Data Science Ensemble Publications

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The following are publications resulting from Data Science Ensemble research.

Artificial Intelligence, Machine Learning, and Data Mining

 


Book Chapters


·         R. Benton, “Effective Removal of Noisy Data via Batch Effect Processing”, Bioinformatics in microRNA Research, Jingshan Huang, Glen M. Borchert, Dejing Dou, Jun Huan, Wenjun Lan, Ming Tan, and Bin Wu, Editors, Springer, pp. 187-196, 2017.

·         S. Singh, R. Benton, A. Singh, and A. Singh, “Machine Learning Techniques in Exploring micro-RNA Gene Discovery, Targets, and Functions”, Bioinformatics in microRNA Research, Jingshan Huang, Glen M. Borchert, Dejing Dou, Jun Huan, Wenjun Lan, Ming Tan, and Bin Wu, Editors, Springer, pp. 211-224, 2017.

·         Y. Xie, T. Johnsten, V. V. Raghavan, R. G. Benton, and W. Bush, “A Comprehensive Granular Model for Decision Making with Complex Data”, Granular Computing and Decision-Making: Interactive and Iterative Approaches, Witold Pedrycz and Shyi-Ming Chen, Editors, Springer, pp. 33-46, 2015.

·         W. Ashbee, L. Hively, and J. T. McDonald, “Nonlinear Epilepsy Forewarning by Support Vector Machines,” Epilepsy Topics, M. D. Holmes ed., Chapter 3, 2014.

·         B. Shah, R. Benton, Z. Wu, V. Raghavan, “Automatic and Semi-automatic Techniques for Image Annotation”, Semantic-based Visual Info. Retrieval, Yu-Jin Zhang, Editor, Idea Group Publishing, pp. 112-134, 2007.

 

 Journals


·         P. Luckett, J. T. McDonald, L. Hively, “Dissimilarity of Graph Invariant Features from EEG Phase-space Analysis,” Journal of Computer Engineering and Information Technology, Vol. 6, No. 3, 2017.

·         J. Huang, F. Gutierrez, H. J. Strachan, D. Dou, W. Huang, B. Smith, J. A. Blake, K. Eilbeck, D. A. Natale, Y. Lin, B. Wu, N. de Silva, X. Wang, Z. Liu, G. M. Borchert, M. Tan, and A. Ruttenberg, “OmniSearch: A Semantic Search System Based on the Ontology for MIcroRNA Target (OMIT) for microRNA-target gene interaction data,” J. Biomed Semantics, 7:25, May 10, 2016.

·         J. Huang, K. Eilbeck, B. Smith, J. A. Blake, D. Dou, W. Huang, D. A. Natale, A. Ruttenberg, J. Huan, M. T. Zimmermann, G. Jiang, Y. Lin, B. Wu, H. J. Strachan, Y. He, S. Zhang, X. Wang, Z. Liu, G. M. Borchert, and M. Tan, “The Non-Coding RNA Ontology (NCRO): A Comprehensive Resource for the Unification of Non-Coding RNA Biology,” J. Biomed Semantics, 7:24, May 4, 2016.

·         T. Johnsten, L. Fain, L. Fain, R. Benton, E. Butler, L. Pannell, and M, Tan, "Exploiting Multi-Layered Vector Spaces for Signal Peptide Detection", International Journal of Data Mining and Bioinformatics, vol. 13, no. 2, 141-157, 2015.

·         J. T. McDonald and L. Hively, “Multidisciplinary Approaches for Cyber Security,” National Cyber Security Institute’s Journal, vol. 1, no. 2, pp. 26-31, August 2014.

·         J. Huang, J. Dang, G. M. Borchert, K. Eilbeck, H. Zhang, M. Xiong, W. Jiang, H. Wu, J. A. Blake, D. A. Natale, and M. Tank, “OMIT: Dynamic, Semi-Automated Ontology Development for the Micro RNA Domain,” Plos One, 9, 7; July 15, 2014.

·         M. S. Ayhan, R. G. Benton, V. V. Raghavan, and S. Choubey, "Exploitation of 3D Stereotactic Surface Projection for Predictive Modeling of Alzheimer's Disease", in International Journal of Data Mining and Bioinformatics, Vol. 7, No 2, pp. 146-165, 2013.

·         J. Huang, C. Townsend, D. Lou, H. Liu, and M. Tan, “OMIT: A Domain-Specific Knowledge Base for Micro RNA Target Prediction,” Pharmacy Res., 28, 12, 3101-3104; August 31, 2011.

·         R. Singh, T. Johnsten, V. V. Raghavan, and Y. Xie, “Algorithms for Discovering Potentially Interesting Patterns,” International Journal of Granular Computing, Rough Sets, and Intelligence Systems, Vol. 2, No. 2, pp. 107-122, 2011.

 

 Invited Paper for Conferences/Workshops


·         V. V. Raghavan, R. G. Benton, T. Johnsten, and Y. Xie, "Representations for Large-scale Sequence Data Mining: A Tale of Two Vector Space Models", in International Conference on Rough Sets, Fuzzy Sets, Data Mining, and Granular Computing, pp. 15-25, October 11-14, 2013.

 

Refereed Papers for Conferences/Workshops


·         N. de Silva, D. Dou, and J. Huang, “Ontology-based Information Extraction PubMed Abstracts Using the OMIT Ontology to Discover Inconsistencies,” Proc. 8th ACM International Conference on Bioinformatics and Computational Biology (BCB-17), Boston, MA, August 2017.

·         S. Katragadda, R. Benton, and V. Raghavan, "Sub-Event Detection from Tweets", in IEEE International Joint Conference on Neural Networks, Anchorage, Alaska, pp. 2128-2135, May 14-19, 2017.

·         G. Clark, M. Doran, and T. Andel, “Cybersecurity Issues in Robotics,” IEEE Conference on Cognitive and Computational Aspects of Situation Management (CogSIMA 2017), Savannah, GA, March 27-31, 2017.

·         S. Katragadda, R. Benton, and V. Raghavan, "Framework for Real-Time Event Detection using Multiple Social Media Sources", 50th Annual Hawaii International Conference on System Sciences, pp. 1716-1725, January 3-7, 2017.

·         S. Katragadda, R. Benton, S. Virani, and V. Raghavan, "Detection of Event Onset using Twitter", in IEEE International Joint Conference on Neural Networks, Vancouver, Canada, 1539-1546, July 24-29, 2016.

·         A. Henderson, J. Maynard, and M. Doran, “Making the Trains Run on Time: The Development of a Self-Regulating, Real-Time Model Railroad System,” 20th World Multiconference on Systems, Cybernetics, and Informatics (WMSCI 2016), Orlando, FL, July 2016.

·         A. Henderson, J. Maynard, and M. Doran, “Modeling a Warehouse System: Intelligent Management of Autonomous Vehicles in a Factory Setting Using a Simulation and Scale Model,” American Society for Engineering Education (ASEE 2016), Orlando, FL, July 2016.

·         P. Luckett, J. T. McDonald, L. Hively, “Seizure Detection via Distance Traversal of Phase-Space Graphs,” IEEE International Conference on Biomedical and Health Informatics, Las Vegas, NV, February 24-27, 2016.

·         S. Katragadda, H. Karnati, M. Pusala, V. Raghavan, and R. Benton, "Detecting Adverse Drug Effects Using Link Classification on Twitter Data", IEEE International Conference on Bioinformatics and Biomedicine, Washington D.C., 675-679, November 9-12, 2015.

·         J. Huang, K. Eilbeck, J. A. Blake, D. Dou, D. A. Natale, A. Ruttenberg, B. Smith, M. T. Zimmermann, G. Jiang, Y. Lin, B. Wu, Y. He, S. Zhang, X. Wang, H. Zhang, Z. Liu, and M. Tan, "A Domain Onotology for the Non-Coding RNA Field,” Proc. 2015 IEEE International Conference on Bioinformatics and Biomedicine, Washington, D. C., pp. 621-624, November 2015.

·         J. Huang, F. Guiterrez, D. Dou, J. A. Blake, K. Eilbeck, D. A. Natale, B. Smith, Y. Lin, X. Wang, Z. Liu, M. Tan, and A. Ruttenberg, “A Semantic Approach for Knowledge Capture of Micro RNA Target Gene Interactions,” Proc. 2015 IEEE International Conference on Bioinformatics and Biomedicine, Washington, D. C., pp. 975-982, November 2015.

·         A. Henderson, J. Maynard, and M. Doran, “Scheduling a Real-Time Railroad System Using Lego Mindstorm Hardware,” International Conference on Computer and Information Science and Technology (CIST 2015), Ottawa, Canada, May 11-12, 2015.

·         J. Huang, J. Dang, X. Lu, M. Xiong, W. T. Gerthoffer, and M. Tan, “Semi-Automated Micro RNA Ontology Development Based on Artificial Neural Networks,” Proc. 2013 IEEE International Conference on Bioinformatics and Biomedicine, Shanghai, China, pp. 526-529, December 2013.

·         T. Johnsten, S. Alihamad, A. Kannalath, and R. G. Benton, “Targeted Action Rule Discovery”, in International Conference on Machine Learning and Applications, Miami, Florida, 348-353, December 4-7, 2013.

·         J. Lavergne, R. Benton, and V. V. Raghavan, "DynTARM: An In-Memory Data Structure for Targeted Strong and Rare Association Rule Mining Over Time-Varying Domains", in IEEE/WIC/ACM International Conference on Web Mining, Atlanta, Georgia, pp. 298-306, November 17-20, 2013.

·         R. G. Benton, S. Choubey, D. G. Clark, T. Johnsten, and V. V. Raghavan, "Diagnosis and Grading of Alzheimer's Disease via Automatic Classification of FDG-PET Scans", in International Conference on Brain and Health Informatics, Maebashi, Japan, pp. 266-276, October 29-31, 2013.

·         M. S. Ayhan, R. G. Benton, V. V. Raghavan, and S. Choubey, "Composite Kernels for Automatic Relevance Determination in Computerized Diagnosis of Alzheimer's Disease", in International Conference on Brain and Health Informatics, Maebashi, Japan, pp. 126-137, October 29-31, 2013.

·         L. Hively, J. T. McDonald, N. Munro, and E. Cornelius, “Forewarning of Epileptic Events from Scalp EEG,” in proceedings of the ORNL Biomedical Science and Engineering Center Conference, Oak Ridge National Laboratory, May 21-23, 2013.

·         J. Shelley-Tremblay, M. Doran, T. Young, “Capturing the Intention to Move: Testing a Brain-Computer Interface Using the Lateralized Readiness Potential,” Southeastern Psychological Association (SEPA 2013), 59th Annual Meeting, Atlanta, GA, March 13-16, 2013.

·         C. Smith, M. Doran, R. Daigle, and T. Thomas Jr., “Enhanced Situational Awareness in Autonomous Mobile Robots using Context-Based Mapping,” IEEE International Multi-Disciplinary Conference on Cognitive Methods in Situation Awareness and Decision Support (CogSIMA 2013), San Diego, CA, February 26-28, 2013.

·         L. Hively and J. T. McDonald, “Theorem-Based, Data-Driven, Cyber Event Detection,” in proceedings of the 8th Cyber Security and Information Intelligence Workshop, Oak Ridge National Laboratory, January 2013.

·         J. Lavergne, R. Benton, and V. V. Raghavan, "TRARM-RelSup: Targeted Rare Association Rule Mining Using Itemset Trees and the Relative Support Measure", in 20th International Symposium on Methodologies for Intelligent Systems, Vancouver, Canada, Macau, pp. 61-70, December 4-7, 2012.

·         J. Lavergne, R. Benton, and V. V. Raghavan, "Min-Max Itemset Trees for Dense and Categorical Datasets", in 20th International Symposium on Methodologies for Intelligent Systems, Vancouver, Canada, Macau, pp 51-60, December 4-7, 2012.

·         M. S. Ayhan, R. G. Benton, V. V. Raghavan, and S. Choubey, "Utilization of Domain-Knowledge for Simplicity and Comprehensibility in Predictive Modeling of Alzheimer's Disease", in International Workshop on Multiscale Biomedical Imaging Analysis, held in conjunction with IEEE International Conference on Bioinformatics and Biomedicine, Philadelphia, Pennsylvania, pp. 265 - 272, October 4-7, 2012.

·         J. Huang, J. Dang, X. Lu, D. Dou, J. A. Blake, W. T. Gerthoffer, and M. Tan, “An Onology-Based MicroRNA Knowledge Sharing and Acquisition Framework,” Proc. 2012 IEEE International Conference on Bioinformatics and Biomedicine, Philadelphia, PA, pp. 16-23, October 2012.

·         Y. Xie, J. Fisher, V. V. Raghavan, T. Johnsten, and C. Akkoc, “Granular Approach for Protein Sequence Analysis,” In Proceedings of 8th International Conference on Rough Sets and Current Trends in Computing, Chengolu, China, August 17 - 20, 2012.

·         D. Difallah, R. Benton, T. Johnsten and V. Raghavan, "FAARM: Frequent Association Action Rules Mining Using FP-Tree", in Workshop on Domain Driven Data Mining, part of 11th IEEE International Conference on Data Mining Workshops, Vancouver, Canada, pp. 398-404, December 11, 2011.

·         C. Akkoç, T. Johnsten and R. Benton, “Multi-layered Vector Spaces for Classifying and Analyzing Biological Sequences”, International Conference on Bioinformatics and Computational Biology, New Orleans, pp. 160-166, March 23-25, 2011.

·         M. S. Ayhan, R. Benton, V. V. Raghavan, and S. Choubey, “Exploitation of 3D Stereotactic Surface Projection for Automated Classification of Alzheimer’s Disease According to Dementia Levels”, IEEE International Conference on Bioinformatics and Biomedicine, Hong Kong, pp. 516-519, December 18-21, 2010.

·         C. Townsend, J. Huang, D. Dou, S. Dalvi, P. J. Hayes, L. He, W. Lin, H. Liu, R. Rudnick, H. Shah, H. Sun, X. Wang, and M. Tan, “OMIT: Domain Ontology and Knowledge Acquisition in Micro RNA Target Prediction,” Proc. 9th International Conference on Ontologies, Databases, and Applications of Semantics,  Springer-Verlag, Crete, Greece, pp. 1162-1169, October 2010.

·         B. Lemoine, S. Rayburn, R. Benton and ADNI, “Data Fusion and Feature Selection for Alzheimer's Diagnosis”, International Conference on Brain Informatics, Toronto, Canada, pp. 320-327, August 28-30, 2010.

 

Refereed Abstracts


·         M. S. Ayhan, R. Benton, V. V. Raghavan, and S. Choubey, “Determining Relevant Features Based on 3D Stereotactic Surface Projection to Detect Dementia Caused by Alzheimer's Disease”, 7th Annual Biotechnology and Bioinformatics Symposium, Lafayette, Louisiana, pp. 91-92, October 14-15, 2010.

 

Big Data

 

Refereed Papers for Conferences/Workshops


·         M. Van Devender, W. Glisson, R. Benton, and G. Grispos, "Understanding De-identification of Healthcare Big Data", in Americas Conference on Information Systems, Boston, Massachusetts, accepted, 10 pages, August 10-12, 2017.

·         S. Hsu, R. Benton, and R. Gottumukkala, "Real-Time Flu Monitoring System and Decision Informatics", in Hawaii International Conference on System Sciences, Kauai, Hawaii, pp. 2794-2803, January 5-8, 2015.