New approach to image encryption. - Trees-Juen Chuang; Ja-Chen Lin (J. Electronic Imaging, 1998)

A New Algorithm For Lossless Still Image Compression. - Trees-Juen Chuang; Ja-Chen Lin (Pattern Recognit., 1998)

A comparative method for identification of gene structures and alternatively spliced variants. - Trees-Juen Chuang; Feng-Chi Chen; Meng-Yuan Chou (Bioinform., 2004)

ESTviewer: a web interface for visualizing mouse, rat, cattle, pig and chicken conserved ESTs in human genes and human alternatively spliced variants. - Feng-Chi Chen; Trees-Juen Chuang (Bioinform., 2005)

The effects of multiple features of alternatively spliced exons on the KA/KS ratio test. - Feng-Chi Chen; Trees-Juen Chuang (BMC Bioinform., 2006)

Identification and evolutionary analysis of novel exons and alternative splicing events using cross-species EST-to-genome comparisons in human, mouse and rat. - Feng-Chi Chen; Chuang-Jong Chen; Jar-Yi Ho; Trees-Juen Chuang (BMC Bioinform., 2006)

INDELSCAN: a web server for comparative identification of species-specific and non-species-specific insertion/deletion events. - Feng-Chi Chen; Chuang-Jong Chen; Trees-Juen Chuang (Nucleic Acids Res., 2007)

CNVVdb: a database of copy number variations across vertebrate genomes. - Feng-Chi Chen; Yen-Zho Chen; Trees-Juen Chuang (Bioinform., 2009)

NCLcomparator: systematically post-screening non-co-linear transcripts (circular, trans-spliced, or fusion RNAs) identified from various detectors. - Chia-Ying Chen; Trees-Juen Chuang (BMC Bioinform., 2019)

Comment on "A comprehensive overview and evaluation of circular RNA detection tools". - Chia-Ying Chen; Trees-Juen Chuang (PLoS Comput. Biol., 2019)

CircMiMi: a stand-alone software for constructing circular RNA-microRNA-mRNA interactions across species. - Tai-Wei Chiang; Te-Lun Mai; Trees-Juen Chuang (BMC Bioinform., 2022)