Journal Publications

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2015

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Development of ListeriaBase and comparative analysis of Listeria monocytogenes, Mui Fern Tan, Cheuk Chuen Siow, Avirup Dutta, Naresh V.R. Mutha, Wei Yee Wee, Hamed Heydari, Shi Yang Tan, Mia Yang Ang, Guat Jah Wong, and Siew Woh Choo

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Development of ListeriaBase and comparative analysis of Listeria monocytogenes, Mui Fern Tan, Cheuk Chuen Siow, Avirup Dutta, Naresh VR Mutha, Wei Yee Wee, Hamed Heydari, Shi Yang Tan, Mia Yang Ang, Guat Jah Wong, and Siew Woh Choo

2014

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Adaptive Decentralized Control of Mobile Underwater Sensor Networks and Robots for Modeling Underwater Phenomena, Carrick Detweiler, Sreeja Banerjee, Marek Doniec, Mingshun Jiang, Francesco Peri, Robert F. Chen, and Daniela Rus

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Autonomous Capabilities for Small Unmanned Aerial Systems Conducting Radiological Response: Findings from a High-fidelity Discovery Experiment, Brittany Duncan and Robin Murphy

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Network Innovation using OpenFlow: A Survey, Adrian Lara, Anisha Kolasani, and Byrav Ramamurthy

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A phylogenetic model for understanding the effect of gene duplication on cancer progression, Qin Ma, Jaxk H. Reeves, David A. Liberles, Lili Yu, Zheng Chang, Jing Zhao, Juan Cui, Ying Xu, and Liang Liu

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A Statistical–Physical Model of Interference in Diffusion-Based Molecular Nanonetworks, Massimiliano Pierobon and Ian F. Akyildiz

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Balancing Cost and Reliability in the Design of Internet Protocol Backbone Using Agile Optical Networking, Byrav Ramamurthy, Rakesh K. Sinha, and K. K. Ramakrishnan

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Cooperative Spectrum Sensing in Cognitive Radio Networks Using Multidimensional Correlations, Dongyue Xue, Eylem Ekici, and Mehmet C. Vuran

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TCP Congestion Avoidance Algorithm Identification, Peng Yang, Juan Shao, Wen Luo, Lisong Xu, Jitender S. Deogun, and Ying Lu

2013

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The endothelial lipase protein is promising urinary biomarker for diagnosis of gastric cancer, Xueyan Dong, Guoqing Wang, Guoqing Zhang, Zhaohui Ni, Jian Suo, Juan Cui, Ai Cui, Qing Yang, Ying Xu, and Fan Li

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A Survey on Inter-Cell Interference Coordination Techniques in OFDMA-Based Cellular Networks, Abdelbaset S. Hamza, Shady S. Khalifa, Haitham S. Hamza, and Khaled Elsayed

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Reliable Peak Selection for Multisample Analysis with Comprehensive Two-Dimensional Chromatography, Stephen E. Reichenbach, Xue Tian, Akwasi A. Boateng, Charles A. Mullen, Chiara Cordero, and Qingping Tao

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Data mining the functional characterizations of proteins to predict their cancer-relatedness, Peter Revesz and Christopher Assi

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Computational Prediction of Human Salivary Proteins from Blood Circulation and Application to Diagnostic Biomarker Identification, Jiaxin Wang, Yanchun Liang, Yan Wang, Juan Cui, Ming Liu, Wei Du, and Ying Xu

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Articulatory Distinctiveness of Vowels and Consonants: A Data-Driven Approach, Jun Wang, Jordan R. Green, Ashok Samal, and Yana Yunusova

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Exploring the Design Space of Multichannel Peer-to-Peer Live Video Streaming Systems, Miao Wang, Lisong Xu, and Byrav Ramamurthy

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Elucidation of How Cancer Cells Avoid Acidosis through Comparative Transcriptomic Data Analysis, Kun Xu

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Wireless Video Surveillance: A Survey, Yun Ye, Song Ci, Aggelos K. Katsaggelos, Yanwei Liu, and Yi Qian

2012

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Systems biology in the frontier of cancer research: a report of the Second International Workshop of Cancer Systems Biology, Juan Cui, Yan-Chun Liang, and Ying Xu

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Redistricting Using Constrained Polygonal Clustering, Deepti Joshi, Leen-Kiat Soh, and Ashok Samal

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Conductive Concrete as an Electromagnetic Shield, Aaron Krause, Lim Nguyen, Christopher Tuan, John Bonsell, and Bing Chen

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Reconsideration of In-Silico siRNA Design Based on Feature Selection: A Cross-Platform Data Integration Perspective, Qi Liu, Han Zhou, Juan Cui, Zhiewi Cao, and Ying Xu

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Applications of Cognitive Radio Networks, Jordi Perez-Romero, Linda Doyle, and Mehmet C. Vuran

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Features for non-targeted cross-sample analysis with comprehensive two-dimensional chromatography, Stephen E. Reichenbach, Xue Tian, Chiara Cordero, and Qingping Tao

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Palantir: Early Detection of Development Conflicts Arising from Parallel Code Changes, Anita Sarma, D F. Redmiles, and Andre van der Hoek

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Tridimensional Regression for Comparing and Mapping 3D Anatomical Structures, Kendra K. Schmid

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Exploring the Design Space of Multichannel Peer-to-Peer Live Video Streaming Systems, Miao Wang, Lisong Xu, and Byrav Ramamurthy

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Cross-Layer Analysis of the End-to-End Delay Distribution in Wireless Sensor Networks, Yunbo Wang, Mehmet C. Vuran, and Steve Goddard

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A Comparative Study of Gene-Expression Data of Basal Cell Carcinoma and Melanoma Reveals New Insights about the Two Cancers, Kun Xu, Xizeng Mao, Minesh Mehta, Juan Cui, Chi Zhang, and Ying Xu

2011

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An integrated transcriptomic and computational analysis for biomarker identification in gastric cancer, Juan Cui, Yunbo Chen, Wen-Chi Chou, Liankun Sun, Li Chen, Jian Suo, Zhaohui Ni, Ming Zhang, Xiaoxia Kong, Lisabeth L. Hoffman, Jinsong Kang, Yingying Su, Victor Olman, Darryl Johnson, Daniel W. Tench, I. Jonathan Amster, Ron Orlando, David Puett, Fan Li, and Ying Xu

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MicroRNA Expression and Regulation in Human Ovarian Carcinoma Cells by Luteinizing Hormone, Juan Cui, Joanna B. Eldredge, Ying Xu, and David Puett

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Gene-Expression Signatures Can Distinguish Gastric Cancer Grades and Stages, Juan Cui, Fan Li, Guoqing Wang, Xuedong Fang, J. David Puett, and Ying Xu

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Regulation of gene expression in ovarian cancer cells by luteinizing hormone receptor expression and activation, Juan Cui, Brooke M. Miner, Joanna B. Eldredge, Susanne W. Warrenfeltz, Phuongan Dam, Ying Xu, and David Puett

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Reclaiming Spare Capacity and Improving Aperiodic Response Times in Real-Time Environments, Sathich Gopalakrishnan and Xue Liu

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A Computational Method for Prediction of Excretory Proteins and Application to Identification of Gastric Cancer Markers in Urine, Celine S. Hong, Juan Cui, Zhaohui Ni, Yingying Su, David Puett, Fan Li, and Ying Xu

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SimCoL: A Simulation Tool for Computer-Supported Collaborative Learning, Nobel Khandaker and Leen-Kiat Soh

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Lessons Learned from Comprehensive Deployments of Multiagent CSCL Applications I-MINDS and ClassroomWiki, Nobel Khandaker, Leen-Kiat Soh, L.D. Miller, Adam D. Eck, and Hong Jiang

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Comparative analysis of peak-detection techniques for comprehensive two-dimensional chromatography, Indu Latha, Stephen E. Reichenbach, and Qingping Tao

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A Midsummer Night’s Dream (with flying robots), Robin Murphy, Dylan Shell, Amy Guerin, Brittany Duncan, Benjamin Fine, Kevin Pratt, and Takis Zourntos

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A Comparative Analysis of Gene-Expression Data of Multiple Cancer Types, Kun Xu, Juan Cui, Victor Olman, Qing Yang, David Puett, and Ying Xu

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A Reliable Energy-Efficient Multi-Level Routing Algorithm for Wireless Sensor Networks Using Fuzzy Petri Nets, Zhenhua Yu, Xiao Fu, Yuanli Cai, and Mehmet C. Vuran

2010

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Wireless Heterogeneous Networks and Next Generation Internet, Eylem Ekici and Mehmet C. Vuran

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A Novel Weighted-Graph-Based Grouping Algorithm for Metadata Prefetching, Peng Gu, Jun Wang, Yifeng Zhu, Hong Jiang, and Pengju Shang

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ClassroomWiki: A Collaborative Wiki for Instructional Use with Multiagent Group Formation, Nobel Khandaker and Leen-Kiat Soh

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In-silico prediction of blood-secretory human proteins using a ranking algorithm, Qi Liu, Juan Cui, Qiang Yang, and Ying Xu

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A study of health effects of long-distance ocean voyages on seamen using a data classification approach, Yunmei Lu, Yanhong Gao, Zhongbo Cao, Juan Cui, Zhennan Dong, Yaping Tian, and Ying Xu

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MIMO Self-Encoded Spread Spectrum with Iterative Detection over Rayleigh Fading Channels, Shichuan Ma, Lim Nguyen, Won Mee Jang, and Yaoqing Yang

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Communication-Aware Load Balancing for Parallel Applications on Clusters, Xiao Qin, Hong Jiang, Adam Manzanares, Xiaojun Ruan, and Shu Yin

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Development of a Testbed for Wireless Underground Sensor Networks, Agnelo R. Silva and Mehmet C. Vuran

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XLP: A Cross-Layer Protocol for Efficient Communication in Wireless Sensor Networks, Mehmet C. Vuran and Ian F. Akyildiz

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The Trypanosoma brucei MitoCarta and its regulation and splicing pattern during development, Xiaobai Zhang, Juan Cui, Daniel Nilsson, Kapila Gunasekera, Astrid Chanfon, Xiaofeng Song, Huinan Wang, Ying Xu, and Torsten Ochsenreiter

2009

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Efficient MaxCount and threshold operators of moving objects, Scot Anderson and Peter Revesz

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Carving and Replaying Differential Unit Test Cases from System Test Cases, Sebastian Elbaum, Hui Nee Chin, Matthew B. Dwyer, and Matthew Jorde

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Projection Methods Require Black Border Removal, George Nagy, Sharad C. Seth, and Mahesh Viswanathan

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Dynamic Load Balancing for I/O-Intensive Applications on Clusters, Xiao Qin, Hong Jiang, Adam Manzanares, Xiaojun Ruan, and Shu Yin

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Smart Templates for peak pattern matching with comprehensive two-dimensional liquid chromatography, Stephen E. Reichenbach, Peter W. Carr, Dwight R. Stoll, and Qingping Tao

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A Method for Predicting Citations to the Scientific Publications of Individual Researchers, Peter Z. Revesz

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Error Control in Wireless Sensor Networks: A Cross Layer Analysis, Mehmet C. Vuran and Ian F. Akyildiz

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Upstream-Downstream Relationships in Terms of Annual Streamflow Discharges and Drought Events in Nebraska, Hong Wu, Leen-Kiat Soh, Ashok Samal, Tao Hong, David B. Marx, and Xunhong Chen

2008

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A Survey on Spectrum Management in Cognitive Radio Networks, Ian F. Akyildiz, Won-Yeol Lee, Mehmet C. Vuran, and Shantidev Mohanty

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Techniques for Computing Fitness of Use (FoU) for Time Series Datasets with Applications in the Geospatial Domain, Lei Fu, Leen-Kiat Soh, and Ashok Samal

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Efficient Selection of Observation Points for Functional Tests, Jian Kang, Sharad C. Seth, Yi-Shing Chang, and Vijay Gangaram

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Visible/Near-Infrared Hyperspectral Imaging for Beef Tenderness Prediction, Govindarajan Konda Naganathan, Lauren M. Grimes, Jeyamkondan Subbiah, Chris R. Calkins, Ashok Samal, and George E. Meyer

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Computation of a Face Attractiveness Index Based on Neoclassical Canons, Symmetry, and Golden Ratios, Kendra Schmid, David Marx, and Ashok Samal

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Considering operational issues for multiagent conceptual inferencing in a distributed information retrieval application, Leen-Kiat Soh

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I-MINDS: A Multiagent System for Intelligent Computer- Supported Collaborative Learning and Classroom Management, Leen-Kiat Soh, Nobel Khandaker, and Hong Jiang

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Investigating adaptive, confidence-based strategic negotiations in complex multiagent environments, Leen-Kiat Soh and Xin Li

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Multidomain Optical Networks: Issues and Challenges, Chava Vijaya Saradhi, Byrav Ramamurthy, Dominic A. Schupke, and Eiji Oki

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HBA: Distributed Metadata Management for Large Cluster-Based Storage Systems, Yifeng Zhu, Hong Jiang, Jun Wang, and Feng Xian

2007

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CRISPR Recognition Tool (CRT): a tool for automatic detection of clustered regularly interspaced palindromic repeats, Charles Band, Teresa L. Ramsey, Fareedah Sabree, Michael Lowe, Kyndall Brown, Nikos C. Kyrpides, and Philip Hugenholtz

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FAULT TOLERANT FIREWALL SANDWICHES, Stephen M. Goddard

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Experimenting with Software Testbeds for Evaluating New Technologies, Mikael Lindvall, Ioana Rus, Paolo Donzelli, Atif Memon, Marvin Zelkowitz, Aysu Betin-Can, Tevfik Bultan, Chris Ackermann, Bettina Anders, Sima Asgari, Victor Basili, Lorin Hochstein, Jörg Fellmann, Forrest Shull, Roseanne Tvedt, Daniel Pech, and Daniel Hirschbach

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An Analysis of Sexual Dimorphism in the Human Face, Ashok Samal, Vanitha Subramani, and David B. Marx

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A Scalable Approach for Survivable Virtual Topology Routing in Optical WDM Networks, Ajay Todimala and Byrav Ramamurthy

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Gradient-based value mapping for pseudocolor images, Arvind Visvanathan, Stephen E. Reichenbach, and Qingping Tao

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Gradient-based value mapping for pseudocolor images, Arvind Visvanathan, Stephen Reichenbach, and Qingping Tao

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A-MAC: Adaptive Medium Access Control for Next Generation Wireless Terminals, Mehmet C. Vuran and Ian F. Akyildiz

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A Method for Estimating Fractal Dimension of Tree Crowns from Digital Images, Dongsheng Zhang, Ashok Samal, and James R. Brandle

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PharmGED: Pharmacogenetic Effect Database, C. J. Zheng, L. Y. Han, B. Xie, C. Y. Liew, S. Ong, J. Cui, H. L. Zhang, Z. Q. Tang, S. H. Gan, L. Jiang, and Y. Z. Chen

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RACE: A Robust Adaptive Caching Strategy for Buffer Cache, Yifeng Zhu and Hong Jiang

2006

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Exploiting Geographical and Temporal Locality to Boost Search Efficiency in Peer-to-Peer Systems, Hailong Cai and Jun Wang

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Method of predicting Splice Sites based on signal interactions, Alexander Churbanov, Igor B. Rogozin, Jitender S. Deogun, and Hesham Ali

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On the Use of Mutation Faults in Empirical Assessments of Test Case Prioritization Techniques, Hyunsook Do and Gregg Rothermel

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Allocating Non-Real-Time and Soft Real-Time Jobs in Multiclusters, Ligang He, Stephen A. Jarvis, Daniel P. Spooner, Hong Jiang, Donna N. Dillenberger, and Graham R. Nudd

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Implementing CS1 With Embedded Instructional Research Design in Laboratories, Jeff Lang, Gwen C. Nugent, Ashok Samal, and Leen-Kiat Soh

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Interactive Fault Localization Techniques in a Spreadsheet Environment, Joseph R. Ruthruff, Margaret Burnett, and Gregg Rothermel

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Image Interpolation by Two-Dimensional Parametric Cubic Convolution, Jiazheng Shi and Stephen E. Reichenbach

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Spatial Correlation-Based Collaborative Medium Access Control in Wireless Sensor Networks, Mehmet C. Vuran and Ian F. Akyildiz

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A Survey of Security Issues In Wireless Sensor Networks, Yong Wang, Garhan Attebury, and Byrav Ramamurthy

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CEFT: A cost-effective, fault-tolerant parallel virtual file system, Yifeng Zhu and Hong Jiang

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Exploiting redundancy to boost performance in a RAID-10 style cluster-based file system, Yifeng Zhu, Hong Jiang, Xiao Qin, Dan Feng, and David Swanson

2005

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An Efficient Consistency Algorithm for the Temporal Constraint Satisfaction Problem, Berthe Y. Choueiry and Lin Xu

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Leveraging User-Session Data to Support Web Application Testing, Sebastian Elbaum, Gregg Rothermel, Srikanth Karre, and Marc Fisher II

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HIERARCHICAL FIREWALL LOAD BALANCING AND L4/L7 DISPATCHING, Stephen M. Goddard

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Geospatial Decision Support for Drought Risk Management, Steve Goddard, Sherri K. Harms, Stephen E. Reichenbach, Tsegaye Tadesse, and William J. Waltman

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Guest Editor’s Introduction: IEEE 2004 International Symposium on Software Testing and Analysis, Gregg Rothermel

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Shared Risk Link Group (SRLG)-Diverse Path Provisioning Under Hybrid Service Level Agreements in Wavelength-Routed Optical Mesh Networks, Lu Shen, Xi Yang, and Byrav Ramamurthy

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Dynamic Routing in Translucent WDM Optical Networks: The Intradomain Case, Xi Yang and Byrav Ramamurthy

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Survivable Lightpath Provisioning in WDM Mesh Networks Under Shared Path Protection and Signal Quality Constraints, Xi Yang, Lu Shen, and Byrav Ramamurthy