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Chun-Nan's Publications
許 鈞 南 的著作
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This Web page is retired and will no longer be updated.
Please visit my new Web pages:
http://isi.edu/integration/people/chunnan
or
http://www.iis.sinica.edu.tw/pages/chunnan/index_en.html
For copies of my new papers, please visit
http://aiia.iis.sinica.edu.tw/index.php?option=com_docman&task=cat_view&gid=39&Itemid=41
Thank you
and adios!!!!
Note:
All articles linked from this Web page are pre-press versions.
Please check with the publishers for authenticated versions.
(A) Refereed Journal Articles
Lin et al. 2010 
Yu-Shi Lin, Chung-Chih Lin, Yuh-Show Tsai, Tien-Chuan Ku, Yi-Hung Huang and Chun-Nan Hsu
A spectral graph theoretic approach to quantification and calibration of collective morphological differences in cell images.
Bioinformatics, 26(12):i29-i37. July 2010 (Proceedings of the 18th ISMB). doi:10.1093/bioinformatics/btq194 [Online Version]
Li et al. 2010
Sung-Chou Li, Wen-Ching Chan, Ling-Yueh Hu, Chun-Hung Lai, Chun-Nan Hsu and Wen-chang Lin
Identification of homologous microRNAs in 56 animal genomes.
Genomics, In Press. March 2010. doi:10.1016/j.ygeno.2010.03.009 [Online Version]
Tsai et al. 2010
Kuo-Wang Tsai, Wen-Ching Chan, Chun-Nan Hsu and Wen-chang Lin
Sequence features involved in the mechanism of 3' splice junction wobbling.
BMC Molecular Biology 11:34. 2010. doi:10.1186/1471-2199-11-34 [Online Version]
Nanni et al. 2010
Loris Nanni, Alessandra Lumini, Yu-Shi Lin, Chun-Nan Hsu and Chung-Chih Lin.
Fusion of systems for automated cell phenotype image classification.
Expert Systems with Applications 37(2):1556—1562. March 2010. doi:10.1016/j.eswa.2009.06.062 [Online Version]
Chan et al. 2010
Wen-Ching Chan, Po-Huang Liang, Yan-Ping Shih, Ueng-Cheng Yang, Wen-Chang Lin, and Chun-Nan Hsu.
Learning to predict expression efficacy of vectors in recombinant protein production.
BMC Bioinformatics 11(Suppl 1):S21, January 2010. Supplement for selected articles from the APBC 2010 conference, Bangalore, India. doi:10.1186/1471-2105-11-S1-S21[Online Version]
Hsu et al. 2009
Chun-Nan Hsu, Han-Shen Huang, Yu-Ming Chang and Yuh-Jye Lee.
Periodic step-size adaptation in second-order gradient descent for single-pass on-line structured learning.
Machine Learning 77(2-3):195—224, December 2009. Special Issue on Structured Prediction. doi:10.1007/s10994-009-5142-6 [Online Version]
Kuo et al. 2009
Cheng-Ju Kuo, Maurice HT Ling, Kuan-Ting Lin and Chun-Nan Hsu.
BIOADI: a machine learning approach to identifying abbreviations and definitions in biological literature.
BMC Bioinformatics 10(Suppl 15):S7, December 2009. Supplement for selected articles from the InCoB 2009 conference, Singapore. doi:10.1186/1471-2105-10-S15-S7[Online Version]
Huang
et al. 2009
Han-Shen
Huang, Bo-Hou Yang, Yu-Ming Chang, and Chun-Nan Hsu
Global and componentwise extrapolations for
accelerating training of Bayesian networks and conditional random fields.
Data Mining and Knowledge Discovery 19(1):58—94 , August 2009 [Online
Version].
Early draft as IIS Tech Report [TR-07-013]
Lyu et al. 2008
Dau-Cheng Lyu, Chun-Nan Hsu, Yuang-Chin
Chiang, and Ren-Yuan Lyu
Acoustic model optimization for multilingual speech recognition.
International Journal of Computational
Linguistics and Chinese Language Processing, 13(3):363—386,
September, 2008 [Online
Version]
Smith et al.
2008
Larry Smith, Lorraine K
Tanabe, Rie Johnson nee Ando, Cheng-Ju Kuo, I-Fang
Chung, Chun-Nan Hsu, Yu-Shi Lin, and 27 other co-authors.
Overview of BioCreative II gene
mention recognition.
Genome Biology, 9(Suppl 2):S2, September 1, 2008 (Proceedings of the BioCreative II - Critical Assessment for Information
Extraction in Biology Challenge). [Online Version] [Project Website]
Morgan et al.
2008
Alexander A Morgan, 15 other
co-authors , Chun-Nan Hsu, Martijn Schuemie, K Bretonnel Cohen and
Lynette Hirschman.
Overview of BioCreative II gene
normalization.
Genome Biology, 9(Suppl 2):S3, September 1, 2008 (Proceedings of the BioCreative II - Critical Assessment for Information
Extraction in Biology Challenge). [Online Version]
Leitner et al. 2008
Florian Leitner, Martin Krallinger,
Carlos Rodriguez-Penagos, Jörg
Hakenberg, Conrad Plake,
Cheng-Ju Kuo, Chun-Nan Hsu, and 25 other co-authors.
Introducing meta-services for biomedical information
extraction.
Genome Biology, 9(Suppl 2):S6, September 1, 2008 (Proceedings of the BioCreative II - Critical Assessment for Information
Extraction in Biology Challenge). [Online Version] [Project Website]
Hsu et al.
2008
Chun-Nan Hsu,
Yu-Ming Chang, Cheng-Ju Kuo, Yu-Shi Lin, Han-Shen
Huang and I-Fang Chung.
Integrating high dimensional bi-directional parsing models
for gene mention tagging.
Bioinformatics, 24(13):i286—i294,
2008 (Proceedings of the 16th International Conference on Intelligent Systems
for Molecular Biology ISMB 2008). [Online
Version] [Project
Website]
Lyu et al. 2008
Dau-Cheng
Lyu, Ren-Yuan Lyu, Yuang-chin Chiang and
Chun-Nan Hsu.
Cross-lingual audio-to-text alignment for multimedia
content management.
Decision Support Systems, 45(3):554—566,
Special Issue on Multilingual Knowledge Management, 2008. [Online Version]
Lin et al.
2007
Chung-Chih
Lin, Yuh-Show Tsai, Yu-Shi Lin, Tai-Yu Chiu, Chia-Cheng Hsiung, May-I Lee,
Jeremy C. Simpson, Chun-Nan Hsu.
Boosting Multiclass Learning with Repeating Codes and Weak
Detectors for Protein Subcellular Localization.
Bioinformatics, 23(24):3374—3381, 2007. [Online
Version]
Hsu et al.
2007
Chun-Nan Hsu, Jin-Mei Lai, Chia-Hung Liu,Huei-Hun Tseng, Chih-Yun Lin, Kuan-Ting Lin, Hsu-Hua Yeh, Ting-Yi Sung, Wen-Lian Hsu, Li-Jen Su, Sheng-An Lee, Chan-Han Chen, Gen-Cher Lee, D.T. Lee,
Yow-Ling Shiue, Chang-Wei Yeh, Chao-Hui Chang, Cheng-Yan Kao, Chi-Ying F. Huang.
Detection of the inferred interaction network in
hepatocellular carcinoma from EHCO (Encyclopedia of Hepatocellular Carcinoma
genes Online).
BMC Bioinformatics, 8(66):1471—2105,
2007. [Online Version]
Yuan et al.
2006
Hsiang-Yu Yuan, Jen-Jie Chiou, Wen-Hsien
Tseng, Chia-Hung Liu, Chuan-Kun Liu,Yi-Jung
Lin, Hui-Hung Wang, Adam Yao, Yuan-Tsong Chen and Chun-Nan Hsu.
FASTSNP: an always up-to-date and extendable service for SNP function
analysis and prioritization.
Nucleic Acids Research, 34 (Web Server
issue): W635—W641, 2006. [Online
Version]
Lyu et al. 2005a
Dau-Cheng
Lyu, Ren-Yuan Lyu, Yuang-chin Chiang and
Chun-Nan Hsu.
Modeling Pronounciation
Variation for Bi-Lingual Mandarin/Taiwanese Speech Recognition.
International Journal of Computational
Linguistics and Chinese Language Processing, 10(3):363—380,
September 2005.
Hsu,
Chang, Hsieh, Lu and Chang 2005
Chun-Nan Hsu, Chia-Hui Chang, Chang-Huain
Hsieh, Jiann-Jyh Lu and Chien-Chi Chang
Reconfigurable Web wrapper agents for biological information integration.
Journal of the American Society for Information Science and Technology,
56(5):505—517, Special Issue on Bioinformatics, 2005. [Online
Version]
Hsu, Chung and
Huang 2004
Chun-Nan Hsu, Hao-Hsiang Chung and Han-Shen
Huang.
Mining sparse and skewed transaction data for personalized
shopping recommendation.
Machine Learning, 57(1-2):35—59, Special Issue on Data Mining Lessons
Learned, October-November, 2004.
Chun-Nan Hsu,
Hung-Ju Huang and Tzu-Tsung
Wong.
Implications of the Dirichlet
assumption for discretization of continuous variables
in naive Bayesian classifiers.
Machine Learning, 53(3):235—263, December, 2003.
Chang, Siek, Lu, Chiou and Hsu 2003
Chia-Hui
Chang, Harianto Siek, Jiann-Jyh Lu, Jen-Jie Chiou and Chun-Nan Hsu.
Reconfigurable Web wrapper agents.
IEEE Intelligent Systems, 18(5):34—40, Special Issue on Web Information
Integration, September/October 2003.
Chia-Hui
Chang, Chun-Nan Hsu and Shao-Cheng Lui.
Automatic information extraction from semi-structured Web
pages by Pattern Discovery.
Decision Support Systems, 35(1):129—147, Special Issue on Web Retrieval
and Mining, April, 2003.
Euna
Jeong and Chun-Nan Hsu.
View inference for heterogeneous XML information integration.
Journal of Intelligent Information Systems, 20(1):81—99, Special Issue
on Web Intelligence, January, 2003.
Hung-Ju Huang and Chun-Nan Hsu.
Bayesian classification for data from the same unknown
class.
IEEE Transactions on Systems, Man, and Cybernetics Part B,
32(2):137—145, APRIL 2002.
Chun-Nan Hsu,
Hung-Ju Huang and Dietrich Schuschel.
The ANNIGMA-wrapper approach to fast feature selection for
neural nets.
IEEE Transactions on Systems, Man, and Cybernetics Part B,
32(2):207—212, APRIL 2002.
Chun-Nan Hsu and
Craig A. Knoblock.
Semantic query optimization for query plans of heterogeneous multi-database
systems.
IEEE Transactions on Knowledge and Data Engineering, 12(6):959—978,
NOVEMBER/DECEMBER 2000.
Chun-Nan Hsu and
Craig A. Knoblock.
Discovering robust knowledge from databases that change.
Data Mining and Knowledge Discovery, 2(1):69—95, 1998.
Chun-Nan Hsu and
Ming-Tzung Dung.
Generating finite-state transducers for semistructured data extraction from the web.
Information Systems, 23(8):521—538, Special Issue on Semistructured
Data, December 1998.
Yigal
Arens, Chin Y. Chee,
Chun-Nan Hsu, and Craig A. Knoblock.
Retrieving and integrating data from multiple information sources.
International Journal of Intelligent and Cooperative Information Systems,
2(2):127—158, June 1993.
(B) Books and Book Chapters
Chia-Hui
Chang and Chun-Nan Hsu.
Learning Information Extraction for Web Data Mining
In John Wang, editor, Encyclopedia of Data Warehousing and Mining.
Idea Group Publishing, Hershey, PA, 2005.
Yigal
Arens, Chun-Nan Hsu, and Craig A. Knoblock.
Query processing in the SIMS information mediator.
In Austin Tate, editor, Advanced Planning Technology.
The AAAI Press, Menlo Park, CA, 1996. Also appearing
in Michael N. Huhns and Munindar
P. Singh, editors, Readings in Agents, Section 2.2, page 82—90, Morgan
Kaufmann, San Francisco, CA, USA, 1998.
Chun-Nan Hsu and
Craig A. Knoblock.
Using inductive learning to generate rules for semantic
query optimization.
In Usama M. Fayyad, Gregory Piatetsky-Shapiro,
Padhraic Smyth, and Ramasamy
Uthurusamy, editors, Advances in Knowledge
Discovery and Data Mining, chapter 17. AAAI Press/MIT
Press, 1996.
Chun-Nan Hsu.
Learning Effective and Robust Knowledge for Semantic
Query Optimization.
PhD thesis, Department of Computer Science, University of
Southern California, 1996.
Available as USC/ISI Technical Report RR-96-451, or
ftp://ftp.isi.edu/isi-pubs/rr-96-451.ps.Z.
(C) Refereed Conference Papers
Hsu et al.
2009
Chun-Nan Hsu,
Yu-Ming Chang, Han-Shen Huang and Yuh-Jye Lee.
Periodic Step-Size Adaptation for Single Pass On-line
Learning.
In Y. Bengio, D. Schuurmans,
J. Lafferty, C. K. I. Williams and A. Culotta,
editors, Advances in Neural Information Processing Systems 22 (NIPS*2009),
pp.763—771, Vancouver, Canada, December 7-10, 2009.
Lin et al. 2009
Yu-Shi
Lin, Yi-Hung Huang, Chung-Chih Lin and Chun-Nan Hsu.
Feature Space Transformation for Semi-Supervised
Learning for Protein Subcellular Localization in
Fluorescence Microscopy Images.
In Proceedings of 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro (IEEE ISBI 2009), pp. 414—418, Boston, MA, USA. June 28-July 1,
2009.
Huang
et al. 2009
Han-Shen Huang, Bo-Hou Yang, Ren-Yuan
Lyu and Chun-Nan Hsu.
Accelerating EM by Targeted Aggressive Double
Extrapolation.
In Proceedings of IEEE International Conference
on Acoustics, Speech and Signal Processing (IEEE ICASSP 2009), pp. 1609—1602, Taipei, Taiwan, April 19-24, 2009.
Lin et al. 2008
Yu-Shi Lin,
Chung-Chi Lin, Yuh-Show Tsai, Tien-Chuan
Ku, Yi-Hung Huang and Chun-Nan Hsu.
Re-weighting Graph Links for Quantifying Difference.
Poster presentation in NIPS*2008 Workshop on Analyzing
Graphs, Theory and Practice, Whistler, Canada, December 12-13, 2008.
Huang et al. 2008
Han-Shen Huang, Yu-Ming Chang and Chun-Nan Hsu.
Componentwise triple jump acceleration for training linear SVM.
Oral presentation in the Pascal Large Scale Learning Challenge Workshop in
the 25th International Conference on Machine Learning (ICML-2008),
Helsinki, Finland, July 9, 2008.
Chang
et al. 2007
Yu-Ming Chang,
Cheng-Ju Kuo, Han-Shen Huang, Yu-Shi Lin and Chun-Nan
Hsu.
Analysis and Enhancement of Conditional Random Fields Gene
Mention Taggers in BioCreative II Challenge
Evaluation.
Presented in The 2nd International Symposium on Languages
in Biology and Medicine (LBM 2007) (Short Paper), 4.1—4.14, Singapore, December
6-7, 2007. [On-line Proceedings
Version]
Hsu et al.
2007
Chun-Nan Hsu, Han-Shen Huang, and Yu-Ming Chang.
Efficient Off-line and On-line Algorithms for Training
Conditional Random Fields by Approximating Jacobians.
Poster Presentation in NIPS*2007 Workshop on Efficient Machine Learning,
Whistler, Canada, December 7-8, 2007.
Lin
et al. 2007
Kuan-Ting Lin, Chia-Hung Liu, Jen-Jie Chiou, Wen-Hsien Tseng, Kuang-Lung Lin, Chun-Nan Hsu.
Gene Name Service : No-Nonsense Alias Resolution
Service for Homo Sapiens Genes.
In Proceedings, 2007 IEEE/WIC/ACM International Conference
on Web Intelligence and Intelligent Agent Technology-Workshops (WI-IAT
Workshops 2007), Workshop on Bio-Medicine Applications of Web Technologies
(BMWT-2007), pp.185—188, Silicon Valley, CA, USA, November 5, 2007. [Gene Name Service Web site]
Huang et al.
2007
Han-Shen Huang, Yu-Ming Chang and Chun-Nan Hsu.
Training Conditional Random Fields by Periodic Step Size
Adaptation for Large-Scale Text Mining.
In Proceedings of the Seventh International Conference on
Data Mining (ICDM-2007) pp.511—516 (Short Paper), Omaha,
NE, USA October 28-31, 2007. IEEE Press.
Kuo et al.
2007a
Cheng-Ju Kuo, Yu-Ming Chang,
Han-Shen Huang, Kuan-Ting
Lin, Bo-Hou Yang, Yu-Shi Lin, Chun-Nan Hsu and I-Fang Chung.
Rich Feature Set, Unification of Bidirectional Parsing and Dictionary
Filtering for High F-Score Gene Mention Tagging.
In Proceedings of the Second BioCreative
Challenge Evaluation Workshop (BioCreative II).
pp. 105—107, Madrid, Spain, April 23-25, 2007. [Gene Mention Service Web
Site]
Kuo et al.
2007b
Cheng-Ju Kuo, Yu-Ming Chang,
Han-Shen Huang, Kuan-Ting
Lin, Bo-Hou Yang, Yu-Shi Lin, Chun-Nan Hsu and I-Fang Chung.
Exploring Match Scores to Boost Precision of Gene
Normalization.
In Proceedings of the Second BioCreative
Challenge Evaluation Workshop (BioCreative II).
pp. 161—163, Madrid, Spain, April 23-25, 2007.
Huang et al.
2007
Han-Shen
Huang, Yu-Shi Lin, Kuan-Ting Lin, Cheng-Ju Kuo,
Yu-Ming Chang, Bo-Hou Yang, I-Fang Chung and Chun-Nan Hsu.
High-Recall Gene Mention Recognition by Unification of
Multiple Backward Parsing Models.
In Proceedings of the Second BioCreative
Challenge Evaluation Workshop (BioCreative II).
pp. 109—111, Madrid, Spain, April 23-25, 2007. [Gene Mention Service Web
Site]
Hsu et al.
2006
Chun-Nan Hsu,
Bo-Hou Yang and Han-Shen Huang.
Global and Componentwise
Extrapolation for Accelerating Data Mining from Large Incomplete Data Sets with
the EM Algorithm.
In Proceedings of the Sixth International Conference on Data Mining
(ICDM-2006) pp. 265—274 (Regular Paper), Hong
Kong, China, December 18-22, 2006. IEEE Press.
Lin et al. 2006
Yu-Shi Lin and
Chun-Nan Hsu.
Boosting Multiclass Learning with Repeating Codes.
In Proceedings 2006 TAAI Conference on Artificial
Intelligence and Applications (TAAI 2006), pp.591—598, Kaohsiung, Taiwan.
2006.
Lyu et al. 2006
Dau-Cheng
Lyu, Ren-Yuan Lyu, Yuang-chin Chiang and
Chun-Nan Hsu.
Speech Recognition on Code-Switching Among the Chinese
Dialects.
In Proceedings 2006 IEEE International Conference on Acoustics, Speech, and
Signal Processing (ICASSP 2006), Toulouse, France. 2006.
Lyu et al. 2005
Dau-Cheng
Lyu, Ren-Yuan Lyu, Yuang-chin Chiang and
Chun-Nan Hsu.
A Bi-lingual TV News-to-Document Indexing System.
In Proceedings 2005 TAAI Conference on Artificial Intelligence and
Applications (TAAI2005), National Kaohsiung University, Kaohsiung, Taiwan.
2005. 台灣高雄大學.
Huang et al. 2005
Han-Shen Huang, Bo-Hou Yang and Chun-Nan Hsu.
Triple-Jump Acceleration for the EM Algorithm.
In Proceedings of the Fifth International Conference on Data Mining
(ICDM-2005) pp. 649—652 (Short Paper), Houston,TX,
USA, November 27-30, 2005. IEEE Press.
Lin et al. 2005
Koung-Lung Lin, Jane
Yung-jen Hsu, Han-Shen
Huang, and Chun-Nan Hsu.
A Recommender for Targeted Advertisement of Unsought
Products in E-Commerce.
In Proceedings
of the Seventh International IEEE Conference on E-Commerce Technology 2005.
[WinZipped PostScript] Huang and Hsu 2000
[GZipped PDF] Hsu, Huang and Wong 2000
[WinZipped PostScript] Chang and Hsu
1999