| 2022 | ICMLA | Clustering image data with a fixed embedding. | Yan-Bin Chen, Khong-Loon Tiong, Chen-Hsiang Yeang |
| 2010 | ICMLA | A Probabilistic Graphical Model of Quantum Systems. | Chen-Hsiang Yeang |
| 2010 | WABI | Quantifying the Strength of Natural Selection of a Motif Sequence. | Chen-Hsiang Yeang |
| 2009 | PSB | Inferring Disease-Related Pathways Using A Probabilistic Epistasis Model. | Pinal N. Kanabar, Charles J. Vaske, Chen-Hsiang Yeang, Fitnat H. Yildiz, Joshua M. Stuart |
| 2006 | RECOMB | Detecting the Dependent Evolution of Biosequences. | Jeremy Darot, Chen-Hsiang Yeang, David Haussler |
| 2005 | RECOMB | Modeling the Combinatorial Functions of Multiple Transcription Factors. | Chen-Hsiang Yeang, Tommi S. Jaakkola |
| 2003 | BIBE | Time Series Analysis of Gene Expression and Location Data. | Chen-Hsiang Yeang, Tommi S. Jaakkola |
| 2003 | RECOMB | Physical network models and multi-source data integration. | Chen-Hsiang Yeang, Tommi S. Jaakkola |
| 2003 | UAI | Markov Random Walk Representations with Continuous Distributions. | Chen-Hsiang Yeang, Martin Szummer |
| 2001 | ISMB | Molecular classification of multiple tumor types. | Chen-Hsiang Yeang, Sridhar Ramaswamy, Pablo Tamayo, Sayan Mukherjee, Ryan M. Rifkin, Michael Angelo, Michael Reich, Eric S. Lander, Jill P. Mesirov, Todd R. Golub |