo Yang 001 (BIBM, 2023)

A Pre-training Framework for Knowledge Graph Completion. - Kuan Xu; Kuo Yang 001; Hanyang Dong; Xinyan Wang 002; Xuezhong Zhou (CoRR, 2023)

Knowledge Graph Completion based on Tensor Decomposition for Disease Gene Prediction. - Xinyan Wang 002; Ting Jia; Chongyu Wang; Kuan Xu; Zixin Shu; Kuo Yang 001; Xuezhong Zhou (CoRR, 2023)

A optimization framework for herbal prescription planning based on deep reinforcement learning. - Kuo Yang 001; Zecong Yu; Xin Su 011; Xiong He; Ning Wang 048; Qiguang Zheng; Feidie Yu; Zhuang Liu; Tiancai Wen; Xuezhong Zhou (CoRR, 2023)

SympGAN: A systematic knowledge integration system for symptom-gene associations network. - Kezhi Lu; Kuo Yang 001; Hailong Sun 007; Qian Zhang; Qiguang Zheng; Kuan Xu; Jianxin Chen; Xuezhong Zhou (Knowl. Based Syst., 2023)

DRONet: effectiveness-driven drug repositioning framework using network embedding and ranking learning. - Kuo Yang 001; Yuxia Yang; Shuyue Fan; Jianan Xia; Qiguang Zheng; Xin Dong 017; Jun Liu; Qiong Liu; Lei Lei; Yingying Zhang; Bing Li; Zhuye Gao; et al. (Briefings Bioinform., 2023)

LMDTA: Molecular Pre-trained and Interaction Fine-tuned Attention Neural Network for Drug-Target Affinity Prediction. - Minjie Hu; Kuo Yang 001; Kuan Xu; Xuezhong Zhou (BIBM, 2024)

PresRecCD: A Novel Herbal Prescription Recommendation Framework with Cross-Domain Learning and Neural Collaborative Filtering. - Wansong Zhang; Xin Dong; Kuo Yang 001; Lei Zhang; Xinyu Wang; Rouye Huang; Runshun Zhang; Xuezhong Zhou (BIBM, 2024)

Benchmarking Biomedical Relation Knowledge in Large Language Models. - Fenghui Zhang; Kuo Yang 001; Chenqian Zhao; Haixu Li; Xin Dong 016; Haoyu Tian; Xuezhong Zhou (ISBRA (2), 2024)

HTINet2: herb-target prediction via knowledge graph embedding and residual-like graph neural network. - Pengbo Duan; Kuo Yang 001; Xin Su 011; Shuyue Fan; Xin Dong; Fenghui Zhang; Xianan Li; Xiaoyan Xing; Qiang Zhu; Jian Yu 001; Xuezhong Zhou (Briefings Bioinform., 2024)

KDGene: knowledge graph completion for disease gene prediction using interactional tensor decomposition. - Xinyan Wang 002; Kuo Yang 001; Ting Jia; Fanghui Gu; Chongyu Wang; Kuan Xu; Zixin Shu; Jianan Xia; Qiang Zhu; Xuezhong Zhou (Briefings Bioinform., 2024)

PresRecST: a novel herbal prescription recommendation algorithm for real-world patients with integration of syndrome differentiation and treatment planning. - Xin Dong 016; Chenxi Zhao; Xinpeng Song; Lei Zhang; Yu Liu; Jun Wu; Yiran Xu; Ning Xu; Jialing Liu; Haibin Yu; Kuo Yang 001; Xuezhong Zhou (J. Am. Medical Informatics Assoc., 2024)

DAPNet: multi-view graph contrastive network incorporating disease clinical and molecular associations for disease progression prediction. - Haoyu Tian; Xiong He; Kuo Yang 001; Xinyu Dai; Yiming Liu; Fengjin Zhang; Zixin Shu; Qiguang Zheng; Shihua Wang; Jianan Xia; Tiancai Wen; Baoyan Liu; et al. (BMC Medical Informatics Decis. Mak., 2024)

KGCRR: An Effective Metric-Driven Knowledge Graph Completion Framework by Designing a Novel Upper Bound Function with Adaptive Approximation to Reciprocal Rank. - Kuan Xu; Kuo Yang 001; Jian Liu; Xiangkui Lu; Jun Wu; Xuezhong Zhou (AAAI, 2025)