After joining OSU (PhD Research)

• Graph Embedding on Biomedical Networks: Methods, Applications, and Evaluations
  Xiang Yue, Zhen Wang, Jingong Huang, Srinivasan Parthasarathy, Soheil Moosavinasab, Yungui Huang, Simon M. Lin, Wen Zhang, Ping Zhang and Huan Sun
  Bioinformatics
  Code&Datasets

• SurfCon: Synonym Discovery on Privacy-Aware Clinical Data
  Zhen Wang, Xiang Yue, Soheil Moosavinasab, Yungui Huang, Simon Lin and Huan Sun
  The 25th ACM SIGKDD Conference on Knowledge Discovery and Data Mining 2019 (KDD 2019, research track, acceptance rate: ~110/~1200=9.2%, oral)
  Code | Slides

Before joining OSU (Undergraduate Research at WHU)

* indicates the student first author/major contribution

• SFPEL-LPI: Sequence-based Feature Projection Ensemble Learning for Predicting LncRNA-Protein Interactions
  Wen Zhang, Xiang Yue*, Guifeng Tang, Wenjian Wu, Feng Huang, Xining Zhang
  PLOS Computational Biology (14 (12): e1006616) (Top journal in bioinformatics)
  Web Server | Suppl Proof | Code&Dataset

• Predicting drug-disease associations by using similarity constrained matrix factorization
  Wen Zhang, Xiang Yue*, Weiran Lin, Wenjian Wu, Ruoqi Liu, Feng Huang, Feng Liu
  BMC Bioinformatics (2018 Vol 19:233)
  Web Server | Code&Datasets

• Predicting drug-disease associations and their therapeutic function based on the drug-disease association bipartite network
  Wen Zhang, Xiang Yue*, Feng Huang, Ruoqi Liu, Yanlin Chen, Feng Huang, Chunyang Ruan
  Methods (2018 Vol 145:51-59)

• Prediction of drug-disease associations based on ensemble meta paths and singular value decomposition
  Guangsheng Wu, Juan Liu and Xiang Yue
  The 17th Asia Pacific Bioinformatics Conference (APBC 2019) (regular paper, recommended to the journal BMC Bioinformatics)

• Prediction of drug-disease associations and their effects by signed network-based nonnegative matrix factorization
  Wen Zhang, Feng Huang, Xiang Yue, Xiaoting Lu, Weitai Yang, Zhishuai Li, and Feng Liu
  IEEE Internatinal Conference on Bioinformatics and Biomedicine 2018 (BIBM 2018) (short paper)

• Predicting drug-disease associations based on the known association bipartite network
  Wen Zhang, Xiang Yue, Yanlin Chen, Weiran Lin, Bolin Li, Feng Liu, Xiaohong Li
  IEEE Internatinal Conference on Bioinformatics and Biomedicine 2017 (BIBM 2017) (regular paper, acceptance rate: 79/414=19.0%)
  Slides

• Predicting small RNAs in bacteria via sequence learning ensemble method
  Wen Zhang, Jingwen Shi, Guifeng Tang, Wenjian Wu,Xiang Yue, Dingfang Li
  IEEE Internatinal Conference on Bioinformatics and Biomedicine 2017 (BIBM 2017) (short paper)
  Slides

• Sequence-based bacterial small RNAs prediction using ensemble learning strategies
  Guifeng Tang, Jingwen Shi, Wenjian Wu, Xiang Yue, Wen Zhang
  BMC Bioinformatics (2018 Vol 19 (Suppl 20):503)

• Manifold regularized matrix factorization for drug-drug interaction prediction
  Wen Zhang, Yanlin Chen, Dingfang Li, Xiang Yue
  Journal of Biomedical Informatics (2018 Vol 88: 90-97)

• A unified frame of predicting side effects of drugs by using linear neighborhood similarity
  Wen Zhang, Xiang Yue, Feng Liu, Yanlin Chen, Shikui Tu, Qianlong Qu, Xining Zhang
  BMC Systems Biology (2017 Vol 11 (Suppl 6) :101)

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