PET-Tool: a software suite for comprehensive processing and managing of Paired-End diTag (PET) sequence data. - Kuo Ping Chiu; Chee-Hong Wong; Qiongyu Chen; Pramila Ariyaratne; Hong Sain Ooi; Chia-Lin Wei; Wing-Kin Sung; Yijun Ruan (BMC Bioinform., 2006)

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)