Jinyan Li's Research Publications


Edited Book Volumes / Journal Special Issues


1.     Jinyan Li, Qiang Yang and Ah Hwee Tan (Editors). Data Mining for Biomedical Applications: Proceedings of PAKDD 2006 Workshop, BioDM 2006, Singapore. Lecture Notes in Bioinformatics, volume 3916 (LNBI 3916), April, 2006, Springer-Verlag.

2.     Xue-Wen Chen, Jinyan Li, Ernesto Damiani, Amandeep S. Sidhu, Tharam S. Dillon, Min Song, Jing He, Illhoi Yoo, Jean Gao, and Xiaohua Zhou (Editors). Proceedings of 2007 IEEE International Conference on Bioinformatics and Biomedicine Workshops. 2-4 November 2007, California. ISBN: 978-1-4244-1604-2, IEEE Computer Society.

3.     Takashi Washio, Zhi-Hua Zhou, Joshua Zhexue Huang, Xiaohua Hu, Jinyan Li, Chao Xie, Jieyue He, Deqing Zou, Kuan-Ching Li, and Mario M. Freire (Editors). Emerging Technologies in Knowledge Discovery and Data Mining: Proceedings of PAKDD 2007 International Workshops. Nanjing, China, May 22, 2007. Lecture Notes in Artificial Intelligence, volume 4819 (LNAI 4819), December, 2007, Springer-Verlag.

4.     Jinyan Li, Qiang Yang and Limsoon Wong. Guest Editors' Introduction: Data Mining in Bioinformatics. IEEE Intelligent Systems, Page 16-18, Volume 20, Number 6, November/December 2005 (Special Issue on Bioinformatics).


Scientific Papers Published in 2010


 

1.     Jinyan Li, Qian Liu, Tao Zeng. Negative correlations in collaboration: concepts and algorithms. KDD 2010, Washington D.C., July, 2010.

2.     Lida Zhu, Jinyan Li. Water bioinformatics: an association study between Estrogen degradation and 16S RNA motifs. Accepted by ICBBE 2010, Chengdu, China.

3.     MingJie Tang, Weihang Wang, Yexi Jiang, Yuanchun Zhou, Jinyan Li, Peng Cui , Ying Liu, Baoping Yan. Birds Bring Flues? Mining Frequent and High Weighted Cliques from Birds Migration Networks. Accepted by DASFAA 2010, Japan.

4.     Qian Liu, Jinyan Li. Protein binding hot spots and the residue-residue pairing preference: a water exclusion perspective. BMC Bioinformatics. Accepted April, 2010.

5.     Perumal Anandagopu, Shamima SM Rashid, Jinyan Li. Low Thymine Content in PINK1 mRNAs and Insights into Parkinson's disease. Bioinformation. Accepted April 2010.

6.     Peng Chen, Chunmei Liu, Legand Burge, Jinyan Li, Mahmood Mohammad, William Southerland, Clay Gloster, Bing Wang. DomSVR: domain boundary prediction with support vector regression from sequence information alone. Amino Acids. Accepted Jan. 2010.

7.     Qian Liu, Jinyan Li. Propensity Vectors of Low-ASA Residue Pairs in the Distinction of Protein Interactions. Proteins: Structure, Function and Bioinformatics, volume 78(3), pages 589-602, February, 2010.

8.     Tao Zeng, Jinyan Li. Maximization of negative correlations in time-course gene expression data for enhancing understanding of molecular pathways. Nucleic Acids Research. Vol 38, No. 1, e1, 2010.

9.     David Lo, Jinyan Li, Limsoon Wong, Sian-Cheng Khoo. Mining Iterative Generators and Representative Rules for Software Specification Discovery. Accepted for publication in IEEE Transactions on Knowledge and Data Engineering, August 2009.

10.  Scott Mann, Jinyan Li, Yi-Ping Phoebe Chen. Insights into Bacterial Genome Composition through Variable Target GC Content Profiling. Journal of Computational Biology, 17(1), pages 79-96, Jan 2010.

11.  MingJie Tang, Yuanchun  Zhou, Jinyan Li, Weihang Wang, Peng Cui, Yuanseng Hou, Ze Luo,  Fuming Lei, Baoping  Yan. Exploring the Wild Birds' Migration Data for the Disease Spread Study of H5N1: A Clustering and Association Approach. Knowledge and Information Systems. Accepted April, 2010.

12.  Mengling Feng, Guozhu Dong, Jinyan Li, Yap-Peng Tan, Limsoon Wong. Pattern Space Maintenance for Data Updates and Interactive Mining. Accepted by Computational Intelligence, August 2009 (in press).

13.  Fei Luo, Jinyan Li. Inference of Transcriptional Regulation by Integrating Protein-Protein Interaction, Gene Expression and Tanscriptional Interaction Data. BMC Systems Biology, Accepted April, 2010.

14.  Liang Zhao, Jinyan Li. Mining for the antibody-antigen interacting associations that predict the B cell epitopes. BMC Structural Biology, Accepted March, 2010.

15.  Peng Chen, Jinyan Li. Prediction of protein long-range contacts using an ensemble genetic algorithm with sequence profile centers. BMC Structural Biology, Accepted March, 2010.

16.  Guimei Liu, Kelvin Sim, Jinyan Li  and Limsoon Wong. Efficient Mining of Distance-Based Subspace Clusters. Accepted by Statistical Analysis and Data Mining, November 2009 (in press).

17.  Kelvin Sim, Jinyan Li, Vivekanand Gopalkrishnan, Guimei Liu, Mining Maximal Quasi-Bicliques: Novel Algorithm and Applications in the Stock Market and Protein Networks. Accepted by Statistical Analysis and Data Mining, July 2009.

18.  Xiaowen Liu, Jinyan Li, Lusheng Wang. Modeling Protein Interacting Groups by Quasi-bicliques: Complexity, Algorithm and Application. IEEE/ACM Transactions on Computational Biology and Bioinformatics. Volume ?, issue ?, pages, 2009 (in press).


Journal Papers Published in 2009 or before


1.     Jinyan Li, Qian Liu. 'Double water exclusion': a hypothesis refining the O-ring theory for binding hot spots (hotspots) at protein interfaces. Bioinformatics, vol 25 (6), pp 743-750. March, 2009. doi: 10.1093/bioinformatics/btp058.

2.     Xinghuo Zeng, Jian Pei, Ke Wang, Jinyan Li. PADS: a simple yet effective pattern-aware dynamic search method for fast maximal frequent pattern mining. Knowledge and Information Systems (KAIS). Volume 20, issue 3, pages 375-385, 2009.

3.     Guimei Liu, Jinyan Li and Limsoon Wong. A New Concise Representation of Frequent Itemsets Using Generators and A Positive Border. Knowledge and Information Systems (KAIS) journal. Volume 17, issue 1, pages 35-56, October 2008.

4.     Sunshin Kim, Jaewoo Kang, Yong Je Chung, Jinyan Li and Keun Ho Ryu. Clustering orthologous proteins across phylogenetically distant species. Proteins: Structure, function, and Bioinformatics. 71(3), pages 1113-1122, April 2008. PMID: 18004756

5.     Jinyan Li, Guimei Liu, Haiquan Li and Limsoon Wong. Maximal Biclique Subgraphs and Closed Pattern Pairs of the Adjacency Matrix: A One-to-one Correspondence and Mining Algorithms. IEEE Transactions on Knowledge and Data Engineering. Volume 19, number 12, pages 1625-1637, December 2007.

6.     Jinyan Li and Qiang Yang. Strong Compound-Risk Factors: Efficient Discovery through Emerging Patterns and Contrast Sets. IEEE Transactions on Information Technology in Biomedicine, vol 11 (5), pages 544-552, September 2007.

7.     Scott Mann, Jinyan Li, and Yi-Ping Phoebe Chen. A pHMM-ANN based discriminative approach to promoter identification in prokaryote genomic contexts. Nucleic Acids Research, Vol 35 (2), e12, pages 1-7, January, 2007.

8.     Boon Chuan Pang, Vellaisamy Kuralmani, Tze Yun Leong, Rohit Joshi, Yin Hongli, Kah Keow Lee, Jinyan Li, and Ivan Ng. A hybrid outcome prediction model for severe traumatic brain injury. Journal of Neurotrauma. 2007, 24(1): 136-146. doi:10.1089/neu.2006.0113.

9.     Haiquan Li, Jinyan Li, and Limsoon Wong. Discovering motif pairs at interaction sites from protein sequences on a proteome-wide scale. Bioinformatics, April, 2006, volume 22: 989-996.

10.  Jinyan Li and Limsoon Wong. Structural Geography of the space of emerging patterns. Intelligent Data Analysis (IDA): An International Journal, Volume 9, pages 567-588, November 2005.

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

12.  Jinyan Li and Haiquan Li. Using Fixed Point Theorems to Model the Binding in Protein--Protein Interactions. IEEE Transactions on Knowledge and Data Engineering, vol. 17, no. 8, pp.1079-1087, August 2005.

13.  Guozhu Dong, Jinyan Li. Mining Border Descriptions of Emerging Patterns from Dataset Pairs. Knowledge and Information Systems: An International Journal. 8(2): 178 - 202, August, 2005.

14.  Di Huang, Tommy W.S. Chow, Eden W.M. Ma, and Jinyan Li. Efficient selection of discriminative genes from microarray gene expression data for cancer diagnosis. IEEE Transactions on Circuits and Systems I: Regular Papers, Volume 52, number 9: 1909--1918, September, 2005.

15.  Haiquan Li and Jinyan Li. Discovery of Stable and Significant Binding Motif Pairs from PDB Complexes and Protein Interaction Datasets . Bioinformatics, 21: 314-324, 2005.

16.  Huiqing Liu, Hao Han, Jinyan Li, and Limsoon Wong. DNAFSMiner: A web-based software toolbox to recognize two types of functional sites in DNA sequences . Bioinformatics (Application note). 21: 671-673, March, 2005.

17.  Jinyan Li, Thomas Manoukian, Guozhu Dong, Kotagiri Ramamohanarao. Incremental Maintenance on the Border of the Space of Emerging Patterns. Data Mining and Knowledge Discovery. Volume 9, issue 1, pages 89-116, 2004.

18.  Huiqing Liu, Hao Han, Jinyan Li, Limsoon Wong. Using Amino Acid Patterns to Accurately Predict Translation Initiation Sites. In silico Biology, 4:0022, 2004.

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

20.  Jinyan Li, Hwee-Leng Ong. Feature Space Transformation for Better Understanding Bio-Medical Classifications. Journal of Research and Practice in Information Technology. 36(3): 131-144, August 2004.

21.  Shao-Wu Meng, Zhuo Zhang, Jinyan Li. Twelve C2H2 Zinc Finger Genes on Human Chromesone 19 can Be Each Translated into the Same Type of Protein after Frameshifts. Bioinformatics. 20(1): 1--4, 2004.

22.  Jinyan Li, Huiqing Liu, See-Kiong Ng, Limsoon Wong. Discovery of Significant Rules for Classifying Cancer Diagnosis Data . Bioinformatics. 19 (suppl. 2): ii93-ii102. (This paper was also presented in the 2003 European Conference on Computational Biology, Paris, France, September 26-30.)

23.  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.

24.  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.

25.  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.

26.  Jinyan Li, Guozhu Dong, Kotagiri Ramamohanarao. Making Use of the Most Expressive Jumping Emerging Patterns for Classification. Knowledge and Information Systems, 3(2):131--145, 2001.

27.  Tommy W.S. Chow, Jin-Yan Li. Higher-order Petri Net models based on artificial neural networks. Artificial Intelligence, 92(1-2):289--300, 1997

28.  Jin-Yan Li, Tommy W.S Chow. Some comments on the paper: ``Stochastic choice of basis functions in adaptive function approximation and the functional-link net''. IEEE Transactions on Neural Networks, 8(2):452--454, 1997.

29.  Jin-Yan Li, Tommy W.S Chow. Function approximation of higher-order neural networks. Journal of Intelligent Systems, 6(3-4):239--260, 1996.


Conference Papers Published in 2009 or before

1.     Qian Liu, Yi-Ping Phoebe Chen, Jinyan Li. High Functional Coherence in k-Partite Protein Cliques of Protein Interaction Networks. BIBM 2009, Washington D.C., USA.

2.     Liang Zhao, Jinyan Li. Sequence-based B-cell epitope prediction by using associations in antibody-antigen structural complexes. BIBM CSBW 2009. Washington D.C., USA.

3.     Peng Chen, Jinyan Li. Prediction of Protein Long-Range Contacts Using GaMC Approach with Sequence Profile Centers. BIBM CSBW 2009. Washington D.C., USA.

4.     Fei Luo, Jinyan Li. Discovering Transcriptional Regulation by Integrating Protein-Protein Interaction, Gene Expression and Tanscriptional Interaction Data. OSB 2009, pp 109-116. Zhangjiajie, China. September, 2009

5.     Mingjie Tang, YuanChun Zhou, Peng Cui, weihang Wang, Jinyan Li, Haiting Zhang,  YuanSheng Hou, BaoPing Yan. Discovery of Migration Habitats and Routes of Wild Bird Species by Clustering and Association Analysis. ADMA 2009, pp. 288-301. Beijing, China. August, 2009. (This research work won the Best Application Paper award of this conference.)

6.     Guimei Liu, Jinyan Li, Limsoon Wong. Assessing and Predicting Protein Interactions Using Both Local and Global Network Topological Metrics. In the 19th International Conference on Genome Informatics (GIW2008). December, 2008. Brisbane, Australia.

7.     Mengling Feng, Jinyan Li, Limsoon Wong, Yap-Peng Tan. Negative Generator Border for Effective Pattern Maintenance. In the 4th International Conference on Advanced Data Mining and Applications (ADMA 2008), Chengdu, China.

8.     Xiaowen Liu, Jinyan Li, Lusheng Wang. Modeling Protein Interaction Sites by Quasi-bicliques: Complexity and Binding Motif Pairs. Cocoon 2008. Dalian, China.

9.     Jinyan Li, Kelvin Sim, Guimei Liu, and Limsoon Wong. Maximal Quasi-Bicliques with Balanced Noise Tolerance: Concepts and Co-clustering Applications. SIAM International Conference on Data Mining (SDM08), pages 72-83, Atlanta, Georgia, April 24-26, 2008, Atlanta, Georgia.

10.  David Lo, Sian-Cheng Khoo, and Jinyan Li. Mining and Ranking Generators of Sequential Patterns. SIAM International Conference on Data Mining (SDM08), pages 553-564, Atlanta, Georgia, April 24-26, 2008, Atlanta, Georgia.

11.  Suryany Lukman, Kelvin Sim, Jinyan Li and Phoebe Chen. Interacting amino acid preferences of 3D pattern pairs at the binding sites of transient and obligate protein complexes. In Proceedings of the Asia Pacific Bioinformatics Conference (APBC) 2008, pages 69-78. Kyoto, Japan, January 2008.

12.  Zeyar Aung, and Jinyan Li. Mining Super-Secondary Structure Motifs from 3D Protein Structures: A Sequence Order Independent Approach. In the Proceedings of the 18th International Conference on Genome Informatics(GIW2007). Pages 15-26, December, 2007.

13.  Jinyan Li, Guimei Liu and Limsoon Wong. Mining Statistically Important Equivalence Classes and \delta-Discriminative Emerging Patterns. In the Proceedings of The Thirteenth ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD 2007), pages 430-439, San Jose, USA, August 2007.

14.  Kuralmani Vellaisamy and Jinyan Li. Multidimensional Decision Support Indicator (mDSI) For Time Series Stock Trend Prediction. The 11th Pacific-Asia Conference on Knowledge Discovery and Data Mining (PAKDD 2007), Nanjing, China, May 22-25, 2007.

15.  Mengling Feng, Guozhu Dong, Jinyan Li, Yap-Peng Tan, and Limsoon Wong. Evolution and Maintenance of Frequent Pattern Space When Transactions Are Removed. The 11th Pacific-Asia Conference on Knowledge Discovery and Data Mining (PAKDD 2007), Nanjing, China, May 22-25, 2007.

16.  Niu Ben, Qiang Yang, Jinyan Li, Shiu Chi-keung, Sankar Pal: Discovering Patterns of DNA Methylation: Rule Mining with Rough Sets and Decision Trees, and Comethylation Analysis. PReMI 2007: 389-397

17.  Guimei Liu, Jinyan Li, Kelvin Sim, and Limsoon Wong. Distance Based Subspace Clustering with Flexible Dimension Partitioning. In the Proceedings of the 2007 23rd IEEE International Conference on Data Engineering (ICDE 2007), Istanbul, Turkey, April, 2007. Pages: 1250-1254.

18.  Kelvin S.H. Sim, Jinyan Li, Vivekanand Gopalkrishnan, and Guimei Liu. Mining Maximal Quasi-Bicliques to Co-Cluster Stocks and Financial Ratios for Value Investment. In the Proceedings of the 2006 IEEE International Conference on Data Mining (ICDM'06), pages 1059-1063. Hong Kong, December 2006.

19.  Guimei Liu, Kelvin S.H. Sim, Jinyan Li. Efficient Mining of Large Maximal Bicliques. In the Proceedings of the 8th International Conference on Data Warehousing and Knowledge Discovery (DaWaK 2006), pages 437-448, Krakow, Poland, 4 - 8 September 2006.

20.  Kuralmani Vellaisamy and Jinyan Li. Bayesian Approaches to Sequential Patterns Interestingness. In the Proceedings of the Ninth Pacific Rim International Conference on Artificial Intelligence (PRICAI 2006), pages 241-250, August 2006, Guilin, China.

21.  Ling Chen, Sourav S. Bhowmick and Jinyan Li. Mining Temporal Indirect Associations. Proceedings of 10th Pacific-Asia Conference on Knowledge Discovery and Data Mining (PAKDD 2006), pages 425-434, April, 2006, Singapore.

22.  Guimei Liu, Jinyan Li, Limsoon Wong and Wynne Hsu. Positive Borders or Negative Borders: How to Make Lossless Generator-based Representations Concise. In the Proceedings of the Sixth SIAM International Conference on Data Mining (SDM 2006), pages 469--473. April 20-22, Maryland, USA.

23.  Ling Chen, Sourav S. Bhowmick and Jinyan Li. COWES: Clustering Web Users Based on Historical Web Sessions. The 11th International Conference on Database Systems for Advanced Applications (DASFAA 2006), pages 541-556, 12 - 15 April, 2006, Singapore.

24.  Jinyan Li, Haiquan Li, Limsoon Wong, Jian Pei, Guozhu Dong. Minimum Description Length Principle: Generators Are Preferable to Closed Patterns. In the Proceedings of the Twenty-First National Conference on Artificial Intelligence (AAAI-06), pages 409-414, July 16 - 20, 2006 in Boston, Massachusetts.

25.  Jinyan Li, Huiqing Liu and Ling Li. Diagnostic Rules Induced by an Ensemble Method for Childhood Leukemia. IEEE the 5th Symposium on Bioinformatics and Bioengineering, Minneapolis, Minnesota, USA, Oct. 19-21, 2005. Pages 246-250.

26.  Jinyan Li, Haiquan Li, Donny Soh and Limsoon Wong. A Correspondence Between Maximal Complete Bipartite Subgraphs And Closed Patterns. The 9th European Conference on Principles and Practice of Knowledge Discovery in Databases (PKDD), Porto, Portugal, October 3-7, 2005. Pages 146--156.

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

28.  Guozhu Dong, Chunyu Jiang, Jian Pei, Jinyan Li, Limsoon Wong. Mining Succinct Systems of Minimal Generators of Formal Concepts. In the proceedings of the 10th International Conference on Database Systems for Advanced Applications (DASFAA 2005), Beijing, China, April 18-20, 2005, pages 175-187.

29.  Huiqing Liu, Jinyan Li, Limsoon Wong. Selection of Patient Samples and Genes for Outcome Prediction. the IEEE Computer Society Bioinformatics Conference (CSB2004), Stanford, CA, August 16-19, 2004. pages 382-392.

30.  Jinyan Li, Kotagiri Ramamohanarao. A Tree-based Approach to the Discovery of Diagnostic Biomarkers for Ovarian Cancer. Proceedings of the Eighth Pacific-Asia Conference on Knowledge Discovery and Data Mining (PAKDD 2004), Sydney, Australia. May 26-28, 2004. Pages: 682-691.

31.  Jinyan Li, Huiqing Liu, Limsoon Wong. Use of Built-in Features in the Interpretation of High-dimensional Cancer Diagnosis Data. in the proceedings of the Second Asia Pacific Bioinformatics Conference (APBC2004), Dunedin, New Zealand, January 18-22, 2004. pages 67--74.

32.  Haiquan Li, Jinyan Li, Soon Heng Tan, See-Kiong Ng. Discovery of Binding Motif Pairs from Protein Complex Structural Data and Protein Interaction Sequence Data. The Ninth Pacific Symposium on Biocomputing (PSB), January 6-10, 2004 at the Fairmont Orchid on Big Island of Hawaii. pages 312--323.

33.  Huiqing Liu, Hao Han, Jinyan Li, Limsoon Wong. An In-silico Method for Prediction of Polyadenylation Signals in Human Sequences. the 14th International Conference on Genome Informatics (GIW 2003), Pacifico Yokohama, Japan, December 14-17. pages 84--93.

34.  Jinyan Li, Huiqing Liu. Ensembles of Cascading Trees ( pdf, expanded version). In the Proceedings of the Third IEEE International Conference on Data Mining (ICDM'03), Melbourne, Florida, USA, November 19 - 22, 2003. Pages 585 - 588.

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

36.  Jinyan Li, Limsoon Wong. Using Rules to Analyse Bio-medical Data: A Comparison between C4.5 and PCL. Proceedings of Fourth International Conference on Web-Age Information Management (WAIM), pages 254-265, Chengdu, China, Aug. 2003.

37.  Jinyan Li, Hwee-Leng Ong. Feature Space Transformation and Decision Results Interpretation. Proceedings of 1st Asia Pacific Bioinformatics Conference, pages 129--137, Adelaide, Australia, February 2003. (The Best Paper of the conference.)

38.  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.)

39.  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.)

40.  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.

41.  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.

42.  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.

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

44.  Jinyan Li, Kotagiri Ramamohanarao, Guozhu Dong. Combining the Strength of Pattern Frequency and Distance for Classification. PAKDD 2001: 455-466.

45.  Jinyan Li, Kotagiri Ramamohanarao, Guozhu Dong. Emerging Patterns and Classification. ASIAN 2000: 15-32. (Keynote paper.)

46.  Jinyan Li, Kotagiri Ramamohanarao, Guozhu Dong. The Space of Jumping Emerging Patterns and Its Incremental Maintenance Algorithms. ICML 2000: 551-558.

47.  Jinyan Li, Guozhu Dong, Kotagiri Ramamohanarao. Making Use of the Most Expressive Jumping Emerging Patterns for Classification. PAKDD 2000: 220-232.

48.  Jinyan Li, Guozhu Dong, Kotagiri Ramamohanarao. Instance-Based Classification by Emerging Patterns. PKDD 2000: 191-200.

49.  Guozhu Dong, Xiuzhen Zhang, Limsoon Wong, Jinyan Li. CAEP: Classification by Aggregating Emerging Patterns. Discovery Science 1999: 30-42.

50.  Guozhu Dong, Jinyan Li. Efficient Mining of Emerging Patterns: Discovering Trends and Differences. KDD 1999: 43-52.

51.  Guozhu Dong, Jinyan Li, Xiuzhen Zhang. Discovering Jumping Emerging Patterns and Experiments on Real Datasets. Proceedings of 9th International Database Conference on Heterogeneous and Internet Databases (IDC99), Hong Kong, July 15-17, 1999.

52.  Jinyan Li, Xiuzhen Zhang, Guozhu Dong, Kotagiri Ramamohanarao, Qun Sun. Efficient Mining of High Confidience Association Rules without Support Thresholds. PKDD 1999: 406-411.

53.  Guozhu Dong, Jinyan Li. Interestingness of Discovered Association Rules in Terms of Neighborhood-Based Unexpectedness. PAKDD 1998: 72-86.

54.  Jin-Yan Li, Tommy W.S Chow, Yinglin Yu. The estimation theory and optimisation algorithm for the number of hidden units in the higher order feedforward neural network. Proceedings of IEEE International Conference on Neural Networks, Perth, Western Australia, Vol. 3, pages 1229--1233, 1995.

55.  Tommy W.S Chow, Jinyan Li, Yinglin Yu. An analysis of higher-order multilayer feedforward neural network. Proceedings of International Conference on Neural Information Processing, Beijing, China, Vol. 2, pages 851--854, 1995.

56.  Jinyan Li, Tommy W.S Chow, Yinglin Yu. Multiple training concept for higher-order back-propagation neural networks. Proceedings of International Conference on Neural Information Processing, Beijing, China, Vol. 2, pages 1037--1040, 1995.


Book Chapters

1.     Mengling Feng, Jinyan Li, Yap-Peng Tan, Guozhu Dong, Limsoon Wong. Maintenance of frequent patterns: a survey. Chapter XIV "Post-Mining of Association Rules: Techniques for Effective Knowledge Extraction", Yanchang Zhao, Chengqi Zhang, Longbing Cao (Eds.). May, 2009. IGI Global.

2.     Guozhu Dong, Jinyan Li, Guimei Liu, Limsoon Wong, Mining Conditional Contrast Patterns. Chapter XV in "Post-Mining of Association Rules: Techniques for Effective Knowledge Extraction", Yanchang Zhao, Chengqi Zhang, Longbing Cao (Eds.). May, 2009. IGI Global.

3.     Guozhu Dong, Jinyan Li. Emerging Patterns, Emerging Pattern Based Classification, Applications of Emerging Patterns for Microarray Gene Expression Data Analysis.  Encyclopedia of Database Systems, Özsu, M. Tamer; Liu, Ling (Eds.). September, 2009. Springer.

4.     Haiquan Li, Jinyan Li, Xuechun Zhao. Discovery of Protein Interaction Sites. In Encyclopedia of Data Warehousing and Mining, Second Edition (editor John Wang), pages 683-687, Jan, 2009. IGI Global.

5.     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. Book chapter 14 (pages 331-354) in New Generation of Data Mining Applications, IEEE Press/Wiley. Edited by Jozef Zurada and Medo Kantardzic. May, 2005.

6.     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.

7.     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.

8.     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.

9.     Fundamental Theories and Applications of Neural Systems, Yinling Yu (Editor). Chapter 10: Approximation properties of high-order neural networks, Jinyan Li. 1996. South China University of Technology Publisher.


Patents

1.     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.

2.     Jinyan Li. Prediction by Collective Likelihood from Emerging Patterns. PCT application no. PCT/SG02/00190, dated on 22 Aug. 2002, 5 September, 2003.

3.     Jinyan Li. A New Method to Discover Committees of Diversified Trees (I2R ID No: P2003020). May 2003.

4.     Jinyan Li. Plateau-like Structural Decomposition for Pattern Spaces (I2R ID No: P2003096). February 2004.