Areas of Focus
- Bioinformatics
- Drug-Drug Interaction Prediction
- Deep Learning in Biomedical Big Data
- Clinical Phenotype Analysis
Work Experience
- 2019-present: Professor, Department of Biomedical Engineering, School of Life Sciences, Doctoral Supervisor
- 2009-2019: Associate Professor, Department of Biomedical Engineering, School of Life Sciences
- 2012-2014: Visiting Scholar, Department of Computer Science, University of Hong Kong, Supervisor: Francis YL Chin
- 2007-2009: Postdoctoral Researcher, School of Computer Science, Northwestern Polytechnical University, Supervisor: Professor Yan Ning Zhang
Academic Background & Achievements
- 2002-2006: PhD in Pattern Recognition and Intelligent Systems, Northwestern Polytechnical University
- 1999-2002: Master in Aircraft Design, Northwestern Polytechnical University
- 1995-1999: Bachelor in Aircraft Design, Northwestern Polytechnical University
Publications
- MLGL-MP: A Multi-Label Graph Learning Framework enhanced by Pathway Inter-dependence for Metabolic Pathway Prediction, Jian-Yu Shi et al., 2022
- Directed Graph Attention Networks for Predicting Asymmetric Drug-Drug Interactions, Jian-Yu Shi et al., 2022
- Compound-protein interaction prediction by deep learning: databases, descriptors, and models, Jian-Yu Shi et al., 2022
- NNAN: Nearest Neighbor Attention Network to predict drug-microbe associations, Jian-Yu Shi et al., 2022
- Targets preliminary screening for the Fresh Natural Drug Molecule based on Cosine-correlation and Similarity-comparison of Local Network, Jian-Yu Shi et al., 2022
- RANEDDI: Relation-aware network embedding for drug-drug interaction prediction, Jian-Yu Shi et al., 2022
- Drug-drug Interaction Prediction with Learnable Size-Adaptive Molecular Substructures, Jian-Yu Shi et al., 2022
- SSI-DDI: Substructure-substructure interactions for drug-drug interaction prediction, Jian-Yu Shi et al., 2021
- DPDDI: a deep predictor for drug-drug interactions, Jian-Yu Shi et al., 2020
- Detecting Drug Communities and Predicting Comprehensive Drug-Drug Interactions via Balance Regularized Semi-Nonnegative Matrix Factorization, Jian-Yu Shi et al., 2019
Awards
- 2017: National Defense Technology Invention Award (First Prize), Rank 5, Issued by: Ministry of Industry and Information Technology
- 2010: 11th Shaanxi Province Natural Science Excellent Academic Paper Award (Second Prize), Rank 1, Issued by: Shaanxi Provincial People's Government
- 2009: 10th Shaanxi Province Natural Science Excellent Academic Paper Award (First Prize), Rank 5, Issued by: Shaanxi Provincial People's Government
