REMUS: a tool for identification of unique peptide segments as epitopes. - Tun-Wen Pai; Margaret Dah-Tsyr Chang; Wen-Shyong Tzou; Bo-Han Su; Pei-Chih Wu; Hao-Teng Chang; Wei-I Chou (Nucleic Acids Res., 2006)

A Database for Prediction of Unique Peptide Motifs as Linear Epitopes. - Margaret Dah-Tsyr Chang; Hao-Teng Chang; Rong-Yuan Huang; Wen-Shyong Tzou; Chih-Hong Liu; Wei-Jun Zhung; Hsien-Wei Wang; Chun-Tien Chang; Tun-Wen Pai (ISBRA, 2007)

An SSR Comparative Genomics Database and Its Applications. - Tun-Wen Pai; Meng-Chang Hsiao; Chien-Ming Chen; Wen-Shyong Tzou; Ron-Shan Chen (CISIS, 2008)

The Impact of Data Deviation in Inferring a Biological Dynamic System. - Jian-Xun Chen; Bingchiang Jeng; Wen-Shyong Tzou (FSKD (4), 2008)

Identification of Conserved Simple Sequence Repeats from Orthologous Disease Genes. - Chien-Ming Chen; Wen-Shyong Tzou; Tsan-Huang Shih; Chih-Chia Chen; Chin-Hua Hu; Tun-Wen Pai (BIOCOMP, 2009)

IRIS: Internal Repeat Identification System. - Hua-Ying Kao; Wen-Shyong Tzou; Yen-Chu Hsu; Chien-Ming Chen; Tun-Wen Pai (BIOCOMP, 2009)

A Database of Selected Marine Genomics for Retrieving Distantly Related Proteins. - Tsan-Huang Shih; Yen-Chu Hsu; Tun-Wen Pai; Wen-Shyong Tzou; Chin-Hua Hu (BMEI, 2009)

Length Encoded Secondary Structure Profile for Remote Homologous Protein Detection. - Yen-Chu Hsu; Chien-Ming Chen; Tun-Wen Pai; Jyh-Fu Jeng; Chin-Hua Hu; Wen-Shyong Tzou (ICA3PP, 2009)

Computational methods for discovering gene networks from expression data. - Wei-Po Lee; Wen-Shyong Tzou (Briefings Bioinform., 2009)

Exploiting knowledge ontology and software agents for PPI network analysis. - Wen-Shyong Tzou; Wei-Po Lee; Bingchiang Jeng (Expert Syst. Appl., 2009)

Efficient algorithms for identifying orthologous simple sequence repeats of disease genes. - Chien-Ming Chen; Chih-Chia Chen; Tsan-Huang Shih; Tun-Wen Pai; Chin-Hua Hu; Wen-Shyong Tzou (J. Syst. Sci. Complex., 2010)

Functional pathway mapping analysis for hypoxia-inducible factors. - Chia-Sheng Chuang; Tun-Wen Pai; Chin-Hua Hu; Wen-Shyong Tzou; Margaret Dah-Tsyr Chang; Hao-Teng Chang; Chih-Chia Chen (BMC Syst. Biol., 2011)

Protein-ligand binding region prediction (PLB-SAVE) based on geometric features and CUDA acceleration. - Ying-Tsang Lo; Hsin-Wei Wang; Tun-Wen Pai; Wen-Shyong Tzou; Hui-Huang Hsu; Hao-Teng Chang (BMC Bioinform., 2013)

Identifying significant associations of orthologous simple sequence repeats with gene ontologies. - Chien-Ming Chen; Tun-Wen Pai; Chia-Sheng Chuang; Jhen-Li Huang; Wen-Shyong Tzou; Chin-Hua Hu (Int. J. Data Min. Bioinform., 2014)

Stochastic Simulation of Notch Signaling Reveals Novel Factors That Mediate the Differentiation of Neural Stem Cells. - Wen-Shyong Tzou; Ying-Tsang Lo; Tun-Wen Pai; Chin-Hua Hu; Chung-Hao Li (J. Comput. Biol., 2014)

Functional enrichment analysis based on long noncoding RNA associations. - Kuo-Sheng Hung; Chung-Chi Hsiao; Tun-Wen Pai; Chin-Hwa Hu; Wen-Shyong Tzou; Wen-Der Wang; Yet-Ran Chen (BMC Syst. Biol., 2018)

Enhanced Over-Representation Analysis for the Differential Regulation of Birc5a and HIF2α-Knockdown Approaches. - Chun-Cheng Liu; Tao-Chuan Shih; Tun-Wen Pai; Chin-Hwa Hu; Wen-Shyong Tzou (J. Comput. Biol., 2021)