| Issue Date | Title | Author(s) | Relation | scopus | WOS | Fulltext/Archive link |
| 2014 | Associations between intronic non-B DNA structures and exon skipping | Tsai, Z.T.Y.; Chu, W.Y.; Cheng, J.H.; Tsai, H.K. | Nucleic Acids Research 42(2), 739-747 | | | |
| 2018 | Borders of cis-regulatory DNA sequences preferentially harbor the divergent transcription factor binding motifs in the human genome | Huang, J.H.; Kwan, SY.; Tsai, T.Y.; Lin, T.C.; Tsai, H.K. | Frontiers in Genetics 9, 571 | | | |
| 2018 | CATANA: a tool for generating comprehensive annotations of alternative transcript events | Shiau, C.K.; Huang, J.H.; Tsai, H.K. | Bioinformatics 35(8), 1414-1415 | | | |
| 2018 | CATANA: Comprehensive Alternative Transcript Atlas based oN Annotation | Shiau, C.K.; Huang, J.H.; Tsai, H.K. | Bioinformatics bty795 | | | |
| 2018 | CATANA: Comprehensive Alternative Transcript Atlas based oN Annotation | Shiau, C.K.; Huang, J.H.; Tsai, H.K. | | | | |
| 2015 | Contribution of sequence motif, chromatin state, and DNA structure features to predictive models of transcription factor binding in yeast | Tsai, Z.T.Y.; Shiu, S.H.; Tsai, H.K. | PLoS Computational Biology 11(8), e1004418 | | | |
| 2016 | Dissecting the transcriptional response of the antigen-stimulated B cells using a generalized multiplicative decomposition model (GMDM) | Chiang, S.; Shimodaira, H.; Tsai, H.K.; Okada, M. | | | | |
| 2018 | Dynamics of cis-regulatory regions for introducing the divergent transcription factor motifs in the human genome | Kwan, S.Y.; Huang, J.H.; Tsai, Z.T.Y.; Tsai, H.K. | | | | |
| 2011 | Evidence of association between nucleosome occupancy and the evolution of transcription factor binding sites in yeast | Swamy, K.B.S; Chu, W.Y.; Wang, C.Y.; Tsai, H.K.; Wang, D. | | | | |
| - | Expansion of transcription factor binding sites for introducing lineage-specific motifs in the promoter regions | Huang, J.H.; Kwan, SY.; Tsai, T.Y.; Tsai, H.K. | Nucleic Acids Research | | | |
| 2015 | Genome-wide analysis of enhancer RNA in gene regulation across 12 mouse tissues | Cheng, J.H.; Pan, D.; Tsai, Z.T.Y.; Tsai, H.K. | Scientific Reports 5, 12648 | | | |
| 2016 | Identification of cryptic genetic variations buffered by HSP90 in wild yeast populations | Hung, P.H.; Tsai, H.K.; Leu, J.Y. | | | | |
| 2017 | IsoPlot: a database for comparison of mRNA isoform variations in the fruit fly and mosquitoes | Ng, I.M.; Huang, J.H.; Tsai, S.C.; Tsai, H.K. | Database (Oxford) 2017, bax069 | | | |
| 2011 | Reanalyze unassigned reads in metagenomic data using conserved gene adjacency | Weng, F.C.H.; Su, C.H.; Hsu, M.T.; Wang, T.Y.; Tsai, H.K.; Wang, D. | | | | |
| 2015 | The CrdRS two-component system in Helicobacter pylori responds to nitrosative stress | Hung, C.L.; Cheng, H.H.; Hsieh, W.C.; Tsai, Z.T.Y.; Tsai, H.K.; Chu, C.H.; Hsieh, W.P.; Lai, C.H.; Wang, W.C. | Molecular Microbiology 97(6), 1128-1141 | | | |
| 2013 | The Impact of Trans-Regulation on the Evolutionary Rates of Metazoan Proteins | Chen, Y.C.; Cheng, J.H.; Tsai, Z.T.Y.; Tsai, H.K.; Chuang, T.J. | Nucleic Acids Research 41(13), 6371-6380 | | | |
| 2000 | Using Genetic Algorithms to Construct Physical Maps of Chromosomes with Unique Probes | Tsai, H.K.; Kao, C.Y. | | | | |
