Jian-Yu Shi

Publication Activity (10 Years)

Years Active: 2010-2024
Publications (10 Years): 24

Top Topics

Comprehensive Evaluation

Matrix Factorization

Top Venues

Briefings Bioinform.

Publications

Hui Yu, Jing Wang, Chao Song, Jian-Yu Shi
Identifying the reaction centers of molecule based on dual-view representation. Knowl. Based Syst. 292 (2024)
Hui Yu, Hui-Xiang Bian, Zi-Ling Chong, Zun Liu, Jian-Yu Shi
Multi-view clustering with semantic fusion and contrastive learning. Neurocomputing 603 (2024)
Hui Yu, Jing Wang, Shi-Yu Zhao, Omayo Silver, Zun Liu, JingTao Yao, Jian-Yu Shi
GGI-DDI: Identification for key molecular substructures by granule learning to interpret predicted drug-drug interactions. Expert Syst. Appl. 240 (2024)
Hui Yu, Wen-Xin Xu, Tian Tan, Zun Liu, Jian-Yu Shi
Prediction of drug-target binding affinity based on multi-scale feature fusion. Comput. Biol. Medicine 178 (2024)
Ning-Ning Wang, Bei Zhu, Xin-Liang Li, Shao Liu, Jian-Yu Shi, Dong-Sheng Cao
Comprehensive Review of Drug-Drug Interaction Prediction Based on Machine Learning: Current Status, Challenges, and Opportunities. J. Chem. Inf. Model. 64 (1) (2024)
Bing-Xue Du, Yahui Long, Xiaoli Li, Min Wu, Jian-Yu Shi
CMMS-GCL: cross-modality metabolic stability prediction with graph contrastive learning. Bioinform. 39 (8) (2023)
Xuan Lin, Lichang Dai, Yafang Zhou, Zu-Guo Yu, Wen Zhang, Jian-Yu Shi, Dong-Sheng Cao, Li Zeng, Haowen Chen, Bosheng Song, Philip S. Yu, Xiangxiang Zeng
Comprehensive evaluation of deep and graph learning on drug-drug interactions prediction. CoRR (2023)
Jia-Ning Li, Guang Yang, Peng-Cheng Zhao, Xue-Xin Wei, Jian-Yu Shi
CProMG: controllable protein-oriented molecule generation with desired binding affinity and drug-like properties. Bioinform. 39 (Supplement-1) (2023)
Bing-Xue Du, Haoyang Yu, Bei Zhu, Yahui Long, Min Wu, Jian-Yu Shi
GELKcat: An Integration Learning of Substrate Graph with Enzyme Embedding for Kcat prediction. BIBM (2023)
Qing-Qing Zhang, Shaowu Zhang, Yue-Hua Feng, Jian-Yu Shi
Few-Shot Drug Synergy Prediction With a Prior-Guided Hypernetwork Architecture. IEEE Trans. Pattern Anal. Mach. Intell. 45 (8) (2023)
Yue-Hua Feng, Shao-Wu Zhang, Yi-Yang Feng, Qing-Qing Zhang, Ming-Hui Shi, Jian-Yu Shi
A social theory-enhanced graph representation learning framework for multitask prediction of drug-drug interactions. Briefings Bioinform. 24 (1) (2023)
Xuan Lin, Lichang Dai, Yafang Zhou, Zu-Guo Yu, Wen Zhang, Jian-Yu Shi, Dong-Sheng Cao, Li Zeng, Haowen Chen, Bosheng Song, Philip S. Yu, Xiangxiang Zeng
Comprehensive evaluation of deep and graph learning on drug-drug interactions prediction. Briefings Bioinform. 24 (4) (2023)
Bing-Xue Du, Yi Xu, Siu-Ming Yiu, Hui Yu, Jian-Yu Shi
MTGL-ADMET: A Novel Multi-task Graph Learning Framework for ADMET Prediction Enhanced by Status-Theory and Maximum Flow. RECOMB (2023)
Zun Liu, Xing-Nan Wang, Hui Yu, Jian-Yu Shi, WenMin Dong
Predict multi-type drug-drug interactions in cold start scenario. BMC Bioinform. 23 (1) (2022)
Yi-Yang Feng, Hui Yu, Yue-Hua Feng, Jian-Yu Shi
Directed graph attention networks for predicting asymmetric drug-drug interactions. Briefings Bioinform. 23 (3) (2022)
Arnold K. Nyamabo, Hui Yu, Zun Liu, Jian-Yu Shi
Drug-drug interaction prediction with learnable size-adaptive molecular substructures. Briefings Bioinform. 23 (1) (2022)
Arnold K. Nyamabo, Hui Yu, Jian-Yu Shi
SSI-DDI: substructure-substructure interactions for drug-drug interaction prediction. Briefings Bioinform. 22 (6) (2021)
Yue-Hua Feng, Shaowu Zhang, Jian-Yu Shi
DPDDI: a deep predictor for drug-drug interactions. BMC Bioinform. 21 (1) (2020)
Jian-Yu Shi, Jia-Xin Li, Kui-Tao Mao, Jiang-Bo Cao, Peng Lei, Hui-Meng Lu, Siu-Ming Yiu
Predicting combinative drug pairs via multiple classifier system with positive samples only. Comput. Methods Programs Biomed. 168 (2019)
Jian-Yu Shi, Kui-Tao Mao, Hui Yu, Siu-Ming Yiu
Detecting drug communities and predicting comprehensive drug-drug interactions via balance regularized semi-nonnegative matrix factorization. J. Cheminformatics 11 (1) (2019)
Jian-Yu Shi, Hua Huang, Jia-Xin Li, Peng Lei, Yan-Ning Zhang, Kai Dong, Siu-Ming Yiu
TMFUF: a triple matrix factorization-based unified framework for predicting comprehensive drug-drug interactions of new drugs. BMC Bioinform. (14) (2018)
Hui Yu, Kui-Tao Mao, Jian-Yu Shi, Hua Huang, Zhi Chen, Kai Dong, Siu-Ming Yiu
Predicting and understanding comprehensive drug-drug interactions via semi-nonnegative matrix factorization. BMC Syst. Biol. 12 (1) (2018)
Jian-Yu Shi, Jia-Xin Li, Ke Gao, Peng Lei, Siu-Ming Yiu
Predicting combinative drug pairs towards realistic screening via integrating heterogeneous features. BMC Bioinform. 18 (S-12) (2017)
Jian-Yu Shi
The need of accelerators in analyzing biological networks. BIBM (2016)
Sheryl Brahnam, Loris Nanni, Jian-Yu Shi, Alessandra Lumini
Local Phase Quantization Texture Descriptor for Protein Classification. BIOCOMP (2010)