The Design of Agent-Based Tools for Bio-Informatics. - Chung-Shyan Liu; Wei Kuo; Lan-Yang Ch'ang; Wen-Chang Lin (COMPSAC, 1999)

An Algorithm for Generating Representative Functional Annotations Based on Gene Ontology. - In-Yee Lee; Jan-Ming Ho; Wen-Chang Lin (DEXA Workshops, 2003)

Vir-Mir db: prediction of viral microRNA candidate hairpins. - Sung-Chou Li; Cheng-Kai Shiau; Wen-Chang Lin (Nucleic Acids Res., 2008)

OMIT: Domain Ontology and Knowledge Acquisition in MicroRNA Target Prediction - (Short Paper). - Christopher Townsend; Jingshan Huang; Dejing Dou; Shivraj Dalvi; Patrick J. Hayes; Lei He 007; Wen-Chang Lin; Haishan Liu; Robert Rudnick; Hardik Shah (OTM Conferences (2), 2010)

Gene-oriented ortholog database: a functional comparison platform for orthologous loci. - Meng-Ru Ho; Chun-Houh Chen; Wen-Chang Lin (Database J. Biol. Databases Curation, 2010)

Learning to predict expression efficacy of vectors in recombinant protein production. - Wen-Ching Chan; Po-Huang Liang; Yan-Ping Shih; Ueng-Cheng Yang; Wen-Chang Lin; Chun-Nan Hsu (BMC Bioinform., 2010)

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)

UMARS: Un-MAppable Reads Solution. - Sung-Chou Li; Wen-Ching Chan; Chun-Hung Lai; Kuo-Wang Tsai; Chun-Nan Hsu; Yuh-Shan Jou; Hua-Chien Chen; Chun-Hong Chen; Wen-Chang Lin (BMC Bioinform., 2011)

dbDNV: a resource of duplicated gene nucleotide variants in human genome. - Meng-Ru Ho; Kuo-Wang Tsai; Chun-Houh Chen; Wen-Chang Lin (Nucleic Acids Res., 2011)

Identification of gene-oriented exon orthology between human and mouse. - Gloria C.-L. Fu; Wen-Chang Lin (BMC Genom., 2012)

miRNA arm selection and isomiR distribution in gastric cancer. - Sung-Chou Li; Yu-Lun Liao; Meng-Ru Ho; Kuo-Wang Tsai; Chun-Hung Lai; Wen-Chang Lin (BMC Genom., 2012)

Covariate-adjusted heatmaps for visualizing biological data via correlation decomposition. - Han-Ming Wu; Yin-Jing Tien; Meng-Ru Ho; Hai-Gwo Hwu; Wen-Chang Lin; Mi-Hua Tao; Chun-Houh Chen (Bioinform., 2018)

miR-TV: an interactive microRNA Target Viewer for microRNA and target gene expression interrogation for human cancer studies. - Chao-Yu Pan; Wen-Chang Lin (Database J. Biol. Databases Curation, 2020)

TEx-MST: tissue expression profiles of MANE select transcripts. - Kuo-Feng Tung; Wen-Chang Lin (Database J. Biol. Databases Curation, 2022)

Human housekeeping genes interrogated with Gini-index and GTEx datasets. - Wen-Chang Lin (BIBM, 2024)