A robust two-way semi-linear model for normalization of cDNA microarray data. - Deli Wang; Jian Huang 003; Hehuang Xie; Liliana Manzella; Marcelo Bento Soares (BMC Bioinform., 2005)

A Primer Design Algorithm for Global Analysis of CpG Methylation. - Hehuang Xie; Min Wang; Yuichi Tange; Maria F. Bonaldo; Marcelo Bento Soares (IJCBS, 2009)

BTECH: A Platform to Integrate Genomic, Transcriptomic and Epigenomic Alterations in Brain Tumors. - Min Wang; Hehuang Xie; Wendy Stellpflug; Veena Rajaram; Maria F. Bonaldo; Stewart Goldman; Tadanori Tomita; Marcelo Bento Soares (Neuroinformatics, 2011)

DMEAS: DNA methylation entropy analysis software. - Jianlin He; Xinxi Sun; Xiaojian Shao; Liji Liang; Hehuang Xie (Bioinform., 2013)

Improving bisulfite short-read mapping efficiency with hairpin-bisulfite data. - Jacob Porter; Ming-an Sun; Hehuang Xie; Liqing Zhang 002 (ICCABS, 2014)

Objective and Comprehensive Evaluation of Bisulfite Short Read Mapping Tools. - Hong Tran; Jacob Porter; Ming-an Sun; Hehuang Xie; Liqing Zhang 002 (Adv. Bioinformatics, 2014)

HBS-Tools for Hairpin Bisulfite Sequencing Data Processing and Analysis. - Ming-an Sun; Karthik Raja Velmurugan; David Keimig; Hehuang Xie (Adv. Bioinformatics, 2015)

Nonparametric Bayesian clustering to detect bipolar methylated genomic loci. - Xiaowei Wu 003; Ming-an Sun; Hongxiao Zhu; Hehuang Xie (BMC Bioinform., 2015)

Integrative single-cell omics analyses reveal epigenetic heterogeneity in mouse embryonic stem cells. - Yanting Luo; Jianlin He; Xiguang Xu; Ming-an Sun; Xiaowei Wu 003; Xuemei Lu; Hehuang Xie (PLoS Comput. Biol., 2018)

Determination of Neuron Activation States Facilitated by Artificial Intelligence. - Ana Topasna; Eric Xie; Sammy Park; Sophia Huang; Xiaowei Wu 003; Hehuang Xie (BIBM, 2022)

Machine learning identifies genes linked to neurological disorders induced by equine encephalitis viruses, traumatic brain injuries, and organophosphorus nerve agents. - Liduo Yin; Morgen Vandergiessen; Vinoth Kumar; Benjamin Conacher; Po-Chien Haku Chao; Michelle Theus; Erik Johnson; Kylene Kehn-Hall; Xiaowei Wu; Hehuang Xie (Frontiers Comput. Neurosci., 2025)