WAKE FOREST UNIVERSITY DEPARTMENT OF COMPUTER SCIENCE

PUBLICATIONS

DEPT. OF COMPUTER SCIENCE

Recent Publications

Faculty and students share their expertise and results of their research through publications. Citations for and links to recent publications by our faculty are listed below. Within the groupings by year, publications are organized alphabetically by faculty author. Publications preceded by a (*) include current or former student co-authors. Faculty names are bolded and link to the faculty member’s homepage if available. The citations are in Chicago format as provided by Google Scholar.

2021

(*) Peake, Ashley, Joe McCalmon, Yixin Zhang, Daniel Myers, Sarra Alqahtani, and Paúl Pauca. “Deep Reinforcement Learning for Adaptive Exploration of Unknown Environments”.  In 2021 International Conference on Unmanned Aircraft Systems (ICUAS).  — Publication Link (Preprint)

(*) Zhang, Yixin, Joe McCalmon, Ashley Peake, Sarra Alqahtani, and Paúl Pauca. “A Symbolic-AI Approach for UAV Exploration Tasks.” In 2021 7th International Conference on Automation, Robotics and Applications (ICARA), pp. 101-105. IEEE, 2021. — Publication Link

(*) Liu, Qing, Defu Yang, Jingwen Zhang, Ziming Wei, Guorong Wu, and Minghan Chen. “Analyzing the Spatiotemporal Interaction and Propagation of ATN Biomarkers in Alzheimer’s Disease using Longitudinal Neuroimaging Data.” IEEE International Symposium on Biomedical Imaging, 2021. — Publication Link (Preprint)

(*) Khuri, Natalia and Anish Prasanna. “Using Game Theory to Guide the Classification of Inhibitors of Human Iodide Transporters.” In Proceedings of the 36th ACM/SIGAPP Symposium On Applied Computing. March 2021. — Publication Link

(*) Liu, Tianen and Natalia Khuri. “Classification of Drug Prescribing Information Using Long Short-Term Memory Networks.” In Proceedings of the 36th ACM/SIGAPP Symposium On Applied Computing. March 2021. — Publication Link

(*) Yun, Tian, Deepti Garg, and Natalia Khuri. “Mining Biomedical Texts for Pediatric Information”. In Proceedings of the 12th International Conference on Bioinformatics Models, Methods and Algorithms. February 2021. — Publication Link

Salcedo, Eugenia, Michael Winter, Natalia Khuri, Giselle Knudsen, Andrej Sali, and Charles Craik. “Global Protease Activity Profiling Identifies HER2-Driven Proteolysis in Breast Cancer.” ACS Chemical Biology 2021. — Publication Link

(*) Khuri, Natalia, Esteban Murillo Burford, Sarah Parsons, and Chenqi Xu. “A Game-Theoretical Approach for Data Acquisition From Fitness Tracking Devices.” In Proceedings of the IEEE Symposium on Networks, Computers and Communications. June 2021. — Publication Link Not Yet Available

(*) Khuri, Natalia and Sarah Parsons. “A Value-Based Approach for Training of Classifiers with High-Throughput Small Molecule Screening Data.” In Proceedings of the 2021 ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM BCB). — Publication Link Not Yet Available

2020

Alqahtani, Sarra, Xinchi He, Rose Gamble, and Papa Mauricio. “Formal Verification of Functional Requirements for Smart Contract Compositions in Supply Chain Management Systems.” In Proceedings of the 53rd Hawaii International Conference on System Sciences. 2020. — Publication Link

(*) Peake, Ashley, Joe McCalmon, Yixin Zhang, Benjamin Raiford, and Sarra Alqahtani. “Wilderness Search and Rescue Missions using Deep Reinforcement Learning.” In 2020 IEEE International Symposium on Safety, Security, and Rescue Robotics (SSRR), pp. 102-107. IEEE, 2020. — Publication Link

(*) Peake, Ashley, Joe McCalmon, Benjamin Raiford, Tongtong Liu, and Sarra Alqahtani. “Multi-agent reinforcement learning for cooperative adaptive cruise control.” In 2020 IEEE 32nd International Conference on Tools with Artificial Intelligence (ICTAI), pp. 15-22. IEEE, 2020. — Publication Link

Daas, Hussam Al, Grey Ballard, and Peter Benner. “Parallel Algorithms for Tensor Train Arithmetic.” arXiv preprint arXiv:2011.06532 (2020). —  Publication Link

(*) Eswar, Srinivas, Koby Hayashi, Grey Ballard, Ramakrishnan Kannan, Richard Vuduc, and Haesun Park. “Distributed-memory parallel symmetric nonnegative matrix factorization.” In 2020 SC20: International Conference for High Performance Computing, Networking, Storage and Analysis (SC), pp. 1041-1054. IEEE Computer Society, 2020. — Publication Link

Devine, Karen D., and Grey Ballard. “GentenMPI: Distributed Memory Sparse Tensor Decomposition.” No. SAND2020-8515. Sandia National Lab.(SNL-NM), Albuquerque, NM (United States), 2020. — Publication Link

Al Daas, Hussam, Grey Ballard, and Peter Benner. “Communication-avoiding TT-tensor orthogonalization and rounding procedures.” In XXI Householder Symposium on Numerical Linear Algebra, p. 93. 2020. —  Publication Link

Ballard, Grey, Alicia Klinvex, and Tamara G. Kolda. “TuckerMPI: a parallel C++/MPI software package for large-scale data compression via the tucker tensor decomposition.” ACM Transactions on Mathematical Software (TOMS) 46, no. 2 (2020): 1-31. — Publication Link

(*) Ballard, Grey, and Kathryn Rouse. “General Memory-Independent Lower Bound for MTTKRP.” In Proceedings of the 2020 SIAM Conference on Parallel Processing for Scientific Computing, pp. 1-11. Society for Industrial and Applied Mathematics, 2020. — Publication Link

(*) Zhang, Jingwen, Defu Yang, Wei He, Guorong Wu, and Minghan Chen. “A Network-Guided Reaction-Diffusion Model of AT [N] Biomarkers in Alzheimer’s Disease.” In 2020 IEEE 20th International Conference on Bioinformatics and Bioengineering (BIBE), pp. 222-229. IEEE, 2020. — Publication Link

Chen, Minghan, Mansooreh Ahmadian, L. T. Watson, and Yang Cao. “Finding acceptable parameter regions of stochastic Hill functions for multisite phosphorylation mechanism.” The Journal of chemical physics 152, no. 12 (2020): 124108. — Publication Link

(*) Hamilton, Nolan H., Eddie Allan, and Errin W. Fulp. “Cluster Analysis of Passive DNS Features for Identifying Domain Shadowing Infrastructure.” In 2020 International Symposium on Networks, Computers and Communications (ISNCC), pp. 1-4. IEEE, 2020. — Publication Link

(*) Bhandari, Arnav, Katherine Juarez, and Errin W. Fulp. “Using Execution Profiles to Identify Process Behavior Classes.” In 2020 International Symposium on Networks, Computers and Communications (ISNCC), pp. 1-4. IEEE, 2020. — Publication Link

(*) Prosser, Bryan J., and Errin W. Fulp. “A Distributed Population Management Approach for Mobile Agent Systems.” In 2020 IEEE International Conference on Autonomic Computing and Self-Organizing Systems (ACSOS), pp. 102-108. IEEE, 2020. — Publication Link

(*) Hamilton, Nolan H., and Errin W. Fulp. “An evolutionary approach for constructing multi-stage classifiers.” In Proceedings of the 2020 Genetic and Evolutionary Computation Conference Companion, pp. 1730-1738. 2020. — Publication Link

(*) Rodríguez, Alina Pacheco, Errin W. Fulp, David J. John, and Jinku Cui. “Using evolutionary algorithms and pareto ranking to identify secure virtual local area networks.” In Proceedings of the 2020 Genetic and Evolutionary Computation Conference Companion, pp. 1512-1519. 2020. — Publication Link

(*) Hamilton, Nolan H., Steve McKinney, Eddie Allan, and Errin W. Fulp. “An Efficient Multi-Stage Approach for Identifying Domain Shadowing.” In ICC 2020-2020 IEEE International Conference on Communications (ICC), pp. 1-7. IEEE, 2020. — Publication Link

Zou, Ling, Peter Spanogiannopoulos, Lindsey M. Pieper, Huan-Chieh Chien, Wenlong Cai, Natalia Khuri, Joshua Pottel et al. “Bacterial metabolism rescues the inhibition of intestinal drug absorption by food and drug additives.” Proceedings of the National Academy of Sciences 117, no. 27 (2020): 16009-16018. — Publication Link

Khuri, Natalia. “Mining environmental chemicals with boosted trees.” In Proceedings of the 35th Annual ACM Symposium on Applied Computing, pp. 1082-1089. 2020. — Publication Link

Khuri, Natalia, Wendy Lee, K. Virginia Lehmkuhl-Dakhwe, Miri VanHoven, and Sami Khuri. “Interdisciplinary Minor in Bioinformatics: First Results and Outlook.” In Proceedings of the 51st ACM Technical Symposium on Computer Science Education, pp. 407-412. 2020. — Publication Link

Zou, Ling, Joshua Pottel, Natalia Khuri, Huy X. Ngo, Zhanglin Ni, Eleftheria Tsakalozou, Mark S. Warren, Yong Huang, Brian K. Shoichet, and Kathleen M. Giacomini. “Interactions of oral molecular excipients with breast cancer resistance protein, BCRP.” Molecular pharmaceutics 17, no. 3 (2020): 748-756. — Publication Link

(*) Parsons, Sarah and Natalia Khuri. “Discovery of Research Trends in Computer Science Education on Ethics Using Topic Modeling.” In Proceedings of the 2020 International Conference on Computational Science and Computational Intelligence. 2020. — Publication Link Not Yet Available

Gutiérrez, Giancarlos, Eveling Castro, Javier Delgado, Paúl Pauca, Stefan Klein, and Hans Lamecker. “Automatic quantification of hip osteoarthritis from low-quality x-ray images.” In Medical Imaging 2020: Biomedical Applications in Molecular, Structural, and Functional Imaging, vol. 11317, p. 113172A. International Society for Optics and Photonics, 2020. — Publication Link