| 2021 | ICIG | Orthogonal Dual Graph Regularized Nonnegative Matrix Factorization. | Jinrong He, Yanxin Shi, Zongwen Bai, Zeyu Bao |
| 2014 | KDD | Practical Lessons from Predicting Clicks on Ads at Facebook. | Xinran He, Junfeng Pan, Ou Jin, Tianbing Xu, Bo Liu, Tao Xu, Yanxin Shi, Antoine Atallah, Ralf Herbrich, Stuart Bowers, Joaquin Quionero Candela |
| 2011 | SIGIR | A large scale machine learning system for recommending heterogeneous content in social networks. | Yanxin Shi, David Ye, Andrey Goder, Srinivas Narayanan |
| 2008 | RECOMB | A Combined Expression-Interaction Model for Inferring the Temporal Activity of Transcription Factors. | Yanxin Shi, Itamar Simon, Tom M. Mitchell, Ziv Bar-Joseph |
| 2007 | IJCAI | A Dual-layer CRFs Based Joint Decoding Method for Cascaded Segmentation and Labeling Tasks. | Yanxin Shi, Mengqiu Wang |
| 2007 | ISMB | Continuous hidden process model for time series expression experiments. | Yanxin Shi, Michael Klutstein, Itamar Simon, Tom M. Mitchell, Ziv Bar-Joseph |
| 2007 | RECOMB | GIMscan: A New Statistical Method for Analyzing Whole-Genome Array CGH Data. | Yanxin Shi, Fan Guo, Wei Wu, Eric P. Xing |
| 2006 | ICMI | Combining audio and video to predict helpers' focus of attention in multiparty remote collaboration on physical tasks. | Jiazhi Ou, Yanxin Shi, Jeffrey Wong, Susan R. Fussell, Jie Yang |