An HMM approach to genome-wide identification of differential histone modification sites from ChIP-seq data. - Han Xu 013; Chia-Lin Wei; Feng Lin; Wing-Kin Sung (Bioinform., 2008)

A signal-noise model for significance analysis of ChIP-seq with negative control. - Han Xu 013; Lusy Handoko; Xueliang Wei; Chaopeng Ye; Jianpeng Sheng; Chia-Lin Wei; Feng Lin; Wing-Kin Sung (Bioinform., 2010)

Computational analysis of ChIP-seq data and its application to the reconstruction of transcriptional regulatory networks - Han Xu 013 (2011)