Limsoon's Papers

Good judgment comes from experience and experience comes from bad judgment.

    Books

  1. Hideo Matsuda, Limsoon Wong, Satoru Miyano, Toshihisa Takagi, editors. Genome Informatics 2001, Universal Academic Press, Tokyo, Japan, December 2001.

  2. Louxin Zhang, Limsoon Wong, editors. Selected Topics in Post-Genome Knowledge Discovery, Singapore University Press, Singapore, May 2004. (176 pages)

  3. Limsoon Wong, editor. The Practical Bioinformatician, World Scientific, New Jersey, May 2004. (540 pages)

  4. Yi-Ping Phoebe Chen, Limsoon Wong, editors. Proceedings of the 3rd Asia-Pacific Bioinformatics Conference, Imperial College Press, London, January 2005. (384 pages)

  5. Tao Jiang, Ueng-Cheng Yang, Phoebe Chen, Limsoon Wong, editors. Proceedings of the 4th Asia-Pacific Bioinformatics Conference, Imperial College Press, London, February 2006. (363 pages)

  6. Jagath C. Rajapakse, Limsoon Wong, Raj Acharya, editors. Pattern Recognition in Bioinformatics, Springer-Verlag, Berlin, 25 September 2006. (186 pages)

  7. See-Kiong Ng, Hiroshi Mamitsuka, Limsoon Wong, editors. Genome Informatics 2007, Imperial College Press, London, December 2007. (199 pages)

  8. Martin Vingron, Limsoon Wong, editors. Proceedings of the 12th Annual International Conference on Research in Computational Molecular Biology, Springer-Verlag, Berlin, March 2008. (480 pages)

    Book Chapters

  9. Susan Davidson, Peter Buneman, Jonathan Crabtree, Val Tannen, Chris Overton, Limsoon Wong. BioKleisli: Integrating Biomedical Data and Analysis Packages. Bioinformatics: Databases and Systems, edited by Stanley Letovsky, chapter 17, pages 201--212. Kluwer Academic, Boston, 1999.

  10. Limsoon Wong. Bioinformatics Integration Simplified: The Kleisli Way. Frontiers in Human Genetics: Diseases and Technologies, edited by Poh-San Lai and Eric Yap, chapter 6, pages 79--90. World Scientific, Singapore, 2001.

  11. Limsoon Wong. Datamining: Discovering Information from Bio-data. Current Topics in Computational Biology, edited by Tao Jiang, Ying Xu, and Michael Zhang, chapter 13, pages 317--342, MIT Press, Cambridge, MA, 2002.

  12. Jing Chen, Su-Yun Chung, Limsoon Wong. The Kleisli Query System as a Backbone for Bioinformatics Data Integration and Analysis. Bioinformatics: Managing ScientificData, edited by Zoe Lacroix and Terence Critchlow, chapter 6, pages 147--187, Morgan Kaufmann, San Francisco, CA, 2003.

  13. Susan Davidson, Limsoon Wong. The Kleisli Approach to Data Transformation and Integration. The Functional Approach to Data Management: Modeling, Analyzing, and Integrating Heterogeneous Data, edited by Peter Gray, Larry Kerschberg, Peter King, Alex Poulovassilis, chapter 6, pages 135--165. Springer-Verlag, September 2003.

  14. Mohammed Zaki, Limsoon Wong. Data Mining Techniques. Selected Topics in Post-Genome Knowledge Discovery, edited by Limsoon Wong, Louxin Zhang, chapter 4, pages 125--163. National University of Singapore Press, May 2004.

  15. Jinyan Li, Huiqing Liu, Anthony Tung, Limsoon Wong. Data Mining Techniques for the Practical Bioinformatician. The Practical Bioinformatician, edited by Limsoon Wong, chapter 3, pages 35--70, World Scientific, May 2004.

  16. Jinyan Li, Huiqing Liu, Limsoon Wong, Roland Yap. Techniques for Recognition of Translation Initiation Sites. The Practical Bioinformatician, edited by Limsoon Wong, chapter 4, pages 71--90, World Scientific, May 2004.

  17. Jinyan Li, Limsoon Wong. Techniques for Analysis of Gene Expression. The Practical Bioinformatician, edited by Limsoon Wong, chapter 14, pages 319--346, World Scientific, May 2004.

  18. Limsoon Wong. Technologies for Biological Data Integration. The Practical Bioinformatician, edited by Limsoon Wong, chapter 17, pages 375--400, World Scientific, May 2004.

  19. Kui Lin, Jianhua Liu, Lance Miller, Limsoon Wong. Genome-Wide cDNA Oligo Probe Design and its Applications in Schizosaccharomyces Pombe. The Practical Bioinformatician, edited by Limsoon Wong, chapter 15, pages 347--358, World Scientific, May 2004.

  20. Guozhu Dong, Jinyan Li, Limsoon Wong. The Use of Emerging Patterns in the Analysis of Gene Expression Profiles for the Diagnosis and Understanding of Diseases. New Generation of Data Mining Applications, edited by M. Kantardzic and J. Zurada, chapter 14, pages 331--354. John Wiley, April 2005.

  21. Huiqing Liu, Limsoon Wong, Ying Xu. Patient Survival Prediction from Gene Expression Data. Knowledge Discovery in Bioinformatics: Techniques, Methods, and Applications, edited by Xiaohua Hu and Yi Pan, chapter 6, pages 89--111, Wiley, July 2007.

  22. Mengling Feng, Jinyan Li, Guozhu Dong, Limsoon Wong. Maintenance of Frequent Patterns: A Survey. Post-Mining of Association Rules: Techniques for Effective Knowledge Extraction, edited by Yanchang Zhao, Chengqi Zhang, and Longbing Cao, chapter ??, pages ???--???, IGI Global, accepted.

    Journal Papers

  23. Limsoon Wong, Beng Chong Ooi. Treating Failure as Value ACM SIGPLAN Notices, 25(1):29-32, January 1990.

  24. Limsoon Wong, Beng Chong Ooi. Treating Failure as State. ACM SIGPLAN Notices, 25(8):24-27, August 1990.

  25. Peter Buneman, Leonid Libkin, Dan Suciu, Val Tannen, Limsoon Wong. Comprehension Syntax. ACM SIGMOD Record, 23(1):87-96, March 1994. (Reviewed invited paper)

  26. Leonid Libkin, Limsoon Wong. Conservativity of Nested Relational Calculi with Internal Generic Functions. Information Processing Letters, 49(6):273-280, March 1994.

  27. Limsoon Wong. Polymorphic Queries Across Sets, Bags, and Lists. ACM SIGPLAN Notices, 30(4):39-44, April 1995.

  28. Peter Buneman, Shamim Naqvi, Val Tannen, Limsoon Wong. Principles of Programming with Complex Objects and Collection Types. Theoretical Computer Science, 149(1):3--48, September 1995. PDF (Reviewed invited paper)

  29. Limsoon Wong. An Introduction to Remy's Fast Polymorphic Record Projection. ACM SIGMOD Record, 24(3):34--39, September 1995. PDF

  30. Leonid Libkin, Limsoon Wong. On Representation and Querying Incomplete Information in Databases with Multisets. Information Processing Letters, 56:209--214, November 1995.

  31. Leonid Libkin, Limsoon Wong. Semantic Representations and Query Languages for Or-sets. Journal of Computer and System Sciences, 52(1):125--142, February 1996.

  32. Limsoon Wong. Normal Forms and Conservative Extension Properties for Query Languages over Collection Types. Journal of Computer and System Sciences, 52(3):495--505, June 1996. PDF (Reviewed invited paper)

  33. Stephane Grumbach, Leonid Libkin, Tova Milo, Limsoon Wong. Query Languages for Bags: Expressive Power and Complexity. ACM SIGACT News, 27(2):30--37, June 1996. (Guest database column)

  34. Guozhu Dong, Limsoon Wong. Some Relationships between the FOIES and Sigma-1-1 Arity Hierarchies , Bulletin of the EATCS, 61:72--79, February 1997.

  35. Susan Davidson, Chris Overton, Val Tannen, Limsoon Wong. BioKleisli: A Digital Library for Biomedical Researchers , International Journal of Digital Libraries, 1(1):36--53, April 1997.

  36. Leonid Libkin, Limsoon Wong. Query Languages for Bags and Aggregate Functions. Journal of Computer and System Sciences, 55(2):241--272, October 1997. (Reviewed invited paper.)

  37. WangChiew Tan, Ke Wang, Limsoon Wong. A Graphical Interface to Genome Multidatabases, Journal of Database Management, 9(1):24--32, Winter 1998.

  38. Michael Benedikt, Guozhu Dong, Leonid Libkin, Limsoon Wong. Relational Expressive Power of Constraint Query Languages, Journal of the ACM, 45(1):1--34, January 1998.

  39. Su-Yun Chung, Limsoon Wong. Kleisli, a new tool for data integration in biology. Trends in Biotechnology, 17(9):351--355, September 1999. Paper

  40. Guozhu Dong, Leonid Libkin, Jianwen Su, Limsoon Wong. Maintaining Transitive Closure of Graphs in SQL. International Journal of Information Technology, 5(1):46--78, October 1999. (Reviewed invited paper.)

  41. Elisa Bertino, Barbara Catania, Limsoon Wong. Finitely Representable Nested Relations. Information Processing Letters, 70(4):165--173, 1999.

  42. Jiren Wang, Limsoon Wong. An Example in Kleisli: Codon Usage Extraction Made Easy. Science Asia, 25:23--29, 1999. (Reviewed invited paper.)

  43. Limsoon Wong. The Functional Guts of the Kleisli Query System. ACM SIGPLAN Notices, 35(9):1--10, 2000.

  44. Guozhu Dong, Leonid Libkin, Limsoon Wong. Local Properties of Query Languages. Theoretical Computer Science, 239:277--308, 2000. (Reviewed invited paper.)

  45. Limsoon Wong. Kleisli, a Functional Query System Journal of Functional Programming, 10(1):19--56, January 2000. PDF (Reviewed invited paper.)

  46. Christian Schoenbach, Judice Koh, Xin Sheng, Limsoon Wong, Vladimir Brusic. FIMM, a database of functional molecular immunology. Nucleic Acids Research, 28(1), 222--224, January 2000.

  47. Lauri Hella, Leonid Libkin, Juha Nurmonen, Limsoon Wong. Logics with Aggregate Operators, Journal of the ACM, 48(4):880--907, 2001.

  48. Christian Schoenbach, Judice Koh, Daren Flower, Limsoon Wong, Vladimir Brusic. FIMM, a Database of Functional Molecular Immunology---Update 2001. Nucleic Acids Research, 30:226--229, January 2002.

  49. Jinyan Li, Limsoon Wong. Identifying good diagnostic genes or genes groups from gene expression data by using the concept of emerging patterns. Bioinformatics. 18:725--734, 2002. Corrigendum. Bioinformatics, 18:1407--1408, 2002.

  50. Leonid Libkin, Limsoon Wong. Lower Bounds for Invariant Queries in Logics with Counting. Theoretical Computer Science, 288(1):153--180, 2002. (Reviewed invited paper.)

  51. Limsoon Wong. Gaps in Text-based Knowledge Discovery for Biology. Drug Discovery Today. 7(17):897--898, 2002. (Reviewed invited comments.)

  52. Eng-Juh Yeoh, Mary E. Ross, Sheila A. Shurtleff, W. Kent William, Divyen Patel, Rami Mahfouz, Fred G. Behm, Susana C. Raimondi, Mary V. Reilling, Anami Patel, Cheng Cheng, Dario Campana, Dawn Wilkins, Xiaodong Zhou, Jinyan Li, Huiqing Liu, Chin-Hon Pui, William E. Evans, Clayton Naeve, Limsoon Wong, James R. Downing. Classification, subtype discovery, and prediction of outcome in pediatric acute lymphoblastic leukemia by gene expression profiling. Cancer Cell, 1:133--143, March 2002. Video

  53. Lynette Hirschman, Jong C. Park, Junichi Tsujii, Limsoon Wong, Cathy H. Wu. Accomplishments and Challenges in Literature Data Mining for Biology. Bioinformatics, 18:1553--1561, December 2002.

  54. Limsoon Wong. Technologies for Integrating Biological Data. Briefings in Bioinformatics, 3(4):389--404, 2002. (Reviewed invited paper)

  55. Lance D. Miller, Phillip M. Long, Limsoon Wong, Sayan Mukherjee, Lisa M. McShane, Edison T. Liu. Optimal gene expression analysis by microarrays. Cancer Cell, 2:353--361, November 2002. (Reviewed invited paper)

  56. Jinyan Li, Huiqing Liu, James R. Downing, Allen Eng-Juh Yeoh, Limsoon Wong. Simple Rules Underlying Gene Expression Profiles of More than Six Subtypes of Acute Lymphoblastic Leukemia (ALL) Patients. Bioinformatics. 19:71--78, 2003.

  57. Guozhu Dong, Leonid Libkin, Limsoon Wong. Incremental Recomputation in Local Languages. Information and Computation, 181:88--98, 2003.

  58. Huiqing Liu, Limsoon Wong. Data Mining Tools for Biological Sequences. Journal of Bioinformatics & Computational Biology, 1(1):139--168, April 2003.

  59. Jinyan Li, Huiqing Liu, See-Kiong Ng, Limsoon Wong. Discovery of Significant Rules for Classifying Cancer Diagnosis Data. Bioinformatics, 19(suppl. 2):ii93--ii102, September 2003.

  60. Jinyan Li, Guozhu Dong, Kotagiri Ramamohanarao, Limsoon Wong. DeEPs: A New Instance-based Discovery and Classification System. Machine Learning, 54(2):99--124, 2004.

  61. See-Kiong Ng, Limsoon Wong. Accomplishments and Challenges in Bioinformatics. IEEE IT Professional Magazine, 6(1):44-50, January/February 2004. (Reviewed invited paper.)

  62. Huiqing Liu, Hao Han, Jinyan Li, Limsoon Wong. Using Amino Acid Patterns to Accurately Predict Translation Initiation Sites. In silico Biology, 4(3):255--269, 2004. Draft. Server

  63. Shao-Wu Meng, Zhuo Zhang, Limsoon Wong. A +1 programmed ribosomal frameshifting in a human C2H2 zinc finger gene discovered by computational analysis. Biotechnology, 4(4):316--324, 2005.

  64. Huiqing Liu, Hao Han, Jinyan Li, Limsoon Wong. DNAFSMiner: A Web-Based Software Toolbox to Recognize Two Types of Functional Sites in DNA Sequences. Bioinformatics, 21:671--673, March 2005. Server

  65. Xu Peng, R. Krishna Murthy Karuturi, Lance D. Miller, Kui Lin, Yonghui Jia, Pinar Konda, Long Wang, Limsoon Wong, Edison T. Liu, Mohan K. Balasubramanian, Jianhua Liu. Identification of Cell Cycle-regulated Genes in Fission Yeast. Molecular Biology of the Cell, 16(3):1026--1042, March 2005.

  66. Huiqing Liu, Jinyan Li, Limsoon Wong. Use of Extreme Patient Samples for Outcome Prediction from Gene Expression Data. Bioinformatics, 21(16):3377--3384, 2005.

  67. Jinyan Li, Limsoon Wong. Structural Geography of the Space of Emerging Patterns. Intelligent Data Analysis, 9(6):567--588, 2005.

  68. Haiquan Li, Jinyan Li, Limsoon Wong. Discovering Motif Pairs at Interaction Sites from Protein Sequences on a Proteom-Wide Scale. Bioinformatics, 22(8):989--996, 2006.

  69. Rajesh Chowdhary, Limsoon Wong, Vladimir Bajic. Finding Functional Promoter Motifs By Computational Methods: A Word of Caution. International Journal of Bioinformatics Research and Applications, 2(3):282--288, 2006.

  70. Rajesh Chowdhary, Sin Lam Tan, R. Ayesha Ali, Brent Boerlage, Limsoon Wong, and Vladimir B Bajic. Dragon Promoter Mapper (DPM): A Bayesian Framework for Modeling Promoter Structures. Bioinformatics, 22:2310--2312, September 2006.

  71. Hon Nian Chua, Wing-Kin Sung, Limsoon Wong. Exploiting Indirect Neighbours and Topological Weight to Predict Protein Function from Protein-Protein Interactions. Bioinformatics, 22:1623--1630, July 2006. Corrigendum. Bioinformatics, 24:452, February 2008. FSWeight V1.0 Software

  72. Hon Nian Chua, Wing-Kin Sung, Limsoon Wong. Using Indirect Protein Interactions for the Prediction of Gene Ontology Functions. BMC Bioinformatics, 8(Suppl 4):S8, May 2007. FSWeight V2.1 Software

  73. Donny Soh, Difeng Dong, Yike Guo, Limsoon Wong. Enabling More Sophisticated Gene Expression Analysis for Understanding Diseases and Optimizing Treatments. ACM SIGKDD Explorations, 9(1):3--14, June 2007. (Invited reviewed paper.)

  74. Jinyan Li, Guimei Liu, Haiquan Li, Limsoon Wong. Maximal Biclique Subgraphs and Closed Pattern Pairs of the Adjacency Matrix: A 1-to-1 Correspondence and Mining Algorithms. IEEE Transactions on Knowledge and Data Engineering, 19(2):1625--1637, December 2007. FP-MBC Software

  75. Hon Nian Chua, Wing-Kin Sung, Limsoon Wong. An Efficient Strategy for Extensive Integration of Diverse Biological Data for Protein Function Prediction. Bioinformatics, 23(24):3364-3373, December 2007 FSWeight V2.1 Software

  76. Hon Nian Chua, Kang Ning, Wing-Kin Sung, Hon Wai Leong, Limsoon Wong. Using Indirect Protein-Protein Interactions for Protein Complex Prediction. Journal of Bioinformatics and Computational Biology, 6(3):435--466, June 2008. PCP V1.0 Software

  77. Liang Huai Yang, Mong-Li Lee, Wynne Hsu, Decai Huang, Limsoon Wong. Efficient mining of frequent XML query patterns with repeating-siblings. Information & Software Technology, 50(5):375-389, April 2008.

  78. Guimei Liu, Jinyan Li, Limsoon Wong. A New Concise Representation of Frequent Itemsets Using Generators and a Positive Border. Knowledge and Information Systems, to appear. GrGrowth-PBd Software

  79. Hon Nian Chua, Limsoon Wong. Increasing the Reliability of Protein Interactomes. Drug Discovery Today, 13(15/16):652--658, August 2008.

    Conference Papers

  80. Limsoon Wong. Inference Rules in Object Oriented Programming Systems. Proceedings of 1st International Conference on Deductive and Object Oriented Databases, Kyoto, Japan, 493-509, December 1989.

  81. Anne Ngu, Limsoon Wong, Surjatini Widjojo. On Canonical and Noncanonical Classifications. Proceedings of 2nd International Conference on Deductive and Object Oriented Databases, Munich, Germany, 371-390, December 1991.

  82. Val Breazu-Tannen, Peter Buneman, Limsoon Wong. Naturally Embedded Query languages. Proceedings of 4th International Conference on Database Theory, Berlin, Germany, 140-154, October 1992. (Full paper invited to Theoretical Computer Science.)

  83. Anne Ngu, Lingling Yan, Limsoon Wong. Heterogeneous Query Optimization using Maximal Subqueries. Proceedings of 3rd International Symposium on Database Systems for Advanced Applications, Taejon, Korea, 413-420, April 1993.

  84. Anne Ngu, Limsoon Wong. PINOL: A Persistent Inferential Object Oriented Language for Databases. Proceedings of 3rd International Symposium on Database Systems for Advanced Applications, Taejon, Korea, 57-64, April 1993.

  85. Limsoon Wong. Normal Forms and Conservative Properties of Query Languages over Collection Types. Proceedings of 12th ACM Symposium on Principles of Database Systems, Washington, D. C., 26-36, May 1993. (Full paper invited to Journal of Computer and System Sciences.)

  86. Leonid Libkin, Limsoon Wong. Semantic Representations and Query Languages for Or-sets. Proceedings of 12th ACM Symposium on Principles of Database Systems, Washington, D. C., 37-48, May 1993.

  87. Leonid Libkin, Limsoon Wong. Aggregate Functions, Conservative Extension, and Linear Orders. Proceedings of 4th International Workshop on Database Programming Languages, Manhattan, New York, 282-294, August 1993.

  88. Leonid Libkin, Limsoon Wong. Some Properties of Query Languages for Bags. Proceedings of 4th International Workshop on Database Programming Languages, Manhattan, New York, 97-114, August 1993.

  89. Leonid Libkin, Limsoon Wong. New Techniques for Studying Set Languages, Bag Languages, and Aggregate Functions. Proceedings of 13th ACM Symposium on Principles of Database Systems, Minneapolis, Minnesota, 155-166, May 1994. (Full paper invited to Journal of Computer and System Sciences.)

  90. Dan Suciu, Limsoon Wong. On Two Forms of Structural Recursion. Proceedings of 5th International Conference on Database Theory, Prague, Czech Republic, 111-124, January 1995.

  91. Peter Buneman, Susan Davidson, Kyle Hart, Chris Overton, Limsoon Wong. A Data Transformation System for Biological Data Sources. Proceedings of 21st International Conference on Very Large Data Bases, Zurich, Switzerland, 158-169, September 1995.

  92. Guozhu Dong, Leonid Libkin, Limsoon Wong. On Impossibility of Decremental Recomputation of Recursive Queries in Relational Calculus and SQL. Springer Electronic Workshop in Computing: Proceedings of 5th International Workshop on Database Programming Languages, Gubbio, Italy, 8, September 1995.

  93. Michael Benedikt, Guozhu Dong, Leonid Libkin, Limsoon Wong. Relational Expressive Power of Constraint Query Languages. Proceedings of 15th ACM Symposium on Principles of Database Systems, Montreal, Canada, 5--16, June 1996.

  94. Leonid Libkin, Rona Machlin, Limsoon Wong. A Query Language for Multidimensional Arrays: Design, Implementation, and Optimization Techniques. Proceedings of ACM SIGMOD International Conference on Management of Data, Montreal, Canada, 228-239, June 1996.

  95. Wang Chiew Tan, Ke Wang, Limsoon Wong. QUICK: Graphical User Interface to Multiple Databases. Proceedings of 7th International Workshop on Database and Expert Systems Applications, Zurich, Switzerland, 404-409, September 1996.

  96. Guozhu Dong, Leonid Libkin, Limsoon Wong. Local Properties of Query Languages. Proceedings of 6th International Conference on Database Theory, Delphi, Greece, 140-154, January 1997. (Full paper invited to Theoretical Computer Science.)

  97. Leonid Libkin, Limsoon Wong. On the Power of Aggregation in Relational Query Languages, LNCS 1369: Proceedings of 6th International Workshop on Database Programming Languages, Estes Park, Colorado, August 1997, 260--280.

  98. Leonid Libkin, Limsoon Wong. Incremental Recomputation of Recursive Queries with Nested Sets and Aggregate Functions, LNCS 1369: Proceedings of 6th International Workshop on Database Programming Languages, Estes Park, Colorado, August 1997, 222--238.

  99. P. R. Kolatkar, M. K. Sakharkar, C. R. Tse, B. K. Kiong, L. Wong, T. W. Tan, S. Subbiah. Development of Software Tools at Bioinformatics Centre (BIC) at the National University of Singapore (NUS). Proceedings of Pacific Symposium on Biocomputing'98, Maui, Hawaii, 735--746, January 1998. (Invited paper.)

  100. O. P. Wu, K. T. Seow, L. Wong, S. Y. Chung, S. Subbiah. From Sequence to Structure to Literature: The Protocol Approach to Bioinformation. Proceedings of Pacific Symposium on Biocomputing'98, Maui, Hawaii, 747--758, January 1998. (Invited paper.)

  101. P.R. Kolatkar, M.K. Sakharkar, T.C. Roderic, B.K. Kiong, L. Wong, T.W. Tan, S. Subbiah. Integration of Bioinformatics tools at the National University of Singapore. Proceedings of 9th World Congress on Medical Informatics, Seoul, Korea, 356--360, 1998.

  102. Leonid Libkin, Limsoon Wong. Unary Quantifiers, Transitive Closure, and Relations of Large Degrees , Proceedings of 15th Symposium on Theoretical Aspects of Computer Science, Paris, France, 183-193, February 1998.

  103. Jing Chen, Limsoon Wong, Louxin Zhang. A Protein Patent Query System Powered By Kleisli. Proceedings of ACM SIGMOD International Conference on Management of Data, Seattle, Washington, 593--595, June 1998.

  104. Jing Chen, Nam-Hai Chua, Daphna Strauss, Limsoon Wong. Extracting Kozak Consensus Sequence Using Kleisli, Proceedings of 1st International Conference on Bioinformatics of Genome Regulation and Structure, Novosibirsk, Russia, August 1998, 218--223.

  105. Thangavelu Kandasamy, HweeHwa Pang, Allison Ting, Jiren Wang, Limsoon Wong. Two Tools for Solving Bioinformatics Problems, Proceedings of 1998 IEEE Knowledge and Data Engineering Exchange Workshop, Taiwan, November 1998, 79--86.

  106. Kui Lin, Anthony E. Ting, Jiren Wang, Limsoon Wong. Hunting TPR Domains Using Kleisli, Proceedings of 9th Workshop on Genome Informatics, Tokyo, Japan, December 1998, 173--182.

  107. Jing Chen, Daphna Strauss, Limsoon Wong. Using Kleisli to bring out features in BLASTP results, Proceedings of 9th Workshop on Genome Informatics, Tokyo, Japan, December 1998, 102--111.

  108. Lauri Hella, Leonid Libkin, Juha Nurmonen, Limsoon Wong. Logics with Aggregate Operators, Proceedings of 14th IEEE Symposium on Logic in Computer Science, Trento, Italy, July 1999, 35--44.

  109. Leonid Libkin, Limsoon Wong. On the Power of Incremental Evaluation in SQL-like Languages Proceedings of 7th International Workshop on Database Programming Languages, Kinloch Rannach, Scotland, September 1999, 17--30.

  110. Guozhu Dong, Xiuzhen Zhang, Jinyan Li, Limsoon Wong. CAEP: Classification by Aggregating Emerging Patterns, Proceedings of 2nd International Conference on Discovery Science, Tokyo, Japan, December 1999, 30--42.

  111. Tatsuhiko Tsunoda, Limsoon Wong. Natural Language Processing for Biology, Proceedings of Pacific Symposium on Biocomputing 2000, Hawaii, January 2000, 491--492.

  112. Limsoon Wong. The Functional Guts of the Kleisli Query System. Proceedings of 5th ACM SIGPLAN International Conference on Functional Programming, Montreal, Canada, September 2000, 1--10. Talk. (Keynote paper.)

  113. Limsoon Wong. Kleisli, its Exchange Format, Supporting Tools, and an Application in Protein Interaction Extraction, Proceedings of IEEE International Symposium on Bio-Informatics and Biomedical Engineering, Washington DC, November 2000, 21--28. Talk

  114. Limsoon Wong. Bioinformatics Takes Charge. Proceedings of 10th International Conference on Biomedical Engineering, Singapore, December 2000, 45--46. (Invited paper.) Talk.

  115. Limsoon Wong. Visualization and Manipulation of Pedigree Diagrams. Proceedings of 11th Workshop on Genome Informatics, Tokyo, Japan, December 2000, pages 63--72. Talk.

  116. Limsoon Wong. A Protein Interaction Extraction System, Proceedings of Pacific Symposium on Biocomputing 2001, Hawaii, January 2001, pages 520--530. Talk.

  117. Jun-ichi Tsujii, Limsoon Wong. Natural Language Processing and Information Extraction in Biology, Proceedings of Pacific Symposium on Biocomputing 2001, Hawaii, January 2001, pages 372--373.

  118. Jinyan Li, Limsoon Wong. Emerging Patterns and Gene Expression Data. Proceedings of 12th Workshop on Genome Informatics, Tokyo, Japan, December 2001, pages 3--13.

  119. Lynette Hirschman, Jong C. Park, Junichi Tsujii, Cathy Wu, Limsoon Wong. Literature Data Mining for Biology Proceedings of Pacific Symposium on Biocomputing 2002, Hawaii, January 2002, pages 323--325. PDF

  120. Beng Chin Ooi, Hwee Hwa Pang, Hao Wang, Limsoon Wong, Cui Yu. Fast Filter-and-Refine Algorithms for Subsequence Selection. Proceedings of International Data Engineering and Applications Symposium, pages 243--254, Edmonton, Canada, July 2002.

  121. Jinyan Li, Limsoon Wong. Geography of Differences Between Two Classes of Data. Proceedings 6th European Conference on Principles of Data Mining and Knowledge Discovery, pages 325--337, Helsinki, Finland, August 2002.

  122. Jinyan Li, Limsoon Wong. Solving the Fragmentation Problem of Decision Trees by Discoverying Boundary Emerging Patterns. Proceedings of IEEE International Conference on Data Mining, pages 653--656, Maebashi City, Japan, December 2002.

  123. Jinyan Li, Huiqing Liu, Limsoon Wong. A comparative study on feature selection and classification methods using a large set of gene expression profiles. Proceedings of 13th International Conference on Genome Informatics, pages 51--60, Tokyo, Japan, December 2002.

  124. Fanfan Zeng, Roland Yap, Limsoon Wong. Using Feature Generation and Feature Selection for Accurate Prediction of Translation Initiation Sites. Proceedings of 13th International Conference on Genome Informatics, pages 192--200, Tokyo, Japan, December 2002. talk

  125. Vladimir Bajic, Vladimir Brusic, Jinyan Li, See-Kiong Ng, Limsoon Wong. From Informatics to Bioinformatics. Proceedings of 1st Asia Pacific Bioinformatics Conference, pages 3--14, Adelaide, Australia, February 2003. (Keynote paper.) talk

  126. Jinyan Li, See-Kiong Ng, Limsoon Wong. Bioinformatics Adventures in Database Research. Proceedings of 9th International Conference on Database Theory, pages 31--46, Siena, Italy, January 2003. (Keynote paper.)

  127. Jinyan Li, Limsoon Wong. Using Rules to Analyse Bio-medical Data: A Comparison between C4.5 and PCL. Proceedings of 4th International Conference on Web-Age Information Management, pages 254--265, Chengdu, PRC, August 2003.

  128. Jinyan Li, Huiqing Liu, Limsoon Wong. Mean-entropy discretized features are effective for classifying high-dimensional biomedical data. Proceedings of 3rd ACM SIGKDD Workshop on Data Mining in Bioinformatics, pages 17--24, Washington, DC, August 2003.

  129. Huiqing Liu, Hao Han, Jinyan Li, Limsoon Wong. An in silico method for prediction of polyadenylation signals in human sequences. Proceedings of 14th International Conference on Genome Informatics , pages 84--93, Yokohama, December 2003. Server

  130. Jinyan Li, Huiqing Liu, Limsoon Wong. Use of Built-in Features in the Interpretation of High-dimensional Cancer Diagnosis Data. Proceedings of 2nd Asia Pacific Bioinformatics Conference, pages 67--74, Dunedin, New Zealand, January 18-22, 2004.

  131. Huiqing Liu, Jinyan Li, Limsoon Wong. Selection of Patient Samples and Genes for Outcome Prediction. IEEE Bioinformatics Proceedings (CSB2004), pages 382--392, Stanford, CA, August 2004.

  132. Guozhu Dong, Chunyu Jiang, Jian Pei, Jinyan Li, Limsoon Wong. Mining Succint Systems of Minimal Generators of Formal Concepts. Proceedings of 10th International Conference on Database Systems for Advanced Applications, pages 175--187, Beijing, China, April 2005. Draft

  133. Li Lin, Limsoon Wong, Tzeyun Leong, Pohsan Lai. LinkageTracker: A Discriminative Pattern Tracking Approach to Linkage Disequilibrium Mapping. Proceedings of 10th International Conference on Database Systems for Advanced Applications, pages 30--42, Beijing, China, April 2005. Draft

  134. Haiquan Li, Jinyan Li, Limsoon Wong, Mengling Feng, Yap-Peng Tan. Relative Risk and Odds Ratio: A Data Mining Perspective. Proceedings of 24th ACM SIGMOD-SIGACT-SIGART Symposium on Principles of Database Systems, pages 368--377, Baltimore, Maryland, June 2005. GcGrowth Software

  135. Jinyan Li, Haiquan Li, Donny Soh, Limsoon Wong. A Correspondence Between Maximal Complete Bipartite Subgraphs and Closed Patterns. Proceedings of 9th European Conference on Principles and Practice of Knowledge Discovery in Databases, pages 146--156, Porto, Portugal, October 2005. FP-MBC Software

  136. Liang Huai Yang, Wynne Hsu, Mong Li Lee, Limsoon Wong. SVM-based Identification of microRNA Precursors, Proceedings of 4th Asia-Pacific Bioinformatics Conference, pages 267--276, Taipei, Taiwan, February 2006.

  137. Guimei Liu, Jinyan Li, Limsoon Wong, Wynne Hsu. Positive Borders or Negative Borders: How to Make Generator-Based Lossless Representation Concise, Proceedings of SIAM Conference on Data Mining, pages 469--473, Bethesda, Maryland, April 2006. GrGrowth-PBd Software

  138. Jinyan Li, Haiquan Li, Limsoon Wong, Jian Pei, Guozhu Dong. Minimum Description Length Principle: Generators are Preferable to Closed Patterns. Proceedings of 21st National Conference on Artificial Intelligence, pages 409--415, Boston, Mass, July 2006.

  139. Yun Zheng, Wynne Hsu, Mong Li Lee, Limsoon Wong. Exploring Essential Attributes for Detecting MicroRNA Precursors from Background Sequences. Proceedings of 2006 VLDB Workshop on Data Mining in Bioinformatics, pages 131--145, Seoul, Korea, September 2006.

  140. Jin Chen, Hon Nian Chua, Wynne Hsu, Mong-Li Lee, See-Kiong Ng, Rintaro Saito, Wing-Kin Sung, Limsoon Wong. Increasing Confidence of Protein-Protein Interactomes. Proceedings of 17th International Conference on Genome Informatics, pages 284--297, Yokohama, Japan, 18-20 December 2006. (invited keynote paper) FSWeight V2.1 Software

  141. Swee-Seong Wong, Wing-Kin Sung, Limsoon Wong. CPS-tree: A Compact Partitioned Suffix Tree for Disk-Based Indexing on Large Genome Sequences, Proceedings of 23rd IEEE International Conference on Data Engineering, pages 1350--1354, Istanbul, Turkey, April 2007. CPS Software

  142. Guimei Liu, Jinyan Li, Kelvin Sin, Limsoon Wong. Distance-Based Subspace Clustering with Flexible Dimension Partitioning, Proceedings of 23rd IEEE International Conference on Data Engineering, pages 1250--1254, Istanbul, Turkey, April 2007.

  143. Mengling Feng, Guozhu Dong, Jinyan Li, Yap-Peng Tan, Limsoon Wong. Evolution and Maintenance of Frequent Pattern Space when Transactions are Removed. Proceedings of 11th Pacific-Asia Conference on Knowledge Discovery and Data Mining (PAKDD), pages 489--497, Nanjing, China, May 2007. Talk. TRUM Software

  144. Limsoon Wong. Manifestation and Exploitation of Invariants in Bioinformatics, Proceedings of 2nd International Conference on Algebraic Biology (AB2007), pages 365--377, Castle of Hagenberg, Austria, 2-4 July 2007. talk

  145. Jinyan Li, Guimei Liu, Limsoon Wong. Mining Statistically Important Equivalence Classes and Delta-Discriminative Emerging Patterns. Proceedings of 13th International Conference on Knowledge Discovery and Data Mining, pages 430--439, San Jose, California, 12-15 August 2007. DPM Software

  146. Hon Nian Chua, Kang Ning, Wing-Kin Sung, Hon Wai Leong, Limsoon Wong. Using Indirect Protein-Protein Interactions for Protein Complex Prediction. Proceedings of 6th Annual International Conference on Computational Systems Bioinformatics (CSB), pages 97--110, San Diego, California, August 2007. PCP V1.0 Software

  147. Li Lin, Limsoon Wong, Tzeyun Leong, Pohsan Lai. ECTracker---An Efficient Algorithm for Haplotype Analysis and Classification, Proceedings of 12th Triennial Medinfo 2007 Congress, pages 1270--1274, Brisbane, Australia, 21-24 August 2007.

  148. Chuan Hock Koh, Limsoon Wong. Recognition of Polyadenylation Sites from Arabidopsis Genomic Sequences. Proceedings of 18th International Conference on Genome Informatics (GIW), pages 73--82, Singapore, 3-5 December 2007. Datasets and Source Codes

  149. Jinyan Li, Kelvin Sim, Guimei Liu, Limsoon Wong. Maximal Quasi-Bicliques with Balanced Noise Tolerance: Concepts and Co-Clustering Applications. Proceedings of SIAM Conference on Data Mining, pages 72--83, Atlanta, Georgia, 24-26 April 2008.

  150. Guimei Liu, Limsoon Wong. Effective Pruning Techniques for Mining Quasi-Cliques. Proceedings of European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases (ECML/PKDD), part II, pages 33--49, Antwerp, Belgium, 15-19 September 2008. Quick Software

  151. Mengling Feng, Jinyan Li, Limsoon Wong, Yap-Peng Tan. Negative Generator Border for Effective Pattern Maintenance. Proceedings of 4th International Conference on Advanced Data Mining and Applications, pages 217--228, Chengdu, China, 8-10 October 2008. (Best Paper Runner-Up at ADMA2008)

  152. Guimei Liu, Jinyan Li, Limsoon Wong. Assessing and Predicting Protein Interactions Using Both Local and Global Network Topological Metrics. Proceedings of 19th International Conference on Genome Informatics (GIW), pages ???--???, Gold Coast, Australia, 3 December 2008. PPT

    Patents

  153. Guozhu Dong, Xiuzhen Zhang, Jinyan Li, Limsoon Wong. Classification by Aggregating Emerging Patterns. KRDL Invention Disclosure (CAEP) 20/99, 2 June 1999. Singapore patent application 9903916-6, 14 August 1999. US patent application 09/492753, 27 January 2000. US patent 6,507,843, 14 January 2003.

  154. Allison Lim, Jiren Wang, Limsoon Wong. A Method and Apparatus for Searching a Database Containing Biological Information. KRDL Invention Disclosure (Protein Designer) 34/99, 26 July 1999. PCT/SG00/00100, 7 July 2000.

  155. See-Kiong Ng, Limsoon Wong. The Protein Interaction Extraction System. KRDL Invention Disclosure (PIES) 36/99, 4 August 1999. US Patent Application 09/6901738, 18 October 2000. EPO Patent Application 01979208.4-2201-SG0100217, 23 May 2003.

  156. Chong-See Kwok, Limsoon Wong. A method for eliminating redundant email messages. KRDL Invention Disclosure (UsefulMail) 16/00, 28 April 2000. PCT/SG00/00178, 17 October 2000. EPO Patent Application 00973340.3-2211-SG0000178, 21 May 2003. European Patent No. 1327192, 20 April 2005. Singapore Patent No. 95931 [WO 00/33981], 31 May 2005.

  157. Jing Chen, Su-Yun Chung, Limsoon Wong. System and Method for Providing a Searchable Database of Biological Sequence, Function, and Patent Information. KRDL Invention Disclosure (CISP) 17/00, 28 April 2000. US Patent Application 09/721,467, 22 November 2000.

  158. Su-Yun Chung, Limsoon Wong. System and Method for Assigning Function by Genome Profiling. KRDL Invention Disclosure (AFGP) 18/00, 28 April 2000. US Patent Application 09/715,843, 17 November 2000.

  159. Hwee-Hwa Pang, Mun-Kew Leong, Limsoon Wong. A Method of Connecting a Plurality of Remote Sites to a Server., KRDL Invention Disclosure 12/2001, March 2001. PCT Application PCT/SG01/00244, 3 December 2001. Published WO 03/048963 A1, June 2003. Singapore patent application 200403166-2, 3 December 2001. US patent application 10/497,237, 2 Jun 2004. US patent publication US 2005/0044168 A1, 24 February 2005. Singapore patent no. 104695 [WO 03/48963], 30 June 2006.

  160. James R. Downing, Eng-Juh Yeoh, Dawn E. Wilkins, and Limsoon Wong. Classification and Prognosis Prediction of Acute Lymphoblastic Leukemia by Gene Expression Profiling, US Priority Application 60/367,144, 22 March 2002. PCT/US03/????, 19 March 2003.

  161. Jinyan Li, Haiquan Li, Limsoon Wong. System and Method for Identifying Sets of Attributes in a Database, System and Method for Constructing a Tree Structure for a Database and Computer Program Elements, I2R Invention Disclosure P2004054. PCT/SG2005/000386, 10 November 2005.

    Keynotes, Talks, Posters, and Other Publications

  162. Kyle Hart, Limsoon Wong, Chris Overton, Peter Buneman. Using a Query Language to Integrate Biological Data. Abstracts of 1st Meeting on the Interconnection of Molecular Biology Databases, Stanford, August 1994.

  163. Peter Buneman, Kyle Hart, Limsoon Wong. Answering some ``Unanswerable'' Biological Queries. Poster presented at ACM Workshop on Information Retrieval and Genomics, Bethesda, May 1994.

  164. Kyle Hart, Limsoon Wong, Chris Overton, Peter Buneman. Querying Heterogeneous Biological Data Sources. Talk given at Meeting on Genome Mapping and Sequencing, Coldspring Harbor, New York, May 1994.

  165. Kyle Hart, Limsoon Wong. Pruning Nested Data Values Using Branch Expressions with Wildcards. Abstracts of 2nd Meeting on the Interconnection of Molecular Biology Databases, Cambridge, England, July 1995.

  166. Jonathan Crabtree, Limsoon Wong, Peter Buneman, Susan Davidson, Chris Overton. On-Demand Integration of Biological Data. Abstracts of DOE Human Genome Program Contractor-Grantee Workshop V, Santa Fe, New Mexico, January 1996.

  167. Li Jie Wong, Limsoon Wong, Chiam Prong Lam. Stereogram Image Extraction by Computer, Proceedings of Science Research Congress, Singapore, 1996, 360--366.

  168. Limsoon Wong. Functional Programming and Database Query Languages. Invited position paper at Workshop on Functional Approach to Databases, London, July 1997.

  169. Prasanna Kolatkar, Limsoon Wong. Some Bioinformatics and Structural Biology Applications That Can Benefit From A Global High-Speed Network. Invited talk at APAN-SINGAREN Applications Workshop, Singapore, October 1997.

  170. Limsoon Wong. BioKleisli, SeqIndex, and Other Bioinformatics Projects in BioInformatics Centre and Institute of Systems Science. Invited talk at Technology Partnership Symposium for the Life Science and Chemicals Industry, Singapore, October 1997.

  171. Limsoon Wong. Solving Tough Integration Problems in Biology. Invited poster at IMCB 10th Anniversary Symposium, Singapore, November 1997.

  172. Limsoon Wong. Adventures of a Logician-Engineer. Public Lecture by Winner of 1997 Singapore National Academy of Science Young Scientist Award, Singapore, April 1998.

  173. Limsoon Wong. Some MEDLINE Queries Powered By Kleisli, ACCESS 25:8--9, June 1998.

  174. Limsoon Wong. Industry Perspective and Software Development: Hunting for Domains in Style. Invited talk at Consultative Roundtable Workshop on the Implementation of National Bioinformatics and Biotechnology Network (NABBINet), Bangi, Malaysia, August 1998.

  175. Limsoon Wong. Extracting Features from BLASTP Results. Invited talk at BioMedInfo Singapore'98, Singapore, September 1998.

  176. Limsoon Wong. Bioinformatics Integration Simplified: The Kleisli Way. Invited talk at International Symposium on Human Genetics and Gene Therapy, Singapore, February 1999.

  177. Limsoon Wong. Molecular Circuits. Talk at IRCS/DIMACS Workshop on Logic and Cognitive Science: Linking Finite Model Theory, Descriptive complexity, and the Study of Cognition, Philadelphia, April 1999.

  178. Limsoon Wong. Invariants in SQL. Talk at Alfred Renyi Institute of Mathematics, Hungarian Academy of Sciences, Budapest, June 1999.

  179. Limsoon Wong. An Introduction to Kent Ridge Digital Labs and Singapore. Talk at Alfred Renyi Institute of Mathematics, Hungarian Academy of Sciences, Budapest, June 1999.

  180. Limsoon Wong. Introduction to Integrating Data Sources. Guest lecture for a bioinformatics course at Institute of Molecular and Cell Biology, Singapore, April 2000. (PS version)

  181. Limsoon Wong The Functional Guts of Kleisli. Invited keynote at 5th ACM SIGPLAN International Conference on Functional Programming, Montreal, Canada, September 2000.

  182. Limsoon Wong. Discovering Information from Biological Data. Invited talk at International Symposium on Bioinformatics, Pohang, Korea, November 2000. Organized by Biological Research Information Center & by Korea Bioinformatics Society.

  183. Limsoon Wong The Functional Guts of Kleisli. Invited talk at KAIST Advanced Information Technology Research Center, Taejon, Korea, November 2000.

  184. Limsoon Wong. Invariants in SQL. Invited talk at KAIST Advanced Information Technology Research Center, Taejon, Korea, November 2000.

  185. Limsoon Wong. From Data Integration to Drug Discovery. Invited talk at National University of Singapore School of Computing, April 2001.

  186. Limsoon Wong. The Marriage of Computer Science and Molecular Biology. Invited talk at ICAAS-NLB Public Lecture Series on Life Sciences, April 2001.

  187. Limsoon Wong. Datamining: Turning Biological Data Into Gold. Invited talk at 5th NUH-NUS Faculty of Medicine Annual Scientific Meeting, June 2001.

  188. Limsoon Wong. From Informatics to Bioinformatics. Invited talk at Taipei International Master Forum on Biotechnology, Tri-Service General Hospital, Neihu, Taipei, Taiwan, August 2001. Short version.

  189. Limsoon Wong. From Informatics to Bioinformatics. Invited talk at Bioinformatics: Information Revolution in Biology and Medicine, ICICI Knowledge Park, Hyderabad, October 2001.

  190. Limsoon Wong. Role of Bioinformatics in the Genomic Era. Invited talk at ICICI Knowledge Park Foundation Day Round Table Meeting on Building the Knowledge Bridge, ICICI Knowledge Park, Hyderabad, October 2001.

  191. A. Yeoh, K. Williams, D. Patel, S. Shurtleff, E.Behm, S. Raimondi, M. Relling, C. Cheng, D. Wilkins, L. Wong, W. Evans, C.-H. Pui, C. Naeve, J.R. Downing. Expression Profiling of Pediatric Acute Lymphoblastic Leukemia (ALL) Blasts at Diagnosis Accurately Predicts Both the Risk of Relapse and of Developing Therapy-Induced Acute Myeloid Leukemia (AML). Blood, 98(11):1816 Part 1, November 2001. Plenary talk at American Society of Hematology 43rd Annual Meeting, Orlando, Florida, December 2001.

  192. YM Lee, DD Suteja, D. Wai, L. Wong, E. Chan, SG Lim. The Natural History of HBe AG Positive and anti-HBe Positive Chronic Hepatitis B Patients---A Long Term Study. Hepatology, 34(4):1745 Part 2 Supplement S, October 2001.

  193. Limsoon Wong. Some Questions on Assessing the Quality of Gene Expression Class Prediction Results. Invited talk at the Post-Genome Knowledge Discovery Program, Workshop on Sequence and Gene Expression Analysis, Institute for Mathematical Sciences, Singapore, January 2002.

  194. Jinyan Li, Limsoon Wong. Identifying Good Diagnostic Gene Groups from Gene Expression Profiles Using the Gene Expression Profiles Using the Concept of Emerging Patterns. Invited talk at Singapore MicroArray Meeting 2002, National Cancer Centre, Singapore, January 2002.

  195. Priti Talwar, Iti Das, Appaiah M.M., Udayapriya Loganathan, See-Kiong Ng, Limsoon Wong, and Satish Nair. Challenges in Developing a Post-genome Knowledge Database. Meetings Abstract: Int. Society for Human Genomics' 27th Annual Meeting, Trivandrum, India, Abstract Number P21, page 71, February 2002.

  196. Limsoon Wong. Databases and information Discovery. Invited talk at Post-Genome Knowledge Discovery Program Master Class on Language of DNA, Institute for Mathematical Sciences, Singapore, February 2002.

  197. Jinyan Li, Huiqing Liu, Limsoon Wong. Emerging Patterns: A New Approach to Analysing Gene Expression Data. Talk and poster at HUGO 7th International Human Genome Meeting, Shanghai, April 2002.

  198. Limsoon Wong. Practical Knowledge Management for Drug Discovery. Invited talk at Biotechnology in Asia 2002, Singapore, April 2002.

  199. Limsoon Wong. Biotech-infotech Convergence.. Invited talk at BioITWorld, Singapore, May 2002. PPT slides.

  200. Limsoon Wong. From Informatics to Bioinformatics. Invited Panel at 3rd International Conference on Web-Age Information Management, Beijing, August 2002.

  201. Limsoon Wong. From Informatics to Bioinformatics. Invited Panel at AusBiotech 2002, Melbourne, Australia, August 2002.

  202. Limsoon Wong. The Practical Aspects of Artificial Intelligence. Invited lecture at Singapore-MIT Alliance Computer Science Program, September 2002.

  203. Limsoon Wong. From Informatics to Bioinformatics. Invited talk at the Knowledge Group Bioinformatics Conference, Kuala Lumpur, September 2002.

  204. Limsoon Wong. Enabling Creativity: Imagination to Reality. Invited talk at Forum on Creativity in the Arts, Science, & Technology, organized by the Tan Kah Kee Foundation, National Arts Council, and Singapore National Academy of Science, November 2002.

  205. Limsoon Wong. Imagination to Reality. I2R Postgrad Student Recruitment Talk, Kuala Lumpur, December 2002.

  206. Limsoon Wong. Bioinformatics in Singapore. Asia Pacific Biotech News, 7(3):88--92, 3 Feb 2003.

  207. Limsoon Wong. Identifying Good Diagnostic Gene Groups from Gene Expression Profiles Using the Concept of Emerging Patterns. Invited talk at University of Queensland, Brisbane, 10 February 2003.

  208. Limsoon Wong. Guts of Dragon Promoter Finder. Invited talk at Institute for Molecular Bioscience, Brisbane, 11 February 2003.

  209. Limsoon Wong. Using Feature Generation and Feature Selection for Accurate Prediction of Translation Initiation Sites. Invited talk at Queensland University of Technology, Brisbane, 12 February 2003.

  210. Limsoon Wong. Using Feature Generation and Feature Selection for Accurate Prediction of Translation Initiation Sites. Invited talk at 1st KAIST-Singapore Joint Workshop on Bioinformatics & Natual Language Processing, KAIST, Daejon, South Korea. 24 February 2003.

  211. Limsoon Wong. Some Sample Problems and Solutions in Post-Genome Knowledge Discovery. Invited talk at COE Technology Week Focus Seminar on Recent Advances in Bioinformatics and Computational Biology, NTU. 8 March 2003.

  212. Limsoon Wong. Introduction to the Knowledge Discovery Department of I2R. Joint Singapore-Canada Workshop on the Interface of Biology with Information Technology, I2R, 17--18 March 2003.

  213. Limsoon Wong. Imagination to Reality. I2R Postgrad Student Recruitment Talk, NTU, 3 April 2003.

  214. Limsoon Wong. I2R's Dare-to-dream Collaborations Imagination to Reality Powers Up Symposium, I2R, 1 April 2003.

  215. Limsoon Wong. Data Mining of Gene Expression Profiles for the Diagnosis and Understanding of Diseases. Keynote address at 7th International Database Engineering and Application Symposium, Hong Kong, July 2003.

  216. Limsoon Wong. Gene Expression Profile for the Diagnosis and Understanding of Diseases. Invited talk at DuNmAn Life-Sciences & Technology Day, Dunman Secondary School, Tampines, 2 August 2003.

  217. Limsoon Wong. Accurate Recognition of Translation Initiation Sites. Invited talk at 10th Congress of the Federation of Asian and Oceanic Biochemists and Molecular Biologists, Bangalore, India, December 2003.

  218. Limsoon Wong. Diagnosis of Childhood Acute Lymphoblastic Leukaemia and Optimization of Risk-Benefit Ratio of Therapy. Invited talk at 1st Annual Symposium of Association of Asian Societies for Bioinformatics, Yokohama, Japan, December 2003. ppt.

  219. Limsoon Wong. From Informatics to Bioinformatics: The Knowledge Discovery Perspective. Invited lecture at Singapore-MIT Alliance Computer Science Program, 28 October 2003.

  220. Limsoon Wong. Diagnosis of Childhood Acute Lymphoblastic Leukaemia and Optimization of Risk-Benefit Ratio of Therapy. Invited talk at NTU School of Computer Engineering, 24 November 2003. ppt.

  221. Limsoon Wong. Assessing Reliability of Protein-Protein Interaction Experiments. Invited talk at Lilly Systems Biology Symposium, BioPolis, Singapore, 4 February 2004.

  222. Limsoon Wong. Imagination to Reality: Life as a Researcher. Invited talk at Hwa Chong Junior College Annual Student Research Symposium , Hwa Chong Junior College, 3 April 2004.

  223. Limsoon Wong. Exciting Media. Invited talk at World Scientific, 6 April 2004.

  224. Limsoon Wong. Assessing Reliability of Protein-Protein Interaction Experiments. Invited talk at National Yang Ming University, Taipei, Taiwan, 26 May 2004.

  225. Limsoon Wong. Convexity of Itemset Spaces. Invited talk at Academia Sinica, Taipei, Taiwan, 28 May 2004.

  226. Limsoon Wong. Diagnosis of Childhood Acute Lymphoblastic Leukaemia and Optimization of Risk-Benefit Ratio of Therapy. Invited talk at National Cheng Kung University, Tainan, Taiwan, 21 May 2004.

  227. Limsoon Wong. Assessing Reliability of Protein-Protein Interaction Experiments. Invited talk at Genome Institute of Singapore, 4 June 2004.

  228. Limsoon Wong. Assessing Reliability of Protein-Protein Interaction Experiments. Invited talk at 3rd International Conference on Bioinformatics, Auckland, New Zealand, 4-8 September 2004.

  229. Limsoon Wong. Assessing Reliability of Protein-Protein Interaction Experiments. Invited talk at 5th HUGO Pacific Meeting and 6th Asia-Pacific Meeting on Human Genetics, BioPolis, Singapore, 17-20 November 2004.

  230. Limsoon Wong. Assessing Reliability of Protein-Protein Interaction Experiments. Invited talk at Tsing Hua University, Beijing, 25 November 2004.

  231. Limsoon Wong. Assessing Reliability of Protein-Protein Interaction Experiments. Invited talk at Edinburgh University, Edinburgh, 1 October 2004.

  232. Limsoon Wong. Diagnosis of Childhood Acute Lymphoblastic Leukaemia and Optimization of Risk-Benefit Ratio of Therapy. Invited talk at Edinburgh University, Edinburgh, 1 October 2004.

  233. Limsoon Wong. Knowledge Discovery in Biomedicine. Invited talk at National Healthcare Group Annual Scientific Congress, Raffles Convention Centre, Singapore, October 2004.

  234. Limsoon Wong. Research & Discovery: Technologies Today for Solving Problems Tomorrow . Talk at Pre-Horizon Seminar, Infocomm Horizon 2004, I2R, Singapore, 1 November 2004.

  235. C. Y. Cui, B. C. Goh, J. H. Chiao, S. R. Green, S. Pervaiz, R. Soong, L. Wong, R. Soo, B. Mow. In vitro activity of cyclin-dependent kinase inhibitor seliciclib (CYC202 or R-roscovitine) in nasopharyngeal carcinoma (NPC) cell lines. Clinical Cancer Research, 11(24):9109S-9109S Part 2 Suppl. S, December 2005.

  236. Limsoon Wong. Selection of Patient Samples and Genes for Disease Prognosis. Invited talk at "Informatics Inspired Biology" Symposium, BioPolis, Singapore, 16 January 2005.

  237. Limsoon Wong. Assessing Reliability of Protein-Protein Interaction Experiments. Invited keynote at 3rd Korea-Singapore Joint Workshop on Bioinformatics and Natural Language Processing, Muju Resort, 20-22 February 2005.

  238. Limsoon Wong. Building gene networks by information extraction, cleansing, and integration. Invited plenary lecture at 3rd International Symposium on e-Biology Initiative: Towards New Frontiers of Biology, Takeda Hall, University of Tokyo, Tokyo, Japan, 11 March 2005.

  239. Limsoon Wong. Some interesting issues in constructing gene/protein networks, Invited round-table presentation at 3rd International Symposium on e-Biology Initiative: Towards New Frontiers of Biology, National Institute of Informatics, Tokyo, Japan, 10 March 2005.

  240. Limsoon Wong. Exciting Bioinformatics Adventures. Invited talk at NTU 2nd year Bioengineering students, 24 March 2005.

  241. Limsoon Wong. Convexity in Itemset Spaces. CS Seminar at NUS School of Computing, 11 April 2005.

  242. Haiquan Li, Jinyan Li, Limsoon Wong. Binding Motif Pairs from Interacting Protein Groups. Invited talk at Workshop on Data Analysis and Data Mining in Proteomics, Institute for Mathematical Sciences, NUS, Singapore, 12 May 2005.

  243. Limsoon Wong. Building Gene Networks by Information Extraction, Cleansing, & Integration. Invited talk at Tamkang University, Taiwan, 31 May 2005.

  244. Limsoon Wong. Discovering Binding Motif Pairs from Interacting Protein Groups. Invited talk at Tamkang University, Taiwan, 31 May 2005.

  245. Limsoon Wong. Assessing Reliability of Protein-Protein Interaction Experiments. Invited talk at Tamkang University, Taiwan, 1 June 2005.

  246. Limsoon Wong. Assessing Reliability of Protein-Protein Interaction Experiments. Invited talk at Changchun International Bioinformatics Workshop, Changchun, Jilin, China, 5-7 July 2005.

  247. Hon-Nian Chua, Wing-Kin Sung, Limsoon Wong. Protein Function Prediction from Protein Interactions. Invited talk at Singapore-Bangalore Biomedical Symposium, Biopolis, Singapore, 8-9 September 2005.

  248. Limsoon Wong. Exciting Bioinformatics Adventures. NUS Dept of Pathology Seminar , Dental Auditorium, Faculty of Dentistry, NUH, 17 October 2005.

  249. Limsoon Wong. Some Data Mining Challenges Learned From Bioinformatics & Actions Taken. Invited talk at 1st Bertinoro Workshop on Data Mining, University of Bologna Residential Center, Bertinoro, Italy, 24-27 October 2005.

  250. Limsoon Wong. Protein Function Prediction From Protein Interactions. Invited talk at 1st International Symposium on Languages in Biology and Medicine, KAIST, Daejon, Korea, 24-26 November 2005.

  251. Limsoon Wong. Protein Function Prediction From Protein Interactions. Invited talk at "Figuring Out Life: NUS-Karolinska Joint Symposium on Application of Mathematics in Biomedicine", Institute for Mathematical Sciences, Singapore, 28-29 November 2005.

  252. Limsoon Wong. Exciting Bioinformatics Adventures. Invited keynote at 12th International Conference on Biomedical Engineering, Suntec Singapore International Convention and Exhibition Centre, Singapore, 7-10 December 2005.

  253. Yi Lu, Huiqing Liu, Ying Xu, Pei Lin Koh, Ariffin Hany, Limsoon Wong, Allen Yeoh. Gene expression profiling of paired pre- and post-prednisolone (PRED) BM samples from childhood ALL identifies robust signatures for PRED response and eventual outcome. Blood, 108(11):70A-70A 222 Part 1, November 2006.

  254. Limsoon Wong. Protein Function Prediction From Protein Interactions. Invited talk at University of Hong Kong , Hong Kong, 6 March 2006.

  255. Hon Nian Chua, Wing-Kin Sung, Limsoon Wong. Exploiting Indirect Neighbours and Topological Weight to Predict Protein Function from Protein-Protein Interactions Invited keynote at BioDM2006, Singapore, 9 April 2006. Proc. PAKDD 2006 Workshop on Data Mining for Biomedical Applications (BioDM2006), Singapore, 9 April 2006, page 1. ppt

  256. Limsoon Wong. The Bright and Dark Side of Data Mining Research. Invited panel discussion at PAKDD 2006, Hilton Hotel, Singapore, 11 April 2006.

  257. Hon Nian Chua, Wing-Kin Sung, Limsoon Wong. Exploiting Indirect Neighbours and Topological Weight to Predict Protein Function from Protein-Protein Interactions. Invited talk at 2nd Sino-Singapore Workshop on Computation and Systems Biology, Shanghai Jiao Tong University, Shanghai, 22-24 May 2006.

  258. Hon Nian Chua, Wing-Kin Sung, Limsoon Wong. Exploiting Indirect Neighbours and Topological Weight to Predict Protein Function from Protein-Protein Interactions. Invited talk at Academia Sinica, Taipei, Taiwan, 1 June 2006.

  259. Limsoon Wong. Building Gene Networks by Information Extraction, Cleansing, & Integration. Invited talk at National Taiwan University, Taipei, Taiwan, 1 June 2006.

  260. Hon Nian Chua, Wing-Kin Sung, Limsoon Wong. Exploiting Indirect Neighbours and Topological Weight to Predict Protein Function from Protein-Protein Interactions. Invited talk at Bioinformatics Minisymposium---from Sequences, Structures, to Systems, National Chiao Tung University, Hsinchu, Taiwan, 2 June 2006.

  261. Limsoon Wong. Building Gene Networks by Information Extraction, Cleansing, & Integration. Invited talk at Bioinformatics Minisymposium---from Sequences, Structures, to Systems, National Chiao Tung University, Hsinchu, Taiwan, 2 June 2006.

  262. Hon Nian Chua, Wing-Kin Sung, Limsoon Wong. Exploiting Indirect Neighbours and Topological Weight to Predict Protein Function from Protein-Protein Interactions. Invited talk at Yang Ming National University, Taiwan, 5 June 2006.

  263. Limsoon Wong. Building Gene Networks by Information Extraction, Cleansing, & Integration. Invited talk at Yang Ming National University, Taiwan, 6 June 2006.

  264. Limsoon Wong. Discovering Motif Pairs at Interaction Sites from Protein Sequences on a Proteome-Wide Scale. Invited talk at Yang Ming National University, Taiwan, 7 June 2006.

  265. Limsoon Wong. An Introduction to Knowledge Discovery Applications in Biomedical Sciences. Invited talk at Taipei Medical University, Taiwan, 8 June 2006.

  266. Hon Nian Chua, Wing-Kin Sung, Limsoon Wong. Exploiting Indirect Neighbours and Topological Weight to Predict Protein Function from Protein-Protein Interactions. Invited talk at Taipei Medical University, Taiwan, 8 June 2006.

  267. Limsoon Wong. Guilt by Association of Common Interaction Partners. Invited talk at IMS Workshop on BioAlgorithmics, Institute for Mathematical Sciences, Singapore, 12-14 July 2006.

  268. Limsoon Wong. Exciting Media. Invited talk at ICAAS-UIAAS Innovation Symposium, NLB @ Victoria Street, Singapore, 26 August 2006.

  269. Limsoon Wong. Increasing Confidence of Protein-Protein Interactomes. Invited talk at Hong Kong Baptist University, Kowloon Tong, Hong Kong, 4 September 2006.

  270. Limsoon Wong. Adventures of a Logician-Engineer: A Journey Through Logic, Engineering, Medicine, Biology, and Statistics. Invited talk at 8th International Symposium on Symbolic and Numeric Algorithms for Scientific Computing (SYNASC 2006), Timisoara, Romania, 26-29 September 2006.

  271. Limsoon Wong. Discovering Motif Pairs at Interaction Sites from Protein Sequences on a Proteome-Wide Scale. Invited talk at Renyi Institute of Mathematics, Budapest, Hungary, 2 October 2006.

  272. Limsoon Wong. Guilt by Association of Common Interaction Partners. Talk at Xi'an Jiaotong University, Xi'an, China, 23 October 2006.

  273. Limsoon Wong. Adventures of a Logician-Engineer: A Journey Through Logic, Engineering, Medicine, Biology, and Statistics. Talk at Northwestern Polytechnical University, Xi'an, China, 23 October 2006.

  274. Limsoon Wong. Increasing Confidence of Protein-Protein Inteactomes. Talk at Southeast University, Nanjing, China, 25 October 2006.

  275. Limsoon Wong. Guts of Dragon Promoter Finder and Mapper. Invited talk at 5th East Asian Biophysics Symposium & 44th Annual Meeting of the Biophysical Society of Japan, Okinawa, Japan, 14 November 2006.

  276. Limsoon Wong. Exciting the Reluctant Bioinformatician. Invited talk at International Symposium on Bioinformatics Education and Research, Yokohama, Japan, 17 December 2006.

  277. Limsoon Wong. Increasing Confidence of Protein-Protein Inteactomes. Keynote talk at 17th International Conference on Genome Informatics, Yokohama, Japan, 18-20 December 2006.

  278. Limsoon Wong. Protein Function Inference Enhanced by Text Mining. Invited talk at Forum on Advanced NLP and Text Mining, Tokyo, Japan, 11-13 March 2007.

  279. Limsoon Wong. Protein Function Inference Enhanced by Text Mining. Invited talk at Molecular Connections Pvt Ltd, Bangalore, India, 5 June 2007.

  280. Limsoon Wong. The Bright and Dark Sides of Bioinformatics. Invited talk at Grid Asia 2007, Biopolis, Singapore, 7 June 2007.

  281. Limsoon Wong. Guilt by Association. Invited talk at University of Edinburgh, Edinburgh, Scotland, 16 October 2007.

  282. Limsoon Wong. Guilt by Association. Invited talk at Duke-NUS Graduate Medical School, Singapore, 20 November 2007.

  283. Limsoon Wong. Constructing More Reliable Protein-Protein Interaction Maps. Invited keynote at Bioinformatica Indica '08: International Symposium on Computational Biology & Bioinformatics, University of Kerala, 17-19 January 2008. PPT

  284. Limsoon Wong. Two Applications of Text Mining in Bioinformatics: Enhancing Protein Function Prediction and Enhancing Drug Pathway Inference. Invited talk at 7th Korea-Singapore Workshop on Bioinformatics & NLP, Seoul, Korea, 15 February 2008.

  285. Limsoon Wong. Guilt by Association. Invited keynote at 1st Japan-Taiwan Young Researchers Conference on Computational and Systems Biology, Hsinchu, Taiwan, 9-11 March 2008.

  286. Limsoon Wong. Manifestation and Exploitation of Invariants in Bioinformatics. Invited keynote at 3rd International Computer Science Symposium in Russia (CSR 2008), Moscow, Russia, 7-12 June 2008.

  287. Limsoon Wong. Guilt by Association as a Search Principle. Invited keynote at 31st Annual International ACM SIGIR Conference, Singapore, 20-24 July 2008.

  288. Difeng Dong, Guimei Liu, Limsoon Wong. Drug Pathway Decipherer and Some Exciting Results in Protein Complex Prediction. Invited talk at Symposium on Biomolecular Mechanism Discovery with Computational Biology, Biopolis, Singapore, 14 August 2008.

  289. Limsoon Wong. Increasing Confidence of Protein-Protein Interactomes. Invited talk at IPM-NUS Workshop on Analysis and Application of Protein Interaction Networks, Shahid Beheshti University, Tehran, Iran, 17-18 November 2008.

  290. Limsoon Wong. Identifying Protein Complexes from Protein Interactome Maps. Invited talk at IPM-NUS Workshop on Analysis and Application of Protein Interaction Networks, Shahid Beheshti University, Tehran, Iran, 17-18 November 2008.

  291. Limsoon Wong. Guilt by Association of Common Interaction Partners. Invited talk at IPM-NUS Workshop on Analysis and Application of Protein Interaction Networks, Shahid Beheshti University, Tehran, Iran, 17-18 November 2008.

  292. Limsoon Wong. Adventures of a Logician-Engineer: A Journey through Logic, Engineering, Medicine, Biology, Invited talk at University of Tehran Institute of Biochemistry and Biophysics, Tehran, Iran, 17 November 2008.

  293. Limsoon Wong. "Guilt by Association" as a Search Principle. Invited keynote at BioSearch08: HCSNet Next-Generation Search Workshop on Search in Biomedical Information, Queensland University of Technology, Brisbane, Australia, 30 November 2008.

  294. Limsoon Wong. Identifying Protein Complexes from Protein Interactome Maps. Invited talk at Joint 5th Structural Biology & Functional Genomics and 1st Biological Physics International Conference, University of Cultural Centre, NUS, Singapore, 9-11 December 2008.

  295. Limsoon Wong. Identifying Protein Complexes from Protein Interactome Maps. Invited keynote at IEEE International Workshop on Data Mining and Artificial Intelligence (DMAI 2008) , Khulna, Bangladesh, 25-27 December 2008.

    Lecture Slides and Notes for Formal Courses and Tutorials Taught

  296. Please click here for courses, tutorials, and master classes taught by Limsoon.

    Manuscripts

  297. Xiuzhen Zhang, Guozhu Dong, Limsoon Wong. Using CAEP to Predict Translation Initiation Sites from Genomic DNA Sequences. August 1999.

  298. Joxan Jaffar, Limsoon Wong, Roland Yap. Open Constraint Programming. December 1999.

  299. Joxan Jaffar, Limsoon Wong, Roland Yap. A Calculus for Reactive Databases. January 2000.

  300. Susan Davidson, Hartmut Liefke, Limsoon Wong. Creating and Maintaining Curated View Databases. June 2000.

  301. Jing Chen, Limsoon Wong. Turning Relation DBMS into Nested Relational DBMS. March 2001.

  302. Vladimir B. Bajic, Suisheng Tang, Allen Chong, Seng Hong Seah, Limsoon Wong, Dhinoth Kumar Bangarusamy, Vinsensius Berlian Vega, Anders Strom, Jan-Ake Gustafsson, Edison T. Liu, Chin-Yo Lin. Modeling and predictions of estrogen response elements reveal potential roles for Alu repeats in motif propagation and transcriptional regulation. September 2002.

  303. Xue Qin Chen, Xianming Du, Kui Lin, Limsoon Wong, Jianhua Lin, Mohan K. Balasubramanian, David Balasundaram. Functional analysis of 39 deletion mutants related to nuclear-cytoplasmic transport in Schizosaccharmomyces pombe. November 2002.