DODO: an efficient orthologous genes assignment tool based on domain architectures. Domain based ortholog detection. - Ting-Wen Chen; Timothy H. Wu; Wailap V. Ng; Wen-Chang Lin (BMC Bioinform., 2010)

Modularity of Escherichia coli sRNA regulation revealed by sRNA-target and protein network analysis. - Timothy H. Wu; Ian Chang; Lichieh Julie Chu; Hsuan-Cheng Huang; Wailap V. Ng (BMC Bioinform., 2010)

PARRoT- a homology-based strategy to quantify and compare RNA-sequencing from non-model organisms. - Richie Ruei-Chi Gan; Ting-Wen Chen; Timothy H. Wu; Po-Jung Huang; Chi-Ching Lee; Yuan-Ming Yeh; Cheng-Hsun Chiu; Hsien-Da Huang; Petrus Tang (BMC Bioinform., 2016)