Publications



2013

  • Said Bleik, Meenakshi Mishra, Jun Huan , and Min Song, Text Categorization of Biomedical Data Sets using Graph Kernels and a Controlled Vocabulary , IEEE/ACM Transactions on Computational Biology and Bioinformatics , Accepted, 2013
  • Ruoyi Jiang, Hongliang Fei, Jun Huan , A Family of Joint Sparse PCA Algorithms for Anomaly Localization in Network Data Streams , IEEE Transactions on Knowledge and Data Engineering , Accepted, 2013
  • Avindra Fernando, Jun Huan , Jin Li, Xue-wen Chen, and Bo Luo, Identification of Transposable Elements of the Giant Panda (Ailuropoda melanoleuca) Genome , BMC Bioinformatics , Accepted, 2013
  • Hongliang Fei and Jun Huan , Structured Feature Selection and Task Relationship Inference for Multi-Task Learning , Knowledge and Information Systems (invited to the KAIS special issue of selected papers from ICDM'11) , Vol. 35, No. 2, pp. 345-364, 2013

2012

  • Brian Quanz, Jun Huan , and Meenakshi Mishra, Knowledge Transfer with Low-Quality Data: a Feature Extraction Issue , IEEE Transactions on Knowledge and Data Engineering , Accepted, 2012 (invited to the TKDE special issue of selected papers from ICDE'11)
  • Mohammad Al Hasan, Jun Huan , Jake Yue Chen, and Mohammed J. Zaki, Biological Knowledge Discovery and Data Mining , Scientific Programming , Vol. 20, No. 1, pp.1-2, 2012
  • Jintao Zhang and Jun Huan , Inductive Multi-Task Learning with Multiple View Data , The 18th ACM SIGKDD Conference on Knowledge Discovery and Data Mining (KDD'12) , Beijing, China, August 2012
  • Xin Huang, Hong Cheng, Jiong Yang, Jeffrey Xu Yu, Hongliang Fei, and Jun Huan , Semi-Supervised Clustering of Graph Objects: A Subgraph Mining Approach , The 17th International Conference on Database Systems for Advanced Applications (DASFAA'12) , Busan, South Korea, April 2012, acceptance rate 44/159=27.6%

2011

  • Jun Huan , Jake Chen, and Mohammed Zaki, Special Issue: Selected Articles from the 9th International Workshop on Data Mining in Bioinformatics (BIOKDD) , BMC Bioinformatics , Vol. 12, Suppl 12, 2011
  • Jintao Zhang, Gerald Lushington and Jun Huan , The BioAssay Network and Its Implications to Future Therapeutic Discovery , BMC Bioinformatics , Vol. 12, Suppl 5:S1, 2011
  • Yi Jia, Jintao Zhang, and Jun Huan , An efficient graph-mining method for complicated and noisy data with real-world applications , Knowledge and Information Systems , Vol. 28, No. 4, 423-447, 2011
  • Jintao Zhang, Gerald Lushington and Jun Huan , Characterizing the Diversity and Biological Relevance of the MLPCN Assay Manifold and Screening Set , Journal of Chemical Information and Modeling , ACS Publication, 2011
  • Xiaohong Wang, Jun Huan , Aaron Smalter, and Gerald Lushington, G-hash: Towards Fast Kernel-based Similarity Search in Large Graph Databases , Graph Data Management: Techniques and Applications , Sherif Sakr and Eric Pardede edt, IGI Global, ISBN 161350053X, 2011
  • Fang-Xiang Wu and Jun Huan , Guest Editorial: Special Focus on Bioinformatics and Systems Biology , IEEE/ACM Transaction on Computational Biology and Bioinformatics , Vol 8, No. 2, pp. 292-293, 2011
  • Hongliang Fei and Jun Huan , Structured Feature Selection and Task Relationship Inference for Multi-Task Learning , in Proceedings of the IEEE International Conference on Data Mining (ICDM'11) , Vancouver, Canada, December 2011, acceptance rate 12%, The Best Student Paper (1/101 accepted papers)
  • Meenakshi Mishra, Brian Potetz, and Jun Huan , Bayesian Classifier for Chemical Toxicity Prediction , in Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM'11) , Atlanta, GA, November 2011, short paper, acceptance rate 40%
  • Aaron Smalter, Jun Huan , and Gerald Lushington, Similarity Boosting for Label Noise Tolerance in Protein-Chemical Interaction Prediction , in Proceedings of the 2nd ACM Conference on Bioinformatics, Computational Biology and Biomedicine (ACM BCB'11) , Chicago, IL, August 2011, regular paper, acceptance rate 29/153 = 19%
  • Brian Quanz, Jun Huan , and Meenakshi Mishra, Knowledge Transfer with Low-Quality Data: a Feature Extraction Issue , in Proceedings of the IEEE International Conference on Data Engineernig (ICDE'11) , Hannover, Germany, April 2011, regular paper, acceptance rate 98/494 = 19.8%

2010

  • The MicroArray Quality Control (MAQC) Consortium, The MAQC-II Project: A Comprehensive Study of Common Practices for the Development and Validation of Microarray-based Predictive Models, Nature Biotechnology, Vol. 28, pp. 827-838, 2010
  • Yi Jia, Jun Huan, Constructing Non-Stationary Dynamic Bayesian Networks with a Flexible Lag Choosing Mechanism, BMC Bioinformatics, to appear.
  • Hongliang Fei and Jun Huan, Boosting with Structure Information in the Functional Space: an Application to Graph Classification, in Proceedings of the 16th ACM SIGKDD Conference on Knowledge Discovery and Data Mining (SIGKDD'10), 2010. PDF
  • Xiaohong Wang, Jun Huan, Aaron Smalter, Gerald Lushington, Application of Kernel Functions for Accurate Similarity Search in Large Chemical Databases, BMC Bioinformatics Vol. 11 (Suppl 3):S8, 2010
  • Aaron Smalter, Jun Huan, and Gerald Lushington, GPD: A Graph Pattern Diffusion Kernel for Accurate Graph Classification with Applications in Cheminformatics, IEEE/ACM Transactions on Computational Biology and Bioinformatics , Vol. 7, No.2, pp. 197-207, 2010. PDF
  • Jintao Zhang and Jun Huan, Comparison of Chemical Descriptors for Protein-Chemical Interaction Prediction, International Journal of Computational Bioscience, 2010

2009

  • Aaron Smalter, Jun Huan, Gerald Lushington, Feature Selection in the Feature Tensor Product Space, in Proceedings of the 9th IEEE International Conference on Data Mining (ICDM'09), 2009. PDF
  • Hongliang Fei, Jun Huan, L2 Norm Regularized Feature Kernel Regression For Graph Data, in Proceedings of the ACM 18th Conference on Information and Knowledge Management (CIKM'09), 2009. PDF
  • Brian Quanz, Jun Huan, Large Margin Transductive Transfer Learning, in Proceedings of the ACM 18th Conference on Information and Knowledge Management (CIKM'09), 2009. PDF
  • Brian Quanz and Jun Huan, Aligned Graph Classification with Laplacian Regularized Logistic Regression, in Proceedings of the SIAM Data Mining (SDM'09), 2009. PDF
  • Xiaohong Wang, Aaron Smalter, Jun Huan, and Gerald Lushington, G-Hash: Towards Fast Kernel-based Similarity Search in Large Graph Databases, in Proceedings of the 12th International Conference on Extending Database Technology (EDBT'09), 2009.
  • Xiaohong Wang, Jun Huan, Aaron Smalter, Gerald Lushington, Application of Kernel Functions for Accurate Similarity Search in Large Chemical Databases, in Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM'09), 2009.
  • Yi Jia, Jun Huan, The Analysis of Arabidopsis Thaliana Circadian Network Based on Non-stationary DBNs Approach with Flexible Time Lag Choosing Mechanism, in Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM'09), 2009.


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