Jun Huan

Hongliang Fei, Jun Huan: Structured feature selection and task relationship inference for multi-task learning. Knowl. Inf. Syst. 35(2): 345-364 (2013)

Mohammad Al Hasan, Jun Huan, Jake Yue Chen, Mohammed J. Zaki: Biological knowledge discovery and data mining. Scientific Programming 20(1): 1-2 (2012)

Brian Quanz, Jun Huan, Meenakshi Mishra: Knowledge Transfer with Low-Quality Data: A Feature Extraction Issue. IEEE Trans. Knowl. Data Eng. 24(10): 1789-1802 (2012)

Jintao Zhang, Gerald H. Lushington, Jun Huan: Multi-target protein-chemical interaction prediction using task-regularized and boosted multi-task learning. BCB 2012: 60-67

Jintao Zhang, Jun Huan: Drug-induced QT prolongation prediction using co-regularized multi-view learning. BIBM 2012: 1-6

Avindra Fernando, Jun Huan, Justin P. Blumenstiel, Jin Lin, Xue-wen Chen, Bo Luo: Identification of transposable elements of the giant panda (Ailuropoda melanoleuca) genome. BIBM Workshops 2012: 674-681

Yi Jia, Wenrong Zeng, Jun Huan: Non-stationary bayesian networks based on perfect simulation. CIKM 2012: 1095-1104

Brian Quanz, Jun Huan: CoNet: feature generation for multi-view semi-supervised learning with partially observed views. CIKM 2012: 1273-1282

Xin Huang, Hong Cheng, Jiong Yang, Jeffrey Xu Yu, Hongliang Fei, Jun Huan: Semi-supervised Clustering of Graph Objects: A Subgraph Mining Approach. DASFAA (1) 2012: 197-212

Brian Quanz, Jun Huan: When Additional Views are Not Free: Active View Completion for Multi-view Semi-Supervised Learning. ICDM Workshops 2012: 169-178

Jintao Zhang, Jun Huan: Inductive multi-task learning with multiple view data. KDD 2012: 543-551

Jintao Zhang, Gerald H. Lushington, Jun Huan: The BioAssay network and its implications to future therapeutic discovery. BMC Bioinformatics 12(S-5): S1 (2011)

Yi Jia, Jintao Zhang, Jun Huan: An efficient graph-mining method for complicated and noisy data with real-world applications. Knowl. Inf. Syst. 28(2): 423-447 (2011)

Fang-Xiang Wu, Jun Huan: Guest Editorial: Special Focus on Bioinformatics and Systems Biology. IEEE/ACM Trans. Comput. Biology Bioinform. 8(2): 292-293 (2011)

Aaron Smalter Hall, Jun Huan, Gerald H. Lushington: Similarity boosting for label noise tolerance in protein-chemical interaction prediction. BCB 2011: 226-234

Meenakshi Mishra, Brian Potetz, Jun Huan: Bayesian Classifiers for Chemical Toxicity Prediction. BIBM 2011: 595-599

Hongliang Fei, Ruoyi Jiang, Yuhao Yang, Bo Luo, Jun Huan: Content based social behavior prediction: a multi-task learning approach. CIKM 2011: 995-1000

Brian Quanz, Jun Huan, Meenakshi Mishra: Knowledge transfer with low-quality data: A feature extraction issue. ICDE 2011: 769-779

Hongliang Fei, Jun Huan: Structured Feature Selection and Task Relationship Inference for Multi-task Learning. ICDM 2011: 171-180

Ruoyi Jiang, Hongliang Fei, Jun Huan: Anomaly localization for network data streams with graph joint sparse PCA. KDD 2011: 886-894

Xiaohong Wang, Jun Huan: G-Hash: Towards Fast Kernel-Based Similarity Search in Large Graph Databases. Graph Data Management 2011: 176-213

Xiaohong Wang, Jun Huan, Aaron M. Smalter, Gerald H. Lushington: Application of kernel functions for accurate similarity search in large chemical databases. BMC Bioinformatics 11(S-3): 8 (2010)

Yi Jia, Jun Huan: Constructing non-stationary Dynamic Bayesian Networks with a flexible lag choosing mechanism. BMC Bioinformatics 11(S-6): S27 (2010)

Seak Fei Lei, Jun Huan: Towards site-based protein functional annotations. IJDMB 4(4): 452-470 (2010)

Aaron M. Smalter, Jun Huan, Yi Jia, Gerald H. Lushington: GPD: A Graph Pattern Diffusion Kernel for Accurate Graph Classification with Applications in Cheminformatics. IEEE/ACM Trans. Comput. Biology Bioinform. 7(2): 197-207 (2010)

Deepak Bandyopadhyay, Jun Huan, Jinze Liu, Jan Prins, Jack Snoeyink, Wei Wang, Alexander Tropsha: Functional neighbors: inferring relationships between nonhomologous protein families using family-specific packing motifs. IEEE Transactions on Information Technology in Biomedicine 14(5): 1137-1143 (2010)

Jintao Zhang, Gerald H. Lushington, Jun Huan: Exploratory analysis of the BioAssay Network with implications to therapeutic discovery. BIBM 2010: 569-572

Meenakshi Mishra, Hongliang Fei, Jun Huan: Computational prediction of toxicity. BIBM 2010: 686-691

Hongliang Fei, Brian Quanz, Jun Huan: Regularization and feature selection for networked features. CIKM 2010: 1893-1896

Jun Huan: Knowledge Discovery in Academic Drug Discovery Programs: Opportunities and Challenges. ICDM 2010: 1218

Jintao Zhang, Jun Huan: Novel biological network features discovery for in silico identification of drug targets. IHI 2010: 144-152

Hongliang Fei, Jun Huan: Boosting with structure information in the functional space: an application to graph classification. KDD 2010: 643-652

Yi Jia, Jun Huan, Vincent Buhr, Jintao Zhang, Leonidas N. Carayannopoulos: Towards comprehensive structural motif mining for better fold annotation in the "twilight zone" of sequence dissimilarity. BMC Bioinformatics 10(S-1) (2009)

Aaron M. Smalter, Jun Huan, Gerald H. Lushington: Graph Wavelet Alignment Kernels for Drug Virtual Screening. J. Bioinformatics and Computational Biology 7(3): 473-497 (2009)

Deepak Bandyopadhyay, Jun Huan, Jan Prins, Jack Snoeyink, Wei Wang, Alexander Tropsha: Identification of family-specific residue packing motifs and their use for structure-based protein function prediction: I. Method development. Journal of Computer-Aided Molecular Design 23(11): 773-784 (2009)

Deepak Bandyopadhyay, Jun Huan, Jan Prins, Jack Snoeyink, Wei Wang, Alexander Tropsha: Identification of family-specific residue packing motifs and their use for structure-based protein function prediction: II. Case studies and applications. Journal of Computer-Aided Molecular Design 23(11): 785-797 (2009)

Yi Jia, Jun Huan: The Analysis of Arabidopsis thaliana Circadian Network Based on Non-stationary DBNs Approach with Flexible Time Lag Choosing Mechanism. BIBM 2009: 178-181

Xiaohong Wang, Jun Huan, Aaron M. Smalter, Gerald H. Lushington: Application of Kernel Functions for Accurate Similarity Search in Large Chemical Databases. BIBM 2009: 356-361

Hongliang Fei, Jun Huan: L2 norm regularized feature kernel regression for graph data. CIKM 2009: 593-600

Brian Quanz, Jun Huan: Large margin transductive transfer learning. CIKM 2009: 1327-1336

Xiaohong Wang, Aaron M. Smalter, Jun Huan, Gerald H. Lushington: G-hash: towards fast kernel-based similarity search in large graph databases. EDBT 2009: 472-480

Brian Quanz, Hongliang Fei, Jun Huan, Joseph B. Evans, Victor Frost, Gary J. Minden, Daniel D. Deavours, Leon Searl, Daniel DePardo, Martin Kuehnhausen, Daniel Fokum, Matt Zeets, Angela Oguna: Anomaly Detection with Sensor Data for Distributed Security. ICCCN 2009: 1-6

Hongliang Fei, Brian Quanz, Jun Huan: GLSVM: Integrating Structured Feature Selection and Large Margin Classification. ICDM Workshops 2009: 362-367

Aaron M. Smalter, Jun Huan, Gerald H. Lushington: Feature Selection in the Tensor Product Feature Space. ICDM 2009: 1004-1009

Brian Quanz, Jun Huan: Aligned Graph Classification with Regularized Logistic Regression. SDM 2009: 353-364

Jun Huan: Frequent Graph Patterns. Encyclopedia of Database Systems 2009: 1170-1175

Doheon Lee, Russ B. Altman, Min Song, Jun Huan (Eds.): Proceeding of the 3rd International Workshop on Data and Text Mining in Bioinformatics, DTMBIO 2009, Hong Kong, China, November 6, 2009. ACM 2009, isbn 978-1-60558-803-2

Aaron M. Smalter, Jun Huan, Gerald H. Lushington: Chemical Compound Classification with Automatically Mined Structure Patterns. APBC 2008: 39-48

Hongliang Fei, Jun Huan: Structure feature selection for chemical compound classification. BIBE 2008: 1-6

Aaron M. Smalter, Jun Huan, Gerald H. Lushington: GPM: A graph pattern matching kernel with diffusion for chemical compound classification. BIBE 2008: 1-6

Seak Fei Lei, Jun Huan: Towards Site-Based Protein Functional Annotations. BIBM 2008: 193-198

Deepak Bandyopadhyay, Jun Huan, Jinze Liu, Jan Prins, Jack Snoeyink, Wei Wang, Alexander Tropsha: Functional Neighbors: Inferring Relationships between Non-Homologous Protein Families Using Family-Specific Packing Motifs. BIBM 2008: 199-206

Brian Quanz, Meeyoung Park, Jun Huan: Biological pathways as features for microarray data classification. DTMBIO 2008: 5-12

Hongliang Fei, Jun Huan: Structure feature selection for graph classification. CIKM 2008: 991-1000

Min Song, Doheon Kim, Luke Huan (Eds.): Proceeding of the 2nd International Workshop on Data and Text Mining in Bioinformatics, DTMBIO 2008, Napa Valley, California, USA, October 30, 2008. ACM 2008, isbn 978-1-60558-251-1

David W. Williams, Jun Huan, Wei Wang: Graph Database Indexing Using Structured Graph Decomposition. ICDE 2007: 976-985

Xiang Zhang, Wei Wang, Jun Huan: On Demand Phenotype Ranking through Subspace Clustering. SDM 2007

Xueyi Wang, Jun Huan, Jack Snoeyink, Wei Wang: Mining RNA Tertiary Motifs with Structure Graphs. SSDBM 2007: 31

Jun Huan, Jan Prins, Wei Wang: Local Structure Comparison of Proteins. Advances in Computers 68: 180-255 (2006)

Stephen Olivier, Jun Huan, Jinze Liu, Jan Prins, James Dinan, P. Sadayappan, Chau-Wen Tseng: UTS: An Unbalanced Tree Search Benchmark. LCPC 2006: 235-250

Jun Huan, Deepak Bandyopadhyay, Wei Wang, Jack Snoeyink, Jan Prins, Alexander Tropsha: Comparing Graph Representations of Protein Structure for Mining Family-Specific Residue-Based Packing Motifs. Journal of Computational Biology 12(6): 657-671 (2005)

Jun Huan, Wei Wang, Jan Prins, Jiong Yang: SPIN: mining maximal frequent subgraphs from graph databases. KDD 2004: 581-586

Jun Huan, Wei Wang, Anglina Washington, Jan Prins, Ruchir Shah, Alexander Tropsha: Accurate Classification of Protein Structural Families Using Coherent Subgraph Analysis. Pacific Symposium on Biocomputing 2004: 411-422

Jun Huan, Wei Wang, Deepak Bandyopadhyay, Jack Snoeyink, Jan Prins, Alexander Tropsha: Mining protein family specific residue packing patterns from protein structure graphs. RECOMB 2004: 308-315

Jun Huan, Jan Prins, Wei Wang, Todd J. Vision: Reconstruction of Ancestral Gene Order after Segmental Duplication and Gene Loss. CSB 2003: 484-485

Jun Huan, Wei Wang, Jan Prins: Efficient Mining of Frequent Subgraphs in the Presence of Isomorphism. ICDM 2003: 549-552

Konstantin Berlin, Jun Huan, Mary Jacob, Garima Kochhar, Jan Prins, William Pugh, P. Sadayappan, Jaime Spacco, Chau-Wen Tseng: Evaluating the Impact of Programming Language Features on the Performance of Parallel Applications on Cluster Architectures. LCPC 2003: 194-208