Kun-Pin Wu

Personal Profile

Kun-Pin Wu
Professor, Institute of Biomedical Informatics
PhD of Electronic Engineering, National Taiwan University, Taiwan
Field of Interest: Algorithms of Bioinformatics, Computatioal Proteomics
Office: R303, 3F, SoRen Building
Phone: 886-2-28267273
Email: kpwu@nycu.edu.tw

Research Interests

  • 研究主題 (Research Topics):
    • 實證醫學的文獻回顧 (Systematic Reviews in Evidence-Based Medicine)
    • 神經細胞分群、分類,與標記尋找 (Neuronal Clustering, Classification, and Marker Discovery)
    • 癌症標記尋找 (Cancer Marker Discovery)
    • 生醫數據分析 (Biomedical Data Analysis)
  • 研究方法 (Research Methodology):
    • 人工智慧(Artificial Intelligence)
    • 資料探勘 (Data Mining)
    • 數據分析 (Data Analysis)
    • 自然語言處理 (Natural Language Processing)


  • Journal Papers
    • S.M. Chaw*, Y.C. Liu, Y.W. Wu, H.Y. Wang, C.Y.I. Lin, C.S. Wu, H.M. Ke, L.Y. Chang, C.Y. Hsu, H.T. Yang, E. Sudianto, M.H. Hsu, K.P. Wu, L.N. Wang, J.H. Leebens-Mack, I.J. Tsai*. Stout camphor tree genome fills gaps in understanding of flowering plant genome evolution. Nature Plants, 5(1):63–73, 2019.
    • W.S. Tien, P.M. Chen, C.Y. Chuang, S.M. Lui, H.C. Kuo, Y.J. Chen, K.P. Wu∗. Combining membrane proteomics and computational three-way pathway analysis revealed signalling pathways preferentially regulated in human iPSCs and human ESCs. Scienti€c Reports, 7(1):15055, 2017.
    • E.Y. Lai, Y.H. Chen, K.P. Wu∗. A knowledge-based T2-statistic to perform pathway analysis for quantitative proteomic data. PLoS Computational Biology, 13(6):e1005601, 2017.
    • D.C. Wu, K.Y. Wang, S.S.W. Wang, C.M. Huang, Y.W. Lee, M.I. Chen, S.A. Chuang, S.H. Chen, Y.W. Lu, C.C. Lin, K.W. Lee, W.H. Hsu, K.P. Wu∗, Y.J. Chen∗. Exploring the expression bar code of SAA variants for gastric cancer detection. Proteomics, 17(11):1600356, 2017.
    • C.H. Shao, C.L. Chen, J.Y. Lin, C.J. Chen, S.H. Fu, Y.T. Chen, Y.S. Chang, J.S. Yu, K.H. Tsui, C.G. Juo∗, K.P. Wu∗. Metabolite marker discovery for the detection of bladder cancer by comparative metabolomics. Oncotarget, 8:38802–38810, 2017.
    • W.S. Tien, J.H. Chen, K.P. Wu∗. SheddomeDB: the ectodomain shedding database for membrane-bound shed markers. BMC Bioinformatics, 18(Suppl 3):42, 2017.
    • W.H. Hou, N. Kuo, G.W. Fang, H.S. Huang, K.P. Wu, A. Zimmer, J.K. Cheng∗, C.C. Lien∗. Wiring Speci€city and Synaptic Diversity in the Mouse Lateral Central Amygdala. Journal of Neuroscience, 36(16):4549–4563, 2016.
    • S.C. Chiang, C.L. Han, K.H. Yu, Y.J. Chen, K.P. Wu∗. Prioritization of cancer marker candidates based on the immunohistochemistry staining images deposited in the Human Protein Atlas. PLoS ONE, 8(11):e81079, 2013.
    • W.S. Tien, Y.T. Chen, K.P. Wu∗. SecretePipe: A screening pipeline for secreted proteins with competence to identify potential membrane-bound shed markers. Journal of Proteome Research, 12(3):1235–1244, 2013.
    • E.Y. Lai, W.B. Wang, T. Jiang, K.P. Wu∗. A linear-time algorithm for reconstructing zero-recombinant haplotype con€guration on a pedigree. BMC Bioinformatics, 13(Suppl 17):S19, 2012.
    • M.Y. Day, R.T.H. Tsai, C.L. Sung, C.C. Hsieh, C.W. Lee, S.H. Wu, K.P. Wu, C.S. Ong, W.L. Hsu. Reference Metadata Extraction Using a Hierarchical Knowledge Representation Framework. Decision Support Systems, 43(1):152–167, 2007.
    • W.T. Lin, W.N. Hung, Y.H. Yian, K.P. Wu∗, C.L. Han, Y.R. Chen, Y.J. Chen, T.Y. Sung∗, W.L. Hsu. Multi-Q: A Fully Automated Tool for Multiplexed Protein Quantitation. Journal of Proteome Research, 5(9):2328–2338, 2006.
    • K.P. Wu, J.M. Chang, J.B. Chen, C.F. Chang, W.J. Wu, T.H. Huang, T.Y. Sung, W.L. Hsu. RIBRA—An Error-Tolerant Algorithm for the NMR Backbone Assignment Problem, Journal of Computational Biology, 13(2):229–244, 2006.
    • H.N. Lin, K.P. Wu, J.M. Chang, T.Y. Sung, W.L. Hsu. GANA—A Genetic Algorithm for NMR Backbone Resonance Assignment, Nucleic Acids Research, 33(14):4593–4601, 2005.
    • H.N. Lin, J.M. Chang, K.P. Wu, T.Y. Sung, W.L. Hsu. HYPROSP II—A Knowledge-based Hybrid Method for Protein Secondary Structure Prediction Based on Local Prediction Confidence, Bioinformatics, 21(15):3227–3233, 2005.
    • K.P. Wu, H.N. Lin, J.M. Chang, T.Y. Sung, W.L. Hsu. HYPROSP: a Hybrid Protein Secondary Structure Prediction Algorithm—a Knowledge-based Approach, Nucleic Acids Research, 32(17):5059–5065, 2004.
    • K.P. Wu, S.J. Ruan, C.K. Tseng, F. Lai. Hierarchical Access Control Using the Secure Filter, IEICE Transactions on Information and Systems, E84-D(6):700–708, 2001.
    • K.P. Wu, Y.J. Joung. Asynchronous Group Mutual Exclusion in Ring Networks, IEE Proceedings-Computers and Digital Techniques, 147(1):1–8, 2000.
  • Conference Papers
    • C.T. Chen, H.N. Lin, K.P. Wu, T.Y. Sung and W.L. Hsu “A Knowledge-based Approach to Protein Local Structure Prediction,” the Fourth Asia Pacific Bioinformatics Conference (APBC 2006), 257-266. Acceptance rate, 30% (35/118).
    • K.P. Wu, J.M. Chang, J.B. Chen, C.F. Chang, W.J. Wu, T.H. Huang, T.Y. Sung and W.L. Hsu “RIBRA–An Error-Tolerant Algorithm for the NMR Backbone Assignment Problem,” the Ninth Annual International Conference on Research in Computational Molecular Biology (RECOMB 2005). Lecture Notes in Computer Science 3500, 103-117. Acceptance rate, 18% (39/217).
    • Y.F. Lin, T.H. Tsai, W.C. Chou, K.P. Wu, T.Y. Sung and W.L. Hsu “A Maximum Entropy Approach to Biomedical Named Entity Recognition,” Proceedings of the 4th ACM SIGKDD Workshop on Data Mining in Bioinformatics (BioKDD 2004), 56-61.
    • K.P. Wu, H.N. Lin, T.Y. Sung and W.L. Hsu “A New Similarity Measure among Protein Sequences,” Proceedings of 2nd IEEE Computational Systems Bioinformatics (CSB 2003), 347-352. Acceptance rate, 19% (27/138)
    • K.P. Wu, H.N. Lin, T.Y. Sung and W.L. Hsu “An Efficient Method to Find Protein Sequence Patterns and Its Applications,” Proceedings of the 20th Workshop on Combinatorial Mathematics and Computation Theory, 45-51, 2003.