Yao-Ting Huang (黃耀廷)

Associate Professor

Yao-Ting Huang (黃耀廷)

Department of Computer Science and Information Engineering

National Chung Cheng University

Email: ythuang at cs.ccu.edu.tw

Tel: +886-5-2720411 ext. 33120

Fax: +886-5-2720859

Education

  • Ph.D., Computer science and Information Engineering, National Taiwan University. 2003-2006.
  • M.S., Computer science and Information Engineering, National Taiwan University, 2001-2003.
  • B.S., Computer science and Information Engineering, National Chiao Tung University, 1997-2001.

Research Interests

  • Bioinformatics (SNP Analysis, Comparative Genomics, Next Generation Sequencing)
  • Approximation Algorithms

Professional Experience

  • Associate professor, Department of Computer Science and Information Engineering, National Chung Cheng University, 2012/8~.
  • Assistant professor, Department of Computer Science and Information Engineering, National Chung Cheng University, 2007/8~2012/7.
  • Postdoctoral research fellow, Computational Genomics Laboratory, Genomics Research Center, Academia Sinica, 2006/8~2007/7.
  • Exchange student, National Science Council Project-based Personnel Exchange Program, University of Leipzig, Germany, Project Name: Algorithms for structured sequences and trees in phylogeny, 2006/6~2006/7.

Teaching Courses

  • Introduction to Algorithms (Undergraduate Level): 2007 Fall, 2008 Fall, 2009 Fall, 2010 Spring.
  • Algorithms in Bioinformatics: 2007 Fall, 2008 Fall, 2009 Fall.
  • Algorithms (Graduate Level): 2008 Spring, 2009 Spring, 2010 Spring.
  • Introduction to Computational Biology: 2008 Spring, 2009 Spring.

Journal Papers

[1]   C.S. Lin§, J.W. Chen§, Y.-T. Huang§, et al., Catalog of Erycina pusilla miRNA and categorization of reproductive phase-related miRNAs and their target gene families, Plant Mole Biol, 2013, accepted.

[2]   P.-Y. Liu, Y.-T. Huang, et al. Draft Genome Sequence of the Serratia marcescens Strain VGH107, a Taiwan Clinical isolate, Genome Announcements, 2013, accepted.

[3]   M-L Chou, M.-C. Shih, M.-T. Chan, S.-Y. Liao, C-T. Hsu, Y.-T. Haung, J.W. Chen, D.-D. Liao, F.-H. Wu, C.-S. Lin, Global Transcriptome Analysis and Identification of a CONSTANS-Like Gene Family in the Orchid Erycina pusill, Planta, 2013, accepted.

[4]   Pačes J., Huang Y.-T., Pačes V., R§dl, J.and Chang C.-M. New Insight into Transcription of Human Endogenous Retroviral Elements, New Biotechnology, 2012.

[5]   Wang M.-C., Chen F.-C., Chen Y.-Z., Huang Y.-T.Chuang T.-J. LDGIdb: a database of gene interactions inferred from long-range strong linkage disequilibrium between pairs of SNPs, BMC Research Notes, 2012.

[6]   Huang, Y.-T.* and Wu, M.-H. Inference of Chromosome-Specific Copy Numbers Using Population Haplotypes, BMC Bioinformatics, 12:194, 2011. (SCI, Impact Factor= 3.43)

[7]   Huang, Y.-T.*, Chang, C-J., and Chao, K.-M. The Extent of Linkage Disequilibrium and Computational Challenges of Single Nucleotide Polymorphisms in Genome-Wide Association Studies, Current Drug Metabolism, 12:498-506, 2011. (SCI, Impact Factor=3.989)

[8]   Ting, C.-K., Chen, F.-C., Huang, Y.-T.* Multi-objective tag SNPs selection using evolutionary algorithms, Bioinformatics, 26(11): 1446-1452, 2010. (SCI, Impact Factor=4.926)

[9]   Huang, Y.-T.*, Chuang, S.-Y., Lin K.-H., Li Y.-D., and Wang S.-W. Computational Approaches for the Discovery and Analysis of Structural Variations, International Journal of Systems and Synthetic Biology, 2010.

[10]   Huang, Y.-T., Chen, F.-C., Chen, C.-J., Chen, H.-L., and Chuang, T.-J. Identification and analysis of ancestral hominoid transcriptome inferred from cross-species transcript and processed pseudogenecomparisons, Genome Research, 18:1163-1170, 2008. (SCI, Impact Factor=11.2)

[11]   Huang, Y.-T. and Chao, K.-M. A new framework for the selection of tag SNPs using multimarker haplotypes. Journal of Biomedical Informatics, 41:953-961, 2008. (SCI, Impact Factor=2)

[12]   Chen, F.-C., Wang, S.-S., Chaw, S.-M., Huang, Y.-T., and Chuang, T.-J. PGAA: a plant genome annotation pipeline for rice gene and alternatively spliced variant identification with cross-species EST conservation from seven plant species. Plant Physiology, 2007. (SCI, Impact Factor=6.114)

[13]   Chang, C.J., Huang, Y.-T., and Chao, K.-M. A greedier approach for finding tag SNPs. Bioinformatics, 22: 685-691, 2006. (SCI, Impact Factor=6.091)

[14]   Huang, Y.-T., Chao, K.-M., and Chen, T. An approximation algorithm for haplotype inference by maximum parsimony, Journal of Computational Biology, 12: 1261-1274, 2005 (SCI, Impact Factor=2.446).

[15]   Huang, Y.-T., Zhang, K., Chen, T., and Chao, K.-M. Selecting additional tag SNPs for tolerating missing data in genotyping. BMC Bioinformatics, 6:263, 2005 (SCI, Impact Factor=4.96).

[16]   Lai, Y.-C., Lin, Phone and Huang, Y.-T. Design and implementation of a wireless Internet remote access platform, Wireless Communications and Mobile Computing, 6: 413-429, 2004 (SCI, Impact Factor=0.669).

Conference Papers

[1]   Shien-Zu Wu and Huang, Y.-T. A hidden Markov model for identifying duplicons, The 4th Sino-Japanese Optimization Meeting (SJOM), Taiwan, 2008.

[2]   Huang, Y.-T. and Chao, K.-M. Approximation algorithms for the optimization problems of SNPs and haplotypes, IEEE Emerging Information Technology Conference (EITC), Taiwan, 2005.

[3]   Huang, Y.-T., Chao, K.-M, and Chen, T. An approximation algorithm for haplotype inference by maximum parsimony. The 20th Annual ACM Symposium on Applied Computing (SAC), 146-150, USA, 2005.

[4]   Huang, Y.-T., Zhang, K., Chen, T. and Chao, K.-M. Approximation algorithms for the selection of robust tag SNPs. The 4th Workshop on Algorithms in Bioinformatics (WABI), Lecture Notes in Computer Science / Lecture Notes in Bioinformatics, 278-289, Norway, 2004.

[5]   Huang, Y.-T. and Chao, K.-M. On the selection of robust tag SNPs. The 21th Workshop on Combinatorics Math and Computation Theory, Taiwan, 241-248, 2004.

Local Papers

[1]   Huang, Y.-T. Inference of Haploid Copy Number, Information Retrieval and Pattern Recognition, 2008.

[2]   單核苷酸多型性之簡介與研究回顧, 生物醫學期刊, 2009.

Book chapters

[1]   Huang, Y.-T., Zhang, K., Chen, T., and Chao, K. -M. Approximation Algorithms for the Selection of Robust Tag SNPs, Chapter 59 of the book Handbook of Approximation Algorithms andMetaheuristics, edited by Teofilo F. Gonzalez (University of California, Santa Barbara), Chapman & Hall/CRC Press, USA, 2007.2009.

Award and Honors

  • 1999, 國立交通大學資訊工程系專題競賽優勝 (First Prize of Project Contest, Department of Computer Science and Information Engineering, National Chiao Tung University)
  • 2000, 國立交通大學十屆思源科技研發競賽第一名 (First Prize of Undergraduate Research and Development Contest, National Chiao Tung University)
  • 2001, 行政院國科會國家高速電腦中心全國軟體設計競賽第三名 (Third Prize of Software Contest by National Center for High-performance Computing; 72 teams, 243 contestants; Title: Remote Access Platform for Wireless Internet)
  • 2002, MobileHero經濟部工業局無線通訊軟體研發競賽第一名 (First Prize of Mobile Hero Contest by Industrial Development Bureau of Ministry of Economic Affairs; 99 teams, 384 contestants, awarded USD 30,000; Title: A Session Management Mechanism for Heterogeneous Wireless Network)
  • 2002, 中國科技管理學會學生創新育成競賽第二名

Professional Activities

議程委員

  1. IEEE International Conference on Bioinformatics and Biomedical Engineering (BIBE) (2011, Program Committee Member).
  2. International Symposium on Application of NGS on Genomics and Epigenomics (2011, Program Committee Member, Session Chair)
  3. National Computer Symposium, Algorithms and Bioinformatics Workshop (2011, Program Committee Member, Session Chair)
  4. National Computer Symposium, Algorithms and Bioinformatics Workshop (2009, Program Committee Member)

程式競賽

  1. 中正大學資訊工程系程式檢定委員與出題:2010、2011
  2. 中正大學校內程式競賽委員與出題:2009、2010、2011
  3. 南區大專院校程式設計競賽(南程盃)出題:2009、2010
  4. 全國大專電腦軟體設計競賽(大專盃)委員與出題:2007
  5. 國際大專院校程式設計競賽(PTC)出題:2009, 2012

Research Description

DNA序列蘊含各種生命現象運作之密碼。近年來各種生物的DNA序列逐漸被鑑定出來(人類、老鼠、稻米、黑猩猩等),隱藏在DNA序列中的遺傳資訊,帶來了治療各種疾病的契機 (例如,癌症、糖尿病、器官移植抗排斥),以及探究各種生物演化之歷史。然而大量的DNA序列 (人類中約有30億個核柑酸),必需仰賴電腦的高速運算來解碼與分析。生物資訊是一種電腦科學領域與生命科學領域的結合,希望能藉由電腦的計算,軟體的盼讀,解答普遍存在人類之疾病、個體的差異、演化的歷史、生命的機制、或協助開發新藥物等。我們實驗室目前的研究主軸方向,主要探討人類之間或跨物種間的基因序列差異,序列差異與疾病之關連性,演化之分析,以及設計各種生物資訊軟體。歡迎有興趣的同學加入我們的團隊。

Other Information

美國數學學會族譜:http://www.genealogy.ams.org/html/id.phtml?id=105311



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