| Issue Date | Title | Author(s) | Relation | scopus | WOS | Fulltext/Archive link |
| 2009 | CAPIH: A Web interface for comparative analyses and visualization of host-HIV protein-protein interactions | Lin, Fan-Kai; Pan, Chia-Lin; Yang, Jinn-Moon; Chuang, Trees-Juen; Chen, Feng-Chi | BMC Microbiology 9, 164 | | | |
| 2009 | CNVVdb: a database of copy number variations across vertebrate genomes | Chen, Feng-Chi; Chen, Yen-Zho; Chuang, Trees-Juen | Bioinformatics 25, 1419-1421 | | | |
| 2018 | Comment on “A comprehensive overview and evaluation of circular RNA detection tools” | Chia-Ying Chen; Chuang, Trees-Juen | PLOS COMPUTATIONAL BIOLOGY | | | |
| 2007 | Different alternative splicing patterns are subject to opposite selection pressure for protein reading frame preservation. | Chen, Feng-Chi; Chuang, Trees-Juen | BMC Evolutionary Biology 7(1):179 | | | |
| 2010 | Gene family size conservation is a good indicator of evolutionary rates | Chen, Feng-Chi; Chen, Chueng-Jong; Li, Wen-Hsiung; Chuang, Trees-Juen | Molecular Biology and Evolution 27(8), 1750-1758 | | | |
| 2007 | Human-specific insertions and deletions inferred from mammalian genome sequences | Chen, Feng-Chi; Chen, Chueng-Jong; Li, Wen-Hsiung; Chuang, Trees-Juen | Genome Research 17(1), 16-22 | | | |
| 2008 | Identification and analysis of ancestral hominoid transcriptome inferred from cross-species transcript and processed pseudogene comparisons | Huang, Yao-Ting; Chen, Feng-Chi; Chen, Chiuan-Jung; Chen, Hsin-Liang; Chuang, Trees-Juen | Genome Research 18(7), 1163-1170 | | | |
| 2012 | LDGIdb: a database of gene interactions inferred from long-range strong linkage disequilibrium between pairs of SNPs. | Wang, Ming-Chih; Chen, Feng-Chi; Chen, Yen-Zho; Huang, Yao-Ting; Chuang, Trees-Juen | BMC Research Note 5, 212 | | | |
| 2007 | Mathematical Properties of Some Measures of Evolutionary Distance | Tzeng, Yun-Huei; Li, Wen-Hsiung; Chuang, Trees-Juen | Journal of Theoretical Biology 245(4), 790-792 | | | |
| 2008 | Nucleotide Sequence Divergence between Humans and Chimpanzees | Chen, Feng-Chi; Chuang, Trees-Juen | ENCYCLOPEDIA OF LIFE SCIENCES DOI:10.1002/9780470015902.a0020751 | | | |
| 2007 | Opposite Evolutionary Effects between Different Alternative Splicing Patterns | Chen, Feng-Chi; Chaw, Shu-Miaw; Tzeng, Yun-Huei; Wang, Sheng-Shun; Chuang, Trees-Juen | Molecular Biology and Evolution 24, 1443-1446 | | | |
| 2007 | PGAA: a plant genome annotation pipeline for rice gene and alternatively spliced variant identification with cross-species EST conservationfrom seven plant species | Chen, Feng-Chi; Wang, Sheng-Shun; Chaw, Shu-Miaw; Huang, Yao-Ting; Chuang, Trees-Juen | Plant Physiology 143(3), 1086-1095 | | | |
| 2012 | Position-dependent correlations between the level of DNA methylation and the evolutionary rates of mammalian coding exons | Chuang, Trees-Juen; Chen, Feng-Chi; Chen, Yen-Zho | PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 109(39), 15841-15846 | | | |
| 2009 | Scanning for the signatures of positive selection for human-specific insertions and deletions | Chen, Chun-Hsi; Chuang, Trees-Juen; Liao, Ben-Yang; Chen, Feng-Chi | Genome Biology and Evolution 2009, 415-419 | | | |
| 2012 | Selective Constraint on Human Pre-mRNA Splicing by Protein Structural Properties | Gelly, Jean-Christophe; Lin, Hsuan-Yu; de Brevern, Alexandre G.; Chuang, Trees-Juen; Chen, Feng-Chi | Genome Biology and Evolution 4(9), 842-851 | | | |
| 2013 | The Impact of Trans-Regulation on the Evolutionary Rates of Metazoan Proteins | Chen, Yi-Ching; Cheng, Jen-Hao; Tsai, Zing Tsung-Yeh; Tsai, Huai-Kuang; Chuang, Trees-Juen | NUCLEIC ACIDS RESEARCH 41(13), 6371-6380 | | | |
