Probabilistic data integration and visualization for understanding transcriptional regulation. - Arvind Rao; Alfred O. Hero III; David J. States; James Douglas Engel (EUSIPCO, 2006)

Inference of Biologically Relevant Gene Influence Networks Using the Directed Information Criterion. - Arvind Rao; Alfred O. Hero III; David J. States; James Douglas Engel (ICASSP (2), 2006)

Inferring Time-Varying Network Topologies from Gene Expression Data. - Arvind Rao; Alfred O. Hero III; David J. States; James Douglas Engel (EURASIP J. Bioinform. Syst. Biol., 2007)

Motif Discovery in Tissue-Specific Regulatory Sequences Using Directed Information. - Arvind Rao; Alfred O. Hero III; David J. States; James Douglas Engel (EURASIP J. Bioinform. Syst. Biol., 2007)

Using Directed Information to Build Biologically Relevant Influence Networks. - Arvind Rao; Alfred O. Hero III; David J. States; James Douglas Engel (J. Bioinform. Comput. Biol., 2008)

Understanding Distal transcriptional Regulation from Sequence, Expression and interactome Perspectives. - Arvind Rao; David J. States; Alfred O. Hero III; James Douglas Engel (J. Bioinform. Comput. Biol., 2010)

Modeling dynamic functional relationship networks and application to ex vivo human erythroid differentiation. - Fan Zhu; Lihong Shi; Hongdong Li; Ridvan Eksi; James Douglas Engel; Yuanfang Guan (Bioinform., 2014)

Regulatory network inferred using expression data of small sample size: application and validation in erythroid system. - Fan Zhu; Lihong Shi; James Douglas Engel; Yuanfang Guan (Bioinform., 2015)