A novel statistical approach to identify co-regulatory gene modules. - Xi Chen 056; Jianhua Xuan; Xu Shi 003; Ayesha N. Shajahan-Haq; Leena Hilakivi-Clarke; Robert Clarke (BIBM, 2013)

mAPC-GibbsOS: an integrated approach for robust identification of gene regulatory networks. - Xu Shi 003; Jinghua Gu; Xi Chen 056; Ayesha N. Shajahan; Leena Hilakivi-Clarke; Robert Clarke; Jianhua Xuan (BMC Syst. Biol., 2013)

Statistical Identification of Co-regulatory Gene Modules using Multiple ChIP-Seq Experiments. - Xi Chen 056; Xu Shi 003; Ayesha N. Shajahan-Haq; Leena Hilakivi-Clarke; Robert Clarke; Jianhua Xuan (BIOINFORMATICS, 2014)

BSSV: Bayesian based somatic structural variation identification with whole genome DNA-seq data. - Xi Chen 056; Xu Shi 003; Ayesha N. Shajahan; Leena Hilakivi-Clarke; Robert Clarke; Jianhua Xuan (EMBC, 2014)

BMRF-Net: a software tool for identification of protein interaction subnetworks by a bagging Markov random field-based method. - Xu Shi 003; Robert O. Barnes; Li Chen 018; Ayesha N. Shajahan-Haq; Leena Hilakivi-Clarke; Robert Clarke; Yue Joseph Wang; Jianhua Xuan (Bioinform., 2015)

PSSV: a novel pattern-based probabilistic approach for somatic structural variation identification. - Xi Chen 056; Xu Shi 003; Leena Hilakivi-Clarke; Ayesha N. Shajahan-Haq; Robert Clarke; Jianhua Xuan (Bioinform., 2017)

SparseIso: a novel Bayesian approach to identify alternatively spliced isoforms from RNA-seq data. - Xu Shi 003; Xiao Wang 031; Tian-Li Wang; Leena Hilakivi-Clarke; Robert Clarke; Jianhua Xuan (Bioinform., 2018)

IntAPT: integrated assembly of phenotype-specific transcripts from multiple RNA-seq profiles. - Xu Shi 003; Andrew F. Neuwald; Xiao Wang 031; Tian-Li Wang; Leena Hilakivi-Clarke; Robert Clarke; Jianhua Xuan (Bioinform., 2021)

ChIP-BIT2: a software tool to detect weak binding events using a Bayesian integration approach. - Xi Chen 056; Xu Shi 003; Andrew F. Neuwald; Leena Hilakivi-Clarke; Robert Clarke; Jianhua Xuan (BMC Bioinform., 2021)

Bayesian identification of differentially expressed isoforms using a novel joint model of RNA-seq data. - Xu Shi 003; Xiao Wang 031; Lu Jin; Leena Halakivi-Clarke; Robert Clarke; Andrew F. Neuwald; Jianhua Xuan (PLoS Comput. Biol., 2025)