Journal papers:

  1. C.-H. Wei, H.-Y. Kao, Z. Lu, "PubTator: a Web-based text mining tool for assisting Biocuration," Nucleic Acids Research, Accepted (SCI IF: 8.026, Rank=26/290)
  2. C.-H. Wei and H.-Y. Kao,"Unsupervised Corpus Distillation for Represented Indicator Measurement on Focus Species Detection," accepted byInternational Journal of Data Mining and Bioinformatics.
  3. Y.-T. Tang, H.-Y. Kao, S.-J. Tsai, H.-C. Wang, "A semi-supervised, weighted pattern-learning approach for extraction of gene regulation relationships from scientific literature, " accepted by International Journal of Data Mining and Bioinformatics.
  4. C.-H. Wei, B. R. Harris, D. Li, T. Z. Berardini, E. H., H.-Y. Kao, and Z. Lu, ¡§Accelerating literature curation with text mining tools: A case study of using PubTator to curate genes in PubMed abstracts,¡¨ DATABASE, 2013. (Accepted) (SCI IF: 3.179, Rank=4/47) (to appear).
  5. S. V. Landeghem, J. Bjorne, C.-H. Wei, K. Hakala, S. Pyysalo, S. Ananiadou, H.-Y. Kao, Z. Lu, T. Salakoski, Y. V. de Peer, F. Ginter, "Large-Scale Event Extraction from Literature with Multi-Level Gene Normalization. PLoS ONE, 2013. (Accepted).
  6. C.-H. Wei, B. R. Harris, H.-Y. Kao, Z. Lu, ¡§tmVar: A text mining approach for extracting sequence variants in biomedical literature¡¨ Bioinformatics, 2013, doi:10.1093/bioinformatics/btt156.
  7. Y.-T. Tang and H.-Y. Kao, " Augmented Transitive Relationships with High Impact Protein Distillation in Protein Interaction Prediction," BBA - Proteins and Proteomics, Volume 1824, Issue 12, December 2012, Pages 1468¡V1475, DOI:10.1016/j.bbapap.2012.05.013. (SCI IF=2.773 Rank=36/73)
  8. C.-H. Wei, H.-Y. Kao, Z. Lu, "SR4GN: A Species Recognition Software Tool for Gene Normalization, " PLoS ONE 7(6): e38460. doi:10.1371/journal.pone.0038460, 2012.(SCI IF=4.351 Rank=12/86)
  9. Z. Lu, H.-Y. Kao, C.-H. Wei, et. al., "The Gene Normalization Task in BioCreative III, "BMC Bioinformatics 12(Suppl 8):S2, 2011. (SCI IF= 4.029 Rank=4/37)
  10. C.-H. Wei and H.-Y. Kao, "Cross-species gene normalization by species inference," BMC Bioinformatics 12(Suppl 8):S5, 2011. (SCI IF= 4.029 Rank=4/37)
  11. Y.-T. Tang, S.-J. Li, H.-Y. Kao, S.-J. Tsai and H.-C. Wang, ¡§Using Unsupervised Patterns to Extract Gene Regulation Relationships for Network Construction," PLoS ONE 6(5): e19633. doi:10.1371/journal.pone.0019633, May 2011.(SCI IF=4.351 Rank=12/86)
  12. H.-C. Wang, Y.-S. Chen, H.-Y. Kao and S.-J. Tsai, ¡§Inference of transcriptional regulatory network by bootstrapping patterns," Bioinformatics, 27(10), 1422-1428, 2011. (SCI IF= 4.926 Rank=2/37)
  13. C.-L. Lin, H.-Y. Kao, "Blog Popularity Mining Using Social Interconnection Analysis," IEEE Internet Computing, vol. 14, no. 4, pp. 41-49, July/August, 2010. (SCI IF= 2.514 Rank=7/99)
  14. H.-Y. Kao, J.-M. Ho and M.-S. Chen, "WISDOM: Web Intra-page Informative Structure Mining based on Document Object Model," IEEE Trans. on Knowledge and Data Engineering, Vol. 17, No. 5, May 2005.
  15. H.-Y. Kao, S.-H. Lin, J.-M. Ho and M.-S. Chen, "Mining Web Information Structures and Contents based on Entropy Analysis," IEEE Trans. on Knowledge and Data Engineering, Vol. 16, No. 1, January 2004.

Conference papers:

  1. Y.-F. Lin and H.-Y. Kao, "The Retrieval of Important News Stories by Influence Propagation among Communities and Categories,¡¨ Proc. of IEEE/WIC/ACM International Conference on Web Intelligence (WI-2012), Dec. 4 - Dec. 6, 2012.
  2. L.-C. Lai and H.-Y. Kao, "Question Routing by Modeling User Expertise and Activity in cQA services," Proc. of the 26th Annual Conference of JSAI, Yamaguchi, Japan, 2012.
  3. C.-H. Wei, H.-Y. Kao and Z. Lu, "PubTator: A PubMed-like interactive curation system for document triage and literature curation", BioCreative 2012 workshop, Washington DC, USA, 145-150, 2012.
  4. Y.-Y. Hsu and H.-Y. Kao, "CoIN: a network exploration for document triage", BioCreative 2012 workshop, Washington DC, USA, 39-44, 2012.
  5. Y.-T. Tang and H.-Y. Kao, " Augmented Transitive Relationships with High Impact Protein Distillation in Protein Interaction Prediction," Proc. of the 10th Asia Pacific Bioinformatics Conference (APBC-2012), Jan. 17-19, 2012.
  6. Wen-Teng Yang and H.-Y. Kao, "Measuring Semantic Relatedness using Wikipedia Revision Information in a Signed Network," Proc. of the 2011 Conference on Technologies and Applications of Artificial Intelligence (TAAI 2011), Nov. 11-13.
  7. H.-Y. Kao, Y.-T. Tang and J.-F. Wang, ¡§Evolutional dependency parse trees for biological relation extraction," Proc. of 2011 IEEE International Conference on Bioinformatics and Bioengineering (BIBE-2011), Oct. 24-26, 2011.
  8. H.-C. Huang and H.-Y. Kao , "CAIS: Community based Annotation Insight Search in a Folksonomy Network," Proc. of 2011 International Conference on Social Networks Analysis and Mining (ASONAM-2011), July 25-July 27, 2011. (acceptance rate 25%)
  9. Y.-T. Tang and H.-Y. Kao, "Augmented Transitive Relationships in Direct Protein¡VProtein Interaction Prediction, " Proc. of 4th International Workshop on Intelligent Informatics in Biology and Medicine (IIBM-2011), June 30- July 2, 2011.
  10. Y.-T. Tang and H.-Y. Kao, "TransDomain: A Transitive Domain-Based Method in Protein¡VProtein Interaction Prediction, " Proc. of 7th International Symposium on Bioinformatics Research and Applications (ISBRA-2011), May 27-29, 2011.
  11. Y.-F. Lin, J.-H. Wang, L.-C. Lai, H.-Y. Kao, "Top Stories Identification From Blog to News In TREC 2010 Blog Track," Proc. of TREC-2010, 2010.
  12. H.-Y. Kao and C.-H. Wei, "Inference network method on cross species gene normalization in full-text articles," Proc. of 2010 BioCreative III workshop, Bethesda, Maryland, 73-81, 2010.
  13. C.-H. Wei and H.-Y. Kao, "Represented Indicator Measurement and Corpus Distillation on Focus Species Detection,¡¨ Proc. of 2010 IEEE International Conference on Bioinformatics & Biomedicine (BIBM-2010), Dec. 18-21, 2010. (acceptance rate 18.8%)
  14. Y.-L. Chen and H.-Y. Kao, ¡§Finding Hard Questions by Knowledge Gap Analysis in Question Answer Communities,¡¨ Proc. of the Sixth Asia Information Retrieval Symposium (AIRS-2010), December 1-3, 2010.
  15. H.-Y. Kao and Z.-Y. Lin, , "A Categorized Sentiment Analysis of Chinese Reviews by Mining Dependency in Product Features and Opinions from Blogs, " Proc. of IEEE/WIC/ACM International Conference on Web Intelligence (WI-2010), Sept 1-3, 2010.
  16. C.-L. Lin, H.-L. Tang and H.-Y. Kao, "Utilizing Social Relationships for Blog Popularity Mining," Proc. of the The Fifth Asia Information Retrieval Symposium (AIRS-2009), October 21-23, 2009.
  17. H.-Y. Kao and W.-T. Cho, "Entropy-based Visual Tree Evaluation on Block Extraction," Proc. of IEEE/WIC/ACM International Conference on Web Intelligence (WI-2009), Sept 15-18, 2009.
  18. W.-J. Chen, P.-C. Chuang and H.-Y. Kao, "Hidden Markov Model Based DNA-binding Proteins Prediction by Mining on Sequence and Structure Information," Proc. of 2008 International Computer Symposium (ICS-2008), Nov13-15. 2008.
  19. H.-Y. Kao, C.-S. Liu, C.-C. Shih and T.-M. Tsai, "DRANK+: a directory based pagerank prediction method for fast pagerank convergence,"Proc. of 4th International Conference on Web Information Systems and Technologies (WEBIST-08), May 4-7, 2008.
  20. H.-Y. Kao, H.-W. Hsiao, C.-L. Lin, C.-C. Shih and T.-M. Tsai, "An Entropy-Based Hierarchical Search Result Clustering Method by Utilizing Augmented Information," Proc. of the Asia Information Retrieval Symposium (AIRS-08), January 16-18, 2008.
  21. H.-Y. Kao and S.-F. Lin, "A Fast PageRank Convergence Method based on the Cluster Prediction," Proc. of IEEE/WIC/ACM International Conference on Web Intelligence (WI-2007), Nov. 2-5, 2007.
  22. Y.-F. Tseng and H.-Y. Kao, "The Mining and Extraction of Primary Informative Blocks and Data Objects from Systematic Web Pages," Proc. of IEEE/WIC/ACM International Conference on Web Intelligence (WI-2006), 2006.
  23. C.-L. Lin and H.-Y. Kao, "Query Result Aggregation on Multiple Search Engines," Proc. of International Workshop on Software Engineering, Databases, and Knowledge Discovery, 2006.
  24. Y.-F. Tseng and H.-Y. Kao, "Web Information Hierarchy and Importance Mining Based on DOM Information Distillation," Proceedings of the 5th Emerging Information Technology Conference (EITC-05), August 15-16, 2005.
  25. H.-Y. Kao, J.-M. Ho and M.-S. Chen, "DOMISA: DOM-based Information Space Adsorption for Web Information Hierarchy Mining," Proc. of the 4th SIAM Intern'l Conference on Data Mining (SDM-04), April 22-24, 2004.
  26. I-A. Huang, J.-M. Ho, H.-Y. Kao and W.-C. Lin, "Extracting Citation Metadata from Online Publication Lists Using BLAST," Proc. of the Eighth Pacific-Asia Conference on Knowledge Discovery and Data Mining (PAKDD-04), May 26-28, 2004.
  27. H.-Y. Kao, J.-M. Ho and M.-S. Chen, "Clustering for Web Information Hierarchy Mining," Proc. of the IEEE 2003 Intern'l Conf. on Web Intelligence (WI-2003), October 13-17, 2003.
  28. H.-Y. Kao, S.-H. Lin, J.-M. Ho and M.-S. Chen, "Entropy-Based Link Analysis for Mining Web Informative Structures," Proc. of the ACM 11th International Conf. on Information and Knowledge Management (CIKM-02), November 4-9, 2002.
  29. Chia-Hui Wang, H.-Y. Kao, Shin-Hung Chang, Ray-I Chang, Shun-Chin Hsu and Jan-Ming Ho, "Design and Implementation of an Interactive True VOD System on ADSL with Scarce Resources at the Set-top Box," The International Computer Symposium on Workshop on Computer Networks, Internet, and Multimedia, Taiwan, Aug., 2000.
  30. H.-Y. Kao, S.-Y. Iap, Y.-T. Lee, S.-H. Lin, et. al. "Design and Implementation of ASIS Multimedia Digital Library," Proc. of SPIE on Multimedia Systems and Applications, 1999.
  31. H.-Y. Kao, S.-Y. Iap, C.-F. Ku, Y.-T. Lee, S.-H. Lin, Y.-C. Pan, C.-S. Shih, C.-H. Wang, Y.-C. Wang, M.-C. Chen, J.-M. Ho and M.-T. Kao, "ASIS MDL: a prototype electronic content service," IEEE workshop on Dependable and Real-time E-Commerce Systems, Denver, U.S.A , 1998.
  32. H.-Y. Kao, Y.-C. Kuo, S.-T. Huang and B.-F. Wang, "Design and Implementation of a PC-based Video-On-Demand System," The 12th International Conference on information Networking (ICOIN-12), Jan. 1998.

Thesis:

  1. H.-Y. Kao, "Informative Structure and Information Hierarchy Mining in a Systematic Web Site," Ph.D Thesis, Department of Electrical Engineering at National Taiwan University, R.O.C.
  2. H.-Y. Kao, "Design and Implementation of a PC-based Video-On-Demand System" Master Thesis, Department of Computer Science at National Tsing Hua University, R.O.C.