About Me
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John Yu-Feng Huang / 黃鈺峰 yfhuang{at}csie.ntu.edu.tw Postdoctoral Fellow Department of Computer Science & Information Engineering National Taiwan University |
Introduction
Yu-Feng Huang (黃鈺峰) was born in December 2, 1976. He received B.Sc. in Computer Science & Engineering from Yuan-Ze University, M.Sc. in Computer Science from National Chung Cheng University and D.Sc. in Computer Science & Information Engineering from National Taiwan University, 1999, 2001, and 2010, respectively. He is now a postdoctoral fellow in the Department of Computer Science & Information Engineering of National Taiwan University. His research interests include structural bioinformatics, bioinformatics, machine learning and data mining.
Education
- D.Sc Computer Science & Information Engineering, National Taiwan University (2003.9 ~ 2010.1)
Advisors: Dr. Yen-Jen Oyang and Dr. Chien-Kang Huang
Dissertation: A Study of Prediction of Protein Binding Residues - M.Sc. Computer Science, National Chung Cheng University (1999.9~2001.6)
Advisor: Dr. Sun Wu
Thesis: Personalized Information Subscription and Search. [doc], [ppt] - B.Sc. Computer Science & Engineering, Yuan-Ze University (1995.9~1999.6)
Research Interest
- Structural Bioinformatics
- Bioinformatics
- Machine Learning
- Data Mining
Awards
- Yu-Feng Huang, Chia-Chen Chang, Chien-Kang Huang, "Residue Environment Property Explorations on DNA-binding Proteins," Best Poster Award (2008), Asia Pacific Bioinformatics Conference (APBC2008), Kyoto, Japan, Jan. 14-17 2008. [Link] | [Award]
- John Yu-Feng Huang, Chi-Jun Sheu, Tian-Wei Hsu, Chien-Kang Huang, "Mining Conserved Local Structure from Functional Hierarchical Classification via Local Structure Comparison," Good Paper Award (2006), Computer Society of The Republic of China (中華民國電腦學會 95年度優良論文 佳作獎)
Publications [DBLP]
- Journal papers
- Yu-Feng Huang, Chun-Chin Huang, Yu-Cheng Liu, Yen-Jen Oyang, Chien-Kang Huang, "DNA-binding Residues and Binding Mode Prediction with Binding-Mechanism Concerned Models," BMC Genomics, 10(Suppl 3):S23 (Supplement for International Conference on Bioinformatics, InCoB2009), 2009. (SCI: 3.93) [DOI]
- Wen-Yi Chu, Yu-Feng Huang, Chun-Chin Huang, Yi-Sheng Cheng, Chien-Kang Huang, Yen-Jen Oyang, "ProteDNA: a sequence-based predictor of sequence-specific DNA-binding residues in transcription factors," Nucleic Acids Research, Web Server Issue, 2009. (SCI: 6.878) [DOI]
| Main Site | Mirror Site 1 | Mirror Site 2 |
- Lecture Notes in Computer Science
- Yu-Feng Huang, Chia-Chen Chang, Chien-Kang Huang, "Massive Protein Structural Property Explorations using New Indexing Mechanism," Lecture Notes in Computer Science (LNCS), 2007(4802). (EI) [DOI]
- Conference papers
- Yu-Feng Huang, Li-Yuan Chiu, Chun-Chin Huang and Chien-Kang Huang, "Predicting RNA-binding residues from evolutionary information and sequence conservation," International Conference on Bioinformatics (InCoB2010), Tokyo, Japan, September 26-28, 2010, Accepted.
- Yu-Feng Huang, Chun-Chin Huang, Yu-Cheng Liu, Yen-Jen Oyang, Chien-Kang Huang, "DNA-binding Residues and Binding Mode Prediction with Binding-Mechanism Concerned Models," International Conference on Bioinformatics (InCoB2009), Singapore, September 7-11, 2009, Accepted.
- Yi-Zhong Weng, Chien-Kang Huang, Yu-Feng Huang, Chi-Yuan Yu, Darby Tien-Hao Chang, "Introducing sequence-order constraint into prediction of protein binding sites with automatically extracted templates," International Conference on Bioinformatics and Bioengineering (ICBB2009), Tokyo, Japan, May 27-29, 2009. [PDF]
- Yu-Feng Huang, Chia-Jui Yang, Yi-Wei Yang, Chien-Kang Huang, "Spatial Encoding Scheme for Protein Supporting Structure Discovery," The 9th IEEE International Conference on Bioinformatics and Bioengineering (BIBE2009), Taichung, Taiwan, June 22-24, 2009.
- Yu-Feng Huang, Chia-Jui Yang, Yi-Wei Yang, Chun-Chin Huang, Chien-Kang Huang, "Protein Supporting Structure Discovery by Rigid Structure Identification via One-dimensional Structural Signature," IEEE International Conference on Bioinformatics and Biomedicine (BIBM2008), Philadelphia, USA, Nov. 3-5, 2008. [DOI]
- Yu-Feng Huang, Chia-Chen Chang, Chien-Kang Huang, "Massive Protein Structural Property Explorations using New Indexing Mechanism," First International Workshop on Conceptual Modelling for Life Sciences Applications (CMLSA2007), Auckland, New Zealand, Nov. 5-9, 2007. [DOI]
- Yhi Shiau, Jia-Nan Wang, Yu-Feng Huang, Chien-Kang Huang, "Heuristic Strategy for Geometric Hashing based Protein Structure Comparison of Ellipsoidal Representation," The 2007 IEEE International Conference on Bioinformatics and Biomedicine (BIBM2007), Silicon Valley, USA, Nov. 2-4, 2007. [DOI]
- Yu-Feng Huang, Yu-Shin Lin, Tian-Wei Hsu, Chien-Kang Huang, "Mining Conserved Structures of Enzymes from Functional Hierarchical Classification," The IEEE 7th International Conference on Bioinformatics & Bioengineering (BIBE2007), Boston, Massachusetts, USA, Oct. 14-17, 2007. [DOI]
- Yhi Shiau, Yu-Feng Huang, Chien-Kang Huang, "A Study on Local Structure Representation and Local Conserved Structure Discovery," International Conference of Machine Learning and Cybernetics (ICMLC2007), Hong Kong, China, Aug. 19-22, 2007. Accepted. [DOI]
- John Yu-Feng Huang, Chi-Jun Sheu, Tian-Wei Hsu, Chien-Kang Huang, "Mining Conserved Local Structure from Functional Hierarchical Classification via Local Structure Comparison," In Proc. of International Computer Symposiums (ICS2006), Taipei, Taiwan, Dec. 4-6, 2006. [Paper] [Slides]
- Poster
- Yu-Feng Huang, Chi-Jun Sheu, Tian-Wei Hsu, Chia-Jui Yang, Chien-Kang Huang, "Using Protein Local Structure Comparison Approach to Discover Local conservation for enzyme family," International Conference on Bioinformatics (InCoB2009), Singapore, September 7-11, 2009.
- Yu-Cheng Liu, Win-Li Lin, Shien-Ching Hwang, Yu-Feng Huang, Chien-Kang Huang, Yen-Jen Oyang, "A Sequence-based Dual-model Predictor of protein B-factors," International Conference on Bioinformatics (InCoB2009), Singapore, September 7-11, 2009.
- Yu-Feng Huang, Chia-Jui Yang, Chun-Chin Huang, Chien-Kang Huang, Chun-Yi Huang, Li-Yuan Chiu, Pei-Chun Ko, Chiun-Yao Chiang, "Detecting Protein Structure Flexibility via Rigid Structure Identification," Asia Pacific Bioinformatics Conference (APBC2009), Beijing, China, Jan. 13-16, 2009.
- Yu-Feng Huang, Chia-Chen Chang, Chien-Kang Huang, "Residue Environment Property Explorations on DNA-binding Proteins," Asia Pacific Bioinformatics Conference (APBC2008), Kyoto, Japan, Jan. 14-17, 2008.
- Yhi Shiau, Jia-Nan Wang, Yu-Feng Huang, Chien-Kang Huang, "Geometric Hashing Based Heuristic Strategy for Protein Structure Comparison," 6th Annual International Conference on Computational Systems Bioinformatics (CSB2007), San Diego, California, USA, Aug. 13-17, 2007.
- Technical reports
- Yhi Shiau, Jia-Nan Wang, Yu-Feng Huang, Chien-Kang Huang, "EMPSC: A New Method Based on Ellipsoidal Model for Protein Structure Comparison" [Paper]
Participation
- Course
- Student, Bioinformatics and Comparative Genome Analysis course (BCGA2010), Institut Pasteur Paris - France, Paris, France, July 5 - July 17, 2010 [certificate]
- Conference
- Oral presentation, 2009 Asia-Oceania Top University League on Engineering (AOTULE), Taipei, Taiwan, December 2-3, 2009.
- Oral presentation & Poster section, International Conference on Bioinformatics (InCoB2009), Singapore, September 7-11, 2009.
- Oral presentation, The 9th IEEE International Conference on Bioinformatics & Bioengineering (BIBE2009), Taichung, Taiwan, June 22-24, 2009.
- Poster section, Asia Pacific Bioinformatics Conference (APBC2009), Beijing, China, January 13-16, 2009.
- Oral presentation, IEEE International Conference on Bioinformatics and Biomedicine (BIBM2008), Philadelphia, USA, Nov. 3-5, 2008.
- Poster section, Asia Pacific Bioinformatics Conference (APBC2008), Kyoto, Japan, January 14-17, 2008.
- Oral presentation, First International Workshop on Conceptual Modelling for Life Sciences Applications (CMLSA2007), Auckland, New Zealand, Nov. 5-9, 2007.
- Oral presentation, The IEEE 7th International Conference on Bioinformatics & Bioengineering (BIBE2007), Boston, Massachusetts, USA, Oct. 14-17, 2007.
- Oral presentation, International Conference of Machine Learning and Cybernetics (ICMLC2007), Hong Kong, China, August 19-22, 2007.
- Oral presentation, International Computer Symposiums (ICS2006), Taipei, Taiwan, December 4-6, 2006.
Experience
- 2010.2 ~ , Postdoctoral fellow, Department of Computer Science & Information Engineering, National Taiwan University
- 2005.6 ~ 2009.12, System Administrator, Center for Systems Biology & Bioinformatics, National Taiwan University
- 2003.12 ~ 2009.11, Student Member, Institute of Electrical and Electronics Engineers (IEEE)
- 2005, 2006, 2007, 2008, 2009 NTU Biotech Summer Courses online application system development (nbsc), Center for BioTechnology
- 2005.3 ~ 2005.6, 2005.9 ~ 2005.12, 2006.5 ~ 2006.6, Course Assistant, Writing Course,
Department of Computer Science & Information Engineering, National Taiwan University - 2004.8.1 ~ 2006.7.31, Full-Time Teaching Assistant / System Administrator, Workstation Laboratory,
Department of Computer Science & Information Engineering, National Taiwan University - Course Teaching Assistant
- 2006.2 ~ 2006.6, Calculus & Calculus for 04,
National Taiwan University - 2005.9 ~ 2006.1, Introduction to Computer Language,
Department of Computer Science & Information Engineering, National Taiwan University - 2005.2 ~ 2005.6, Probability,
Department of Computer Science & Information Engineering, National Taiwan University - 2004.9 ~ 2005.1, Database System,
Department of Computer Science & Information Engineering, National Taiwan University - 2004.3 ~ 2004.6, Introduction to Knowledge Engineering,
Department of Computer Science & Information Engineering, National Taiwan University
- 2006.2 ~ 2006.6, Calculus & Calculus for 04,
- 2001.12 ~ 2002.3, eeric.gcc.ntu.edu.tw web site programming
- 1999.8 ~ 2001.9, Service Maintainance, GAIS Laboratory
Useful Links
- Journals
- Related Society
- Tools & software
Contacts
- E-m@il: yfhuang{at}ieee.org, yfhuang{at}csie.ntu.edu.tw, yfhuang{at}gmail.com
- Laboratory: Laboratory of Molecular Biomedical Informatics
- Phone #: 886-2-33664888#410
- Address: R410, Department of Computer Science and Information Engineering, National Taiwan University, No.1, Sec. 4, Roosevelt Road, Taipei, Taiwan 106
- Facebook: yufeng.huang
- plurk: yfhuang
- MSN: yfh1202@hotmail.com
- Skype: yfhuang
- ICQ: 3-913-295
- Last Modified on August 02, 2010.
