Molecular classification of multiple tumor types. - Chen-Hsiang Yeang; Sridhar Ramaswamy; Pablo Tamayo; Sayan Mukherjee 001; Ryan M. Rifkin; Michael Angelo; Michael Reich; Eric S. Lander; Jill P. Mesirov; Todd R. Golub (ISMB (Supplement of Bioinformatics), 2001)

An Information Geometric Perspective on Active Learning. - Chen-Hsiang Yeang (ECML, 2002)

Physical network models and multi-source data integration. - Chen-Hsiang Yeang; Tommi S. Jaakkola (RECOMB, 2003)

Markov Random Walk Representations with Continuous Distributions. - Chen-Hsiang Yeang; Martin Szummer (UAI, 2003)

An Analytical Method for Multiclass Molecular Cancer Classification. - Ryan M. Rifkin; Sayan Mukherjee 001; Pablo Tamayo; Sridhar Ramaswamy; Chen-Hsiang Yeang; Michael Angelo; Michael Reich; Tomaso A. Poggio; Eric S. Lander; Todd R. Golub; Jill P. Mesirov (SIAM Rev., 2003)

Physical Network Models. - Chen-Hsiang Yeang; Trey Ideker; Tommi S. Jaakkola (J. Comput. Biol., 2004)

Time Series Analysis of Gene Expression and Location Data. - Chen-Hsiang Yeang; Tommi S. Jaakkola (Int. J. Artif. Intell. Tools, 2005)

Game Theoretic Algorithms for Protein-DNA binding. - Luis Pérez-Breva; Luis E. Ortiz; Chen-Hsiang Yeang; Tommi S. Jaakkola (NIPS, 2006)

Detecting the Dependent Evolution of Biosequences. - Jeremy Darot; Chen-Hsiang Yeang; David Haussler (RECOMB, 2006)

A joint model of regulatory and metabolic networks. - Chen-Hsiang Yeang; Martin Vingron (BMC Bioinform., 2006)

Modeling the Combinatorial Functions of Multiple Transcription Factors. - Chen-Hsiang Yeang; Tommi S. Jaakkola (J. Comput. Biol., 2006)

Detecting Coevolution in and among Protein Domains. - Chen-Hsiang Yeang; David Haussler (PLoS Comput. Biol., 2007)

Evolution of Domain Compositions in the Metabolic Networks of Human and Escherichia Coli. - Chen-Hsiang Yeang; Nils A. Baas (BIOCOMP, 2009)

Analysis of the Bipartite Networks of Domain Compositions and Metabolic Reactions. - Chen-Hsiang Yeang (BMEI, 2009)

Inferring Disease-Related Pathways Using A Probabilistic Epistasis Model. - Pinal N. Kanabar; Charles J. Vaske; Chen-Hsiang Yeang; Fitnat H. Yildiz; Joshua M. Stuart (Pacific Symposium on Biocomputing, 2009)

A Factor Graph Nested Effects Model To Identify Networks from Genetic Perturbations. - Charles J. Vaske; Carrie House; Truong Luu; Bryan Frank; Chen-Hsiang Yeang; Norman H. Lee; Joshua M. Stuart (PLoS Comput. Biol., 2009)

Exact Loopy Belief Propagation on Euler Graphs. - Chen-Hsiang Yeang (IC-AI, 2010)

A Probabilistic Graphical Model of Quantum Systems. - Chen-Hsiang Yeang (ICMLA, 2010)

Quantifying the Strength of Natural Selection of a Motif Sequence. - Chen-Hsiang Yeang (WABI, 2010)

An integrated analysis of molecular aberrations in NCI-60 cell lines. - Chen-Hsiang Yeang (BMC Bioinform., 2010)

Deciphering causal and statistical relations of molecular aberrations and gene expressions in NCI-60 cell lines. - Shyh-Dar Li; Tatsuaki Tagami; Ying-Fu Ho; Chen-Hsiang Yeang (BMC Syst. Biol., 2011)

Recurrent Structural Motifs Reflect Characteristics of Distinct Networks. - Chen-Hsiang Yeang; Liang-Cheng Huang; Wei-Chung Liu (ASONAM, 2012)

A quantitative model for the rate-limiting process of UGA alternative assignments to stop and selenocysteine codons. - Yen-Fu Chen; Hsiu-Chuan Lin; Kai-Neng Chuang; Chih-Hsu Lin; Hsueh-Chi S. Yen; Chen-Hsiang Yeang (PLoS Comput. Biol., 2017)

MGSEA - a multivariate Gene set enrichment analysis. - Khong-Loon Tiong; Chen-Hsiang Yeang (BMC Bioinform., 2019)

Clustering image data with a fixed embedding. - Yan-Bin Chen; Khong-Loon Tiong; Chen-Hsiang Yeang (ICMLA, 2022)

Assessing transcriptomic heterogeneity of single-cell RNASeq data by bulk-level gene expression data. - Khong-Loon Tiong; Dmytro Luzhbin; Chen-Hsiang Yeang (BMC Bioinform., 2024)