Publication

Refereed journal articles

J12. Lei Duan, Guanting Tang, Jian Pei, James Bailey, Guozhu Dong, Vinh Nguyen, Akiko Campbell and Changjie Tang, ‘Efficient Discovery of Contrast Subspaces for Object Explanation and Characterization’, Knowledge and Information Systems, 2015. [ERA rank: B]

J11. Krishnakumar S, Gaudana SB, Vinh NX, Viswanathan GA, Chetty M, Wangikar PP (2015) Coupling of Cellular Processes and Their Coordinated Oscillations under Continuous Light in Cyanothece sp. ATCC 51142, a Diazotrophic Unicellular Cyanobacterium. PLoS ONE 10(5): e0125148. doi:10.1371/journal.pone.0125148 [ERA rank: A]

J10. Ahsan Chowdhury, Madhu Chetty and Nguyen X. Vinh, ‘Novel Time-Delayed S-System Model for Reverse Engineering Genetic Networks’, BMC Bioinformatics, 2013, 14:196. [IF: 3.493, Q1 (5/47 in ISI Mathematical & Computational Biology), ERA rank: A]

J09. Nguyen X. Vinh, Madhu Chetty, Ross L. Coppel, Sandeep Gaudana and Pramod P. Wangikar, ‘A Model of the Circadian Clock in the Cyanobacterium Cyanothece sp. ATCC 51142’, BMC Bioinformatics, 2013, 14(S2):S14 [IF: 3.493, Q1 (5/47 in ISI Mathematical & Computational Biology), ERA rank: A]

J08. Ahsan Chowdhury, Madhu Chetty and Nguyen X. Vinh, ‘Evaluating influence of microRNA in reconstructing gene regulatory networks’, Cognitive Neurodynamics, 2013, DOI: 10.1007/s11571-013-9265-x. [IF: 1.742]

J07. Nguyen X. Vinh and James Bailey, ‘Comments on Supervised Feature Selection by Clustering Using    Conditional Mutual Information-based Distances’, Pattern recognition, 2013, 46(4), pages 1220-1225. [IF: 3.172, Q1 (11/111 in ISI Computer Science, Artificial Intelligence), ERA rank: A*]

J06. Nizamul Morshed, Madhu Chetty, Nguyen X. Vinh, ‘Simultaneous learning of instantaneous and time-delayed genetic interactions using novel information theoretic scoring technique’, BMC Systems Biology, 2012, 6(1):62. [IF: 3.544, Q1 (4/47 in ISI Mathematical & Computational Biology), ERA rank: B]

J05. Nguyen X. Vinh, Madhu Chetty, Ross L. Coppel, and Pramod P. Wangikar, ‘Issues impacting genetic network reverse engineering algorithm validation using small networks’, Biochim Biophys Acta, 2012, 1824(12): 1434-1441. [IF: 2.991, Q2 (97/290 in ISI Biochemistry and Molecular Biology), ERA rank: B]

J04. Nguyen X. Vinh, Madhu Chetty, Ross L. Coppel, and Pramod P. Wangikar, ‘Gene Regulatory Network Modeling via Global Optimization of High-Order Dynamic Bayesian Network’, BMC Bioinformatics, 2012, 13:131. [IF: 3.493, Q1 (5/47 in ISI Mathematical & Computational Biology), ERA rank: A, Citations: 5]

J03. Nguyen X. Vinh, Madhu Chetty, Ross L. Coppel, and Pramod P. Wangikar, ‘GlobalMIT: Learning Globally Optimal Dynamic Bayesian Network with the Mutual Information Test Criterion’, Bioinformatics, 2011, 27(19): 2765-2766. [IF: 6.051, Q1 (2/47 in ISI Mathematical & Computational Biology), ERA rank: A*, Citations: 21]

J02. Nguyen X. Vinh, Julien Epps and James Bailey, ‘Information Theoretic Measures for Clusterings Comparison: Variants, Properties, Normalization and Correction for Chance’, the Journal of Machine Learning Research, 2010, 11: 2837-54. [IF: 4.040, Q1 (7/111 in ISI Computer Science, Artificial Intelligence), ERA rank: A, Citations: 163]

J01. Bich N. H. Tran, Nguyen D. Nguyen, Nguyen X. Vinh, Jacqueline R. Center, John A. Eisman and Tuan V. Nguyen, ‘Genetic Profiling and Individualized Prognosis of Fracture’, the Journal of Bone and Mineral Research, 2010, 26(2):414-9. [IF: 6.459, Q1 (10/122 in ISI Endocrinology & Metabolism), ERA rank: A*, Citations: 13]

Refereed conference articles

C30. N. X. Vinh and J. Chan and J. Bailey and C. Leckie and K. Ramamohanarao and J. Pei. `Scalable Outlying-Inlying Aspects Discovery via Feature Ranking’. To appear in Proceedings of the 19th Pacific-Asia Conference on Knowledge Discovery and Data Mining (PAKDD), May 19-22, 2015.

C29. Yang Lei, Simone Romano, Nguyen Xuan Vinh, Jeffrey Chan, James Bailey and James C. Bezdek, ‘Generalized Information Theoretic Cluster Validity Indices for Soft Clusterings’, in Proceedings of the IEEE Symposium on Computational Intelligence and Data Mining, Florida USA, 2014.

C28. Yang Lei, Nguyen X. Vinh, Jeffrey Chan and James Bailey, “FILTA: Better View Discovery from Collections of Clusterings via Filtering”.  To appear in Proc. of the European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases (ECML/PKDD 2014).

C27. Nguyen X. Vinh, Jeffrey Chan, Simone Romano and James Bailey, ‘Efficient global optimization approaches for mutual information based feature selection’, in Proceedings of the 20th ACM SIGKDD Conference on Knowledge Discovery and Data Mining, New York, USA, 2014 [ERA rank A, acceptance rate 151/1036=14.6%]

C26. Simone Romano, James Bailey, Nguyen X. Vinh and Karin Verspoor, ‘Standardized Mutual Information for Clustering Comparisons: One Step Further in Adjustment for Chance’, in Proceedings of the Int. Conf. on Machine Learning (ICML’14), Beijing, China 2014. [ERA rank A]

C25. Nguyen X. Vinh, Jeffrey Chan and James Bailey, ‘Reconsidering mutual information based feature selection: a statistical significance view’, in Proceedings of the Twenty-Eighth AAAI Conference on Artificial Intelligence (AAAI-14), July 27–31, 2014, Québec, Canada. [ERA rank A]

C24. Jeffrey Chan, Xuan Vinh Nguyen, Wei Liu, James Bailey, Christopher Leckie, Kotagiri Ramamohanarao and Jian Pei, ‘Structure-aware Distance Measures for Comparing Clusterings in Graphs’, in Proceedings of the 18th Pacific-Asia Conference on Knowledge Discovery and Data Mining (PAKDD 2014), May 13-16, 2014, Tainan, Taiwan. [ERA rank A]

C23. Ahsan Chowdhury, Madhu Chetty and Nguyen X. Vinh, “On the Analysis of Time-delayed Interactions in Genetic Network using S-System Model”, International Conference on Neural Information Processing (ICONIP’13), 3-7 Nov 2013, Daegu. [ERA rank A]

C22. Ahsan Chowdhury, Madhu Chetty and Nguyen X. Vinh, “Reverse Engineering Genetic Networks with Time-delayed S-System Model and Pearson Correlation Coefficient”, International Conference on Neural Information Processing (ICONIP’13), 3-7 Nov 2013, Daegu, Korea. [ERA rank A]

C21. Nizamul Morshed, Madhu Chetty, Nguyen X. Vinh and Terry Caelli, ‘mDBN: motif-based learning of dynamic Bayesian network for the reconstruction of gene regulatory networks’, ACM SIG-EVO Genetic and Evolutionary Computation Conference (GECCO’13), pp 279-286 Amsterdam, Netherlands, July 06-10, 2013. [ERA rank A]

C20. Ahsan Chowdhury, Madhu Chetty and Nguyen X. Vinh, ‘Inferring Large Scale Genetic Networks with S-System Model’, ACM SIG-EVO Genetic and Evolutionary Computation Conference (GECCO’13), pp 271-278, Amsterdam, Netherlands, July 06-10, 2013. [ERA rank A]

C19. Nguyen X. Vinh, Madhu Chetty, Ross L. Coppel, Sandeep Gaudana and Pramod P. Wangikar, ‘A Model of the Circadian Clock in the Cyanobacterium Cyanothece sp. ATCC 51142’, The Eleventh Asia Pacific Bioinformatics Conference (APBC’13), Vancouver, Canada, 21-23 Jan 2013. [Best Paper Award]

C18. Nguyen X. Vinh, Madhu Chetty, Ross L. Coppel, and Pramod P. Wangikar, ‘Local and Global Algorithms for Learning Dynamic Bayesian Networks’, the IEEE International Conference on Data Mining (ICDM’12), pp 685 – 694, Brussels, Belgium, Dec 10-13, 2012. [ERA rank A, Acceptance rate: 81/756 = 10.7% full papers]

C17. Nizamul Morshed, Madhu Chetty and Nguyen X. Vinh, ‘FusGP: Bayesian Co-Learning of Gene Regulatory Networks and Protein Interaction Networks’, International Conference on Neural Information Processing (ICONIP’12), Dohar, Qatar, Nov 12-15, 2012. [ERA rank A]

C16. Nguyen X. Vinh, Madhu Chetty, Ross L. Coppel, and Pramod P. Wangikar, ‘Data Discretization for Dynamic Bayesian Network Based Modeling of Genetic Networks’, International Conference on Neural Information Processing (ICONIP’12), Dohar, Qatar, Nov 12-15, 2012. [ERA rank A]

C15. Ahsan Chowdhury, Madhu Chetty and Nguyen X. Vinh, ‘On the Reconstruction of Genetic Network from Partial Microarray Data’, International Conference on Neural Information Processing (ICONIP’12), Dohar, Qatar, Nov 12-15, 2012. [ERA rank A]

C14. Ahsan Chowdhury, Madhu Chetty and Nguyen X. Vinh, ‘Adaptive Regulatory Genes Cardinality for Reconstructing Genetic Networks’, IEEE Congress on Evolutionary Computation (CEC’12), Brisbane, Australia, June 10-15, 2012. [ERA rank A]

C13. Nguyen X. Vinh, Madhu Chetty, Ross L. Coppel, and Pramod P. Wangikar, ‘On Validating Genetic Network Reverse Engineering Algorithms Using Small Networks’, The Tenth Asia Pacific Bioinformatics Conference (APBC’12), Melbourne, Australia, 17-19 January 2012.

C12. Nguyen X. Vinh, Madhu Chetty, Ross L. Coppel, and Pramod P. Wangikar, ‘Dynamic Bayesian Network Modeling of Cyanobacterial Biological Processes via Gene Clustering’, the 18th International Conference on Neural Information Processing (ICONIP’11), Shanghai, China, Nov 14-17, 2011. [ERA rank A]

C11. Nguyen X. Vinh, Madhu Chetty, Ross L. Coppel, and Pramod P. Wangikar, ‘Polynomial Time Algorithm for Learning Globally Optimal Dynamic Bayesian Network’, the 18th International Conference on Neural Information Processing (ICONIP’11), Shanghai, China, Nov 14-17, 2011. [ERA rank A, Citations: 4]

C10. Nizamul Morshed, Madhu Chetty and Nguyen X. Vinh, ‘Simultaneous Learning of Instantaneous and Time-Delayed Genetic Interactions Using Novel Information Theoretic Scoring Technique’, the 18th International Conference on Neural Information Processing (ICONIP’11), Shanghai, China, Nov 14-17, 2011. [ERA rank A]

C09. Nguyen X. Vinh and Michael E. Houle, ‘A set correlation model for partitional clustering’, in Proc. the 14th Pacific-Asia Conference on Knowledge Discovery and Data Mining (PAKDD’10), Hyderabad, India, 21-24 June 2010. [ERA rank A, Acceptance rate: 42/412 = 10.2% full papers]

C08. Nguyen X. Vinh and Julien Epps, ‘minCEntropy: a Novel Information Theoretic Approach for the Generation of Alternative Clusterings’, the 10th IEEE Int. Conf. on Data Mining (ICDM’10), Sydney, Australia, Dec 2010. [ERA rank A, Acceptance rate: 72/793 = 9.1% full papers, Citations: 23]

C07. Nguyen X. Vinh and Julien Epps, ‘A Novel Approach for Automatic Number of Clusters Detection based on Consensus Clustering’, in Proc. IEEE Int. Conf. on Bioinformatics and Bioengineering (BIBE’09),Taipei, Taiwan, 22-24 June 2009. [Citations: 17]

C06. Nguyen X. Vinh, Julien Epps and James Bailey, ‘Information Theoretic Measures for Clusterings Comparison: Is a Correction for Chance Necessary?’, in Proc. the 26th International Conference on Machine Learning (ICML’09), Montreal, Canada, June 2009. [ERA rank A, Acceptance rate: 160/595=26.9%, Citations: 191]

C05. Nguyen X. Vinh, ‘Gene Clustering on the Unit Hypersphere with the Spherical K-means algorithm: coping with extremely large number of local optima’, in Proc. the International Conference on Bioinformatics and Computational Biology (BIOCOMP), Las-Vegas, USA, Jul 2008.

C04. Nguyen X. Vinh, Nguyen M. Phuong, ‘An Information Theoretic Divergence for Microarray Data Clustering’, in Proc. the 8th IEEE International conference on Bioinformatics and BioEngineering (BIBE’08), Athens, Greece, 8-10th Oct 2008.

C03. Nguyen M. Phuong, Nguyen X. Vinh, ‘Normalized EM algorithm for tumor clustering using gene expression data’, in Proc. the 8th IEEE International conference on Bioinformatics and BioEngineering (BIBE’08), Athens, Greece, 8-10th Oct 2008.

C02. Nguyen X. Vinh, Hoang D. Tuan, Hoang Tuy, ‘Clustering on the Unit Hypersphere via Concave Programming’, abstract, the international conference on Non-convex programming: Global and Local approach (NCP’07), Rouen, France 16-21 Dec 2007.

C01. Nguyen X. Vinh, Le Thi Phuong, Nguyen Thanh Thuy, Le Dang Hung, Dao Tran Minh, ‘Towards an agent enabled grid environment’, in Proc. The Second National Symposium Fundamental and Applied information Technology Research (FAIR’05), Ho Chi Minh City, Vietnam, 23-24 Sept 2005.

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