| 2025 | RECOMB | DualGOFiller: A Dual-Channel Graph Neural Network with Contrastive Learning for Enhancing Function Prediction in Partially Annotated Proteins. | Shaojun Wang, Hancheng Liu, Weiqi Zhai, Shanfeng Zhu |
| 2024 | ECAI | VANER: Leveraging Large Language Model for Versatile and Adaptive Biomedical Named Entity Recognition. | Junyi Bian, Weiqi Zhai, Xiaodi Huang, Jiaxuan Zheng, Shanfeng Zhu |
| 2021 | ACL | GrantRel: Grant Information Extraction via Joint Entity and Relation Extraction. | Junyi Bian, Li Huang, Xiaodi Huang, Hong Zhou, Shanfeng Zhu |
| 2016 | IJCAI | A Robust Convex Formulation for Ensemble Clustering. | Junning Gao, Makoto Yamada, Samuel Kaski, Hiroshi Mamitsuka, Shanfeng Zhu |
| 2015 | DASFAA | Towards a Pattern-Based Query Language for Document Databases. | Xuhui Li, Zhengqi Liu, Mengchi Liu, Xiaoying Wu, Shanfeng Zhu |
| 2015 | IJCAI | Instance-Wise Weighted Nonnegative Matrix Factorization for Aggregating Partitions with Locally Reliable Clusters. | Xiaodong Zheng, Shanfeng Zhu, Junning Gao, Hiroshi Mamitsuka |
| 2013 | DASFAA | Document Summarization via Self-Present Sentence Relevance Model. | Xiaodong Li, Shanfeng Zhu, Haoran Xie, Qing Li |
| 2013 | KDD | Collaborative matrix factorization with multiple similarities for predicting drug-target interactions. | Xiaodong Zheng, Hao Ding, Hiroshi Mamitsuka, Shanfeng Zhu |
| 2011 | DEXA | Improving Stock Market Prediction by Integrating Both Market News and Stock Prices. | Xiaodong Li, Chao Wang, Jiawei Dong, Feng Wang, Xiaotie Deng, Shanfeng Zhu |
| 2010 | FAW | Top- | Qizhi Fang, Han Xiao, Shanfeng Zhu |
| 2007 | ECIR | A Probabilistic Model for Clustering Text Documents with Multiple Fields. | Shanfeng Zhu, Ichigaku Takigawa, Shuqin Zhang, Hiroshi Mamitsuka |
| 2005 | ECCB | A probabilistic model for mining implicit 'chemical compound-gene' relations from literature. | Shanfeng Zhu, Yasushi Okuno, Gozoh Tsujimoto, Hiroshi Mamitsuka |
| 2003 | COCOON | Approximate Rank Aggregation (Preliminary Version). | Xiaotie Deng, Qizhi Fang, Shanfeng Zhu |
| 2003 | IDEAL | Metasearch via Voting. | Shanfeng Zhu, Qizhi Fang, Xiaotie Deng, Weimin Zheng |
| 2001 | COCOON | Membership for Core of LP Games and Other Games. | Qizhi Fang, Shanfeng Zhu, Mao-cheng Cai, Xiaotie Deng |
| 2001 | ICCS | Parallel Models and Job Characterization for System Scheduling. | Xiaotie Deng, Horace Ho-Shing Ip, Ken C. K. Law, Jianping Li, Weimin Zheng, Shanfeng Zhu |
| 2001 | WISE | Using Online Relevance Feedback to Build Effective Personalized Metasearch Engine. | Shanfeng Zhu, Xiaotie Deng, Kang Chen, Weimin Zheng |