Lawrence Berkeley National Lab

DST Recent Publications List


2019

  • Araujo, Silva, Resende, Ushizima, Medeiros, Carneiro & Bianchi, "Deep Learning for Cell Image Segmentation and Ranking", Computerized Medical Imaging and Graphics, (2019)
  • MacNeil, Ushizima, Panerai, Mansour, Barnard & Parkinson, "Interactive Volumetric Segmentation for Textile Microtomography Data using Wavelets and Non-local means", Journal of Statistical Analysis and Mining, (2019)
  • C. Nan-Chen Chen, "Harnessing Complexity in High Performance Computing Ecosystems: A Complex Adaptive Systems Framework", 2019 52nd Hawaii International Conference on System Sciences (HICSS), (2019)

2018

  • P. Enfedaque, H. Chang, H. Krishnan & S. Marchesini, "GPU-Based Implementation of Ptycho-ADMM for High Performance X-Ray Imaging", Computational Science -- ICCS 2018, 540-553 (2018)
  • A. Arkin, R. Cottingham, C. Henry, N. Harris, R. Stevens, S. Maslov, P. Dehal, D. Ware, F. Perez, S. Canon, M. Sneddon, M. Henderson, W. Riehl, D. Murphy-Olson, S. Chan, R. Kamimura, S. Kumari, M. Drake, T. Brettin, E. Glass, D. Chivian, D. Gunter, D. Weston, B. Allen, J. Baumohl, A. Best, B. Bowen, S. Brenner, C. Bun, J. Chandonia, J. Chia, R. Colasanti, N. Conrad, J. Davis, B. Davison, M. Dejongh, S. Devoid, E. Dietrich, I. Dubchak, J. Edirisinghe, G. Fang, J. Faria, P. Frybarger, W. Gerlach, M. Gerstein, A. Greiner, J. Gurtowski, H. Haun, F. He, R. Jain, M. Joachimiak, K. Keegan, S. Kondo, V. Kumar, M. Land, F. Meyer, M. Mills, P. Novichkov, T. Oh, G. Olsen, R. Olson, B. Parrello, S. Pasternak, E. Pearson, S. Poon, G. Price, S. Ramakrishnan, P. Ranjan, P. Ronald, M. Schatz, S. Seaver, M. Shukla, R. Sutormin, M. Syed, J. Thomason, N. Tintle, D. Wang, F. Xia, H. Yoo, S. Yoo & D. Yu, "KBase: The United States department of energy systems biology knowledgebase", Nature Biotechnology, 36, 566-569 (2018)
  • K. Beketayev, D. Yeliussizov, D. Morozov, G. H. Weber & B. Hamann, "Measuring the Error in Approximating the Sub-level Set Topology of Sampled Scalar Data", International Journal of Computational Geometry & Applications (IJCGA), 28, 57-77 (2018)
  • K. E. Bouchard, J. B. Aimone, M. Chun, T. Dean, M. Denker, M. Diesmann, D. D. Donofrio, L. M. Frank, N. Kasthuri, C. Koch, O. Ruebel, H. D. Simon, F. T. Sommer & Prabhat, "International Neuroscience Initiatives through the Lens of High-Performance Computing", Computer, 51, 50-59 (2018)
  • Y.-W. Cheah, D. Paine, D. Ghoshal & L. Ramakrishnan, "Bringing Data Science to Qualitative Analysis", 2018 IEEE 14th International Conference on e-Science, 325-326 (2018)
  • E. Deelman, T. Peterka, I. Altintas, C. Carothers, K. van Dam, K. Moreland, M. Parashar, L. Ramakrishnan, M. Taufer & J. Vetter, "The future of scientific workflows", International Journal of High Performance Computing Applications, 32, 159-175 (2018)
  • D. Ghoshal, L. Ramakrishnan & D. Agarwal, "Dac-Man: Data Change Management for Scientific Datasets on HPC Systems", Proceedings of the International Conference for High Performance Computing, Networking, Storage, and Analysis, 72:1-72:13 (2018)  PDF
  • Araujo, Silva, Medeiros, Farias, Calaes, Bianchi, Carneiro & Ushizima, "Active contours for overlapping cell segmentation", Int. Journal of Biomedical Engineering and Technology, (2018)
  • T.-W. Ke, A. S. Brewster, S. X. Yu, D. Ushizima, C. Yang & N. K. Sauter, "A Convolutional Neural Network-based Screening Tool for X-ray Serial Crystallography", Journal of Synchrotron Radiation, 25, 655-670 (2018)
  • B. Lessley, T. Perciano, C. Heinemann, D. Camp, H. Childs & E. W. Bethel, "DPP-PMRF: Rethinking Optimization for a Probabilistic Graphical Model Using Data-Parallel Primitives", 8th IEEE Symposium on Large Data Analysis and Visualization (LDAV), (2018)
  • T. Liebmann, G. H. Weber & G. Scheuermann, "Hierarchical Correlation Clustering in Multiple 2D Scalar Fields", Computer Graphics Forum (Special Issue, Proceedings Eurographics/IEEE Symposium on Visualization), 37, (2018)
  • V. de Melo, D. Ushizima, S. Baracho & R. Coelho, "Gradient Boosting Decision Trees for Echocardiogram Images", 2018 International Joint Conference on Neural Networks (IJCNN), (2018)
  • E. Lohrmann, Z. Luki, D. Morozov & J. Muller, "Programmable In Situ System for Iterative Workflows", Job Scheduling Strategies for Parallel Processing, 122-131 (2018)
  • D. Miller, J. Siirola, D. Agarwal, A. Burgard, A. Lee, J. Eslick, B. Nicholson, C. Laird, L. Biegler, D. Bhattacharyya, N. Sahinidis, I. Grossmann, C. Gounaris & D. Gunter, "Next Generation Multi-Scale Process Systems Engineering Framework", Computer Aided Chemical Engineering, 44, 2209-2214 (2018)
  • R. J. Pandolfi, D. B. Allan, E. Arenholz, L. Barroso-Luque, S. I. Campbell, T. A. Caswell, A. Blair, F. De Carlo, S. Fackler, A. P. Fournier, G. Freychet, M. Fukuto, D. Gursoy, Z. Jiang, H. Krishnan, D. Kumar, R. J. Kline, R. Li, C. Liman, S. Marchesini, A. Mehta, A. T. N'Diaye, D. Y. Parkinson, H. Parks, L. A. Pellouchoud, T. Perciano, F. Ren, S. Sahoo, J. Strzalka, D. Sunday, C. J. Tassone, D. Ushizima, S. Venkatakrishnan, K. G. Yager, P. Zwart, J. A. Sethian & A. Hexemer, "Xi-cam: A Versatile Interface for Data Visualization and Analysis", Journal of Synchrotron Radiation, 25, (2018)
  • C. Roberts, A. Scaglione & S. Peisert, "A Holistic Approach to Distribution Grid Intrusion Detection Systems", EnergyCentral, (2018)
  • T. Benzel & S. Peisert, "Selected Papers from the 2017 IEEE Symposium on Security and Privacy [Guest editors' introduction]", IEEE Security & Privacy, 16, 10-11 (2018)
  • S. Peisert, E. Dart, W. K. Barnett, J. Cuff, R. L. Grossman, E. Balas, A. Berman, A. Shankar & B. Tierney, "The Medical Science DMZ: A Network Design Pattern for Data-Intensive Medical Science", Journal of the American Medical Informatics Association (JAMIA), 26, 267-274 (2018)
  • M. Jamei, A. Scaglione & S. Peisert, "Cyber-Physical Relaying Reliability Enhancement through Hybrid Network Intrusion Detection Systems", Proceedings of the 2018 IEEE International Conference on Communications, Control, and Computing Technologies for Smart Grids (SmartGridComm),, (2018)
  • G. Rodrigo, M. Henderson, G. Weber, C. Ophus, K. Antypas & L. Ramakrishnan, "ScienceSearch: Enabling Search through Automatic Metadata Generation", Proceedings IEEE 14th International Conference on e-Science (e-Science) 2018, 93-104 (2018)
  • G. Rodrigo, E. Elmroth, P.-O. Ostberg & L. Ramakrishnan, "ScSF: A Scheduling Simulation Framework", Job Scheduling Strategies for Parallel Processing, 152-173 (2018)
  • G. Rodrigo, P. Östberg, E. Elmroth, K. Antypas, R. Gerber & L. Ramakrishnan, "Towards understanding HPC users and systems: A NERSC case study", Journal of Parallel and Distributed Computing, 111, 206-221 (2018)
  • O. Ruebel & B. P. Bowen, "BASTet: Shareable and Reproducible Analysis and Visualization of Mass Spectrometry Imaging Data via OpenMSI", IEEE Transactions on Visualization and Computer Graphics, 24, 1025-1035 (2018)
  • E. Stewart, P. Top, M. Chertkov, D. Deka, S. Backhaus, A. Lokhov, C. Roberts, V. Hendrix, S. Peisert, A. Florita, T. King & M. Reno, "Integrated multi-scale data analytics and machine learning for the distribution grid", 2017 IEEE International Conference on Smart Grid Communications, SmartGridComm 2017, 2018-January, 423-429 (2018)
  • D. Stone, M. Risser, O. Angelil, M. Wehner, S. Cholia, N. Keen, H. Krishnan, T. O'Brien & W. Collins, "A basis set for exploration of sensitivity to prescribed ocean conditions for estimating human contributions to extreme weather in CAM5.1-1degree", Weather and Climate Extremes, 19, 20-28 (2018)
  • S. Swaid, M. Maat, H. Krishnan, D. Ghoshal & L. Ramakrishnan, "Usability heuristic evaluation of scientific data analysis and visualization tools", Advances in Intelligent Systems and Computing, 607, 471-482 (2018)

2017

  • C. Heinemann, T. Perciano, D. Ushizima & E. W. Bethel, "Distributed Memory Parallel Markov Random Fields Using Graph Partitioning", 2017 IEEE International Conference on Big Data (Big Data), 3332-3341 (2017)
  • D. Agarwal, C. Varadharajan, S. Cholia, C. Snavely, V. Hendrix, D. Gunter, W. Riley, M. jones, A. budden & D. Vieglas, "Environmental System Science Data Infrastructure for a Virtual Ecosystem (ESS-DIVE)-A New US DOE Data Archive", (2017)
  • M. Alegro, P. Theofilas, A. Nguy, P. A. Castruita, W. Seeley, H. Heinsen, D. M. Ushizima & L. T. Grinberg, "Automating cell detection and classification in human brain fluorescent microscopy images using dictionary learning and sparse coding", Journal of Neuroscience Methods, 282, 20 - 33 (2017)  PDF
  • E. W. Bethel, "Towards a Data-Centric Research and Development Roadmap for Large-scale Science User Facilities", 13th IEEE International Conference on eScience, (2017)
  • T. E. Williams, D. Ushizima, C. Zhu, A. Anders, D. J. Milliron & B. A. Helms, "Nearest-neighbour nanocrystal bonding dictates framework stability or collapse in colloidal nanocrystal frameworks", Chemical Communications, 53, 4853-4856 (2017)  PDF
  • Y. Cheah, J. Boverhof, A. Elbashandy, D. Agarwal, J. Leek, T. Epperly, J. Eslick & D. Miller, "Data management and simulation support accelerating carbon capture through computing", Proceedings of the 2016 IEEE 12th International Conference on e-Science, e-Science 2016, 389-398 (2017)
  • D. S. Christianson, C. Varadharajan, B. Christoffersen, M. Detto, B. Faybishenko, B. O. Gimenez, V. Hendrix, K. J. Jardine, R. Negron-Juarez, G. Z. Pastorello & others, "A metadata reporting framework (FRAMES) for synthesis of ecohydrological observations", Ecological Informatics, 42, 148-158 (2017)
  • M. Farmand, R. Celestre, P. Denes, A. L. D. Kilcoyne, S. Marchesini, H. Padmore, T. Tyliszczak, T. Warwick, X. Shi, J. Lee, Y.-S. Yu, J. Cabana, J. Joseph, H. Krishnan, T. Perciano, F. R. N. C. Maia & D. A. Shapiro, "Near-edge X-ray refraction fine structure microscopy", Applied Physics Letters, 110, 063101 (2017)  PDF
  • W. Fox, D. Ghoshal, A. Souza, G. Rodrigo & L. Ramakrishnan, "E-HPC: A library for elastic resource management in HPC environments", Proceedings of WORKS 2017: 12th Workshop on Workflows in Support of Large-Scale Science - Held in conjunction with SC 2017: The International Conference for High Performance Computing, Networking, Storage and Analysis, (2017)
  • D. Ghoshal, V. Hendrix, W. Fox, S. Balasubhramanian & L. Ramakrishnan, "FRIEDA: Flexible Robust Intelligent Elastic Data Management Framework", The Journal of Open Source Software, 2, 164-164 (2017)
  • D. Ghoshal & L. Ramakrishnan, "MaDaTS: Managing data on tiered storage for scientific workflows", HPDC 2017 - Proceedings of the 26th International Symposium on High-Performance Parallel and Distributed Computing, 41-52 (2017)
  • B. Lessley, T. Perciano, M. Mathai, H. Childs & E. W. Bethel, "Maximal Clique Enumeration with Data Parallel Primitives", 7th IEEE Symposium on Large Data Analysis and Visualization (LDAV), (2017)
  • J. Lukasczyk, R. Maciejewski, G. H. Weber, C. Garth & H. Leitte, "Nested Tracking Graphs", Computer Graphics Forum (Special Issue, Proceedings Eurographics/IEEE Symposium on Visualization), 36, 12-22 (2017)
  • S. Murugesan, K. Bouchard, J. A. Brown, B. Hamann, W. W. Seeley, A. Trujillo & G. H. Weber, "Brain Modulyzer: Interactive Visual Analysis of Functional Brain Connectivity", IEEE Transactions on Computational Biology and Bioinformatics, 14, 805-818 (2017)
  • S. Murugesan, K. Bouchard, E. Chang, M. Dougherty, B. Hamann & G. H. Weber, "Multi-scale Visual Analysis of Time-varying Electrocorticography Data via Clustering of Brain Regions", BMC Bioinformatics, 18, 236 (2017)
  • P. Oesterling, C. Heine, G. H. Weber, D. Morozov & G. Scheuermann, "Computing and Visualizing Time-Varying Merge Trees for High-Dimensional Data", Topological Methods in Data Analysis and Visualization IV: Theory, Algorithms, and Applications, 87-101 (2017)
  • G. Pastorello, D. Gunter, H. Chu, D. Christianson, C. Trotta, E. Canfora, B. Faybishenko, Y. Cheah, N. Beekwilder, S. Chan, S. Dengel, T. Keenan, F. O'brien, A. Elbashandy, C. Poindexter, M. Humphrey, D. Papale & D. Agarwal, "Hunting data rogues at scale: Data quality control for observational data in research infrastructures", Proceedings - 13th IEEE International Conference on eScience, eScience 2017, 446-447 (2017)
  • S. Peisert, "Security in High-Performance Computing Environments", Communications of the ACM (CACM), 60, 72-80 (2017)
  • M. Jamei, A. Scaglione, C. Roberts, E. Stewart, S. Peisert, C. McParland & A. McEachern, "Automated Anomaly Detection in Distribution Grids Using μPMU Measurements", Proceedings of the 50th Hawaii International Conference on System Sciences (HICSS), Electric Energy Systems Track, Resilient Networks Minitrack, (2017)
  • S. Peisert & V. Welch, "The Open Science Cyber Risk Profile: The Rosetta Stone for Open Science and Cybersecurity", IEEE Security & Privacy, 15, 94-95 (2017)
  • S. Peisert, R. Gentz, J. Boverhof, C. McParland, S. Engle, A. Elbashandy & D. Gunter, "LBNL Open Power Data", (2017)
  • S. Peisert, M. Bishop & E. Talbot, "A Model of Owner Controlled, Full-Provenance, Non-Persistent, High-Availability Information Sharing", Proceedings of the 2017 New Security Paradigms Workshop (NSPW), 80-89 (2017)
  • S. Peisert, V. Welch, A. Adams, R. Bevier, M. Dopheide, R. LeDuc, P. Meunier, S. Schwab & K. Stocks, "Open Science Cyber Risk Profile (OSCRP)", (2017)
  • M. Jamei, A. Scaglione, C. Roberts, A. McEachern, E. Stewart, S. Peisert & C. McParland, "Online Thevenin Parameter Tracking Using Synchrophasor Data", Proceedings of the 2017 IEEE Power Engineering Society (PES) General Meeting (GM), (2017)
  • J. Ganz & S. Peisert, "ASLR: How Robust is the Randomness?", Proceedings of the 2017 IEEE Secure Development Conference (SecDev), (2017)
  • L. J. Osterweil, M. Bishop, H. M. Conboy, H. Phan, B. I. Simidchieva, G. S. Avrunin, L. A. Clarke & S. Peisert, "A Comprehensive Framework for Using Iterative Analysis to Improve Human-Intensive Process Security: An Election Example", ACM Transactions on Privacy and Security (TOPS), 20, (2017)
  • M. Jamei, A. Scaglione, C. Roberts, A. McEachern, E. Stewart, S. Peisert & C. McParland, "Anomaly Detection Using μPMU Measurements in Distribution Grids", IEEE Transactions on Power Systems, 33, (2017)
  • T. Perciano, D. Ushizima, H. Krishnan, D. Parkinson, N. Larson, D. M. Pelt, W. Bethel, F. Zok & J. Sethian, "Insight into 3D micro-CT data: exploring segmentation algorithms through performance metrics", Journal of Synchrotron Radiation, 24, 1065-1077 (2017)  PDF
  • H. Edelsbrunner & D. Morozov, "Persistent Homology", Handbook of Discrete and Computational Geometry, 3rd ed., (2017)
  • L. Ramakrishnan & D. Gunter, "Ten principles for creating usable software for science", Proceedings - 13th IEEE International Conference on eScience, eScience 2017, 210-218 (2017)
  • G. Rodrigo, E. Elmroth, P.-O. Östberg & L. Ramakrishnan, "Enabling Workflow-Aware Scheduling on HPC Systems", Proceedings of the 26th International Symposium on High-Performance Parallel and Distributed Computing, 3-14 (2017)  PDF
  • E. Stewart, V. Hendrix, M. Chertkov & D. Deka, "Integrated Multi-Scale Data Analytics and Machine Learning for the Distribution Grid and Building-to-Grid Interface", (2017)
  • B. J. Daurer, H. Krishnan, T. Perciano, F. R. N. C. Maia, D. A. Shapiro, J. A. Sethian & S. Marchesini, "Nanosurveyor: a framework for real-time data processing", Advanced Structural and Chemical Imaging, 3, 7 (2017)  PDF
  • G. H. Weber, S. Carpendale, D. Ebert, B. Fisher, H. Hagen, B. Shneiderman & A. Ynnerman, "Apply or Die: On the Role and Assessment of Application Papers in Visualization", IEEE Computer Graphics & Applications, 37, 96-104 (2017)
  • G. Weber, M. Bandstra, D. Chivers, H. Elgammal, V. Hendrix, J. Kua, J. Maltz, K. Muriki, Y. Ong, K. Song, M. Quinlan, L. Ramakrishnan & B. Quiter, "Web-based visual data exploration for improved radiological source detection", Concurrency Computation, 29, e4203 (2017)

2016

  • U. Ayachit, B. Whitlock, M. Wolf, B. Loring, B. Geveci, D. Lonie & E. W. Bethel, "The SENSEI Generic In Situ Interface", Proceedings of In Situ Infrastructures for Enabling Extreme-scale Analysis and Visualization (ISAV 2016), (2016)
  • U. Ayachit, A. Bauer, E. P. N. Duque, G. Eisenhauer, N. Ferrier, J. Gu, K. Jansen, B. Loring, Z. Lukić, S. Menon, D. Morozov, P. O'Leary, M. Rasquin, C. P. Stone, V. Vishwanath, G. H. Weber, B. Whitlock, M. Wolf, K. J. Wu & E. W. Bethel, "Performance Analysis, Design Considerations, and Applications of Extreme-scale In Situ Infrastructures", ACM/IEEE International Conference for High Performance Computing, Networking, Storage and Analysis (SC16), (2016)  PDF
  • A. C. Bauer, H. Abbasi, J. Ahrens, H. Childs, B. Geveci, S. Klasky, K. Moreland, P. O'Leary, V. Vishwanath, B. Whitlock & E. W. Bethel, "In Situ Methods, Infrastructures, and Applications on High Performance Computing Platforms, a State-of-the-art (STAR) Report", Computer Graphics Forum, Proceedings of Eurovis 2016, 35, (2016)
  • E. W. Bethel, M. Greenwald, K. K. van Dam, M. Parashar, S. M. Wild & H. S. Wiley, "Management, Analysis, and Visualization of Experimental and Observational Data -- The Convergence of Data and Computing", Proceedings of the 2016 IEEE 12th International Conference on eScience, (2016)
  • W. Bhimji, D. Bard, M. Romanus, D. Paul, A. Ovsyannikov, B. Friesen, M. Bryson, J. Correa, G. K. Lockwood, V. Tsulaia, S. Byna, S. Farrell, D. Gursoy, C. Daley, V. Beckner, B. Van Straalen, D. Trebotich, C. Tull, G. H. Weber, N. J. Wright, K. Antypas & Prabhat, "Accelerating Science with the NERSC Burst Buffer Early User Program", CUG2016 Proceedings, (2016)
  • A. Bhowmick, D. Brookes, S. Yost, H. Dyson, J. Forman-Kay, D. Gunter, M. Head-Gordon, G. Hura, V. Pande, D. Wemmer, P. Wright & T. Head-Gordon, "Finding Our Way in the Dark Proteome", Journal of the American Chemical Society, 138, 9730-9742 (2016)
  • K. E. Bouchard, J. B. Aimone, M. Chun, T. Dean, M. Denker, M. Diesmann, D. D. Donofrio, L. M. Frank, N. Kasthuri, C. Koch, O. Ruebel, H. D. Simon, F. T. Sommer & Prabhat, "High-Performance Computing in Neuroscience for Data-Driven Discovery, Integration, and Dissemination", Neuron, 92, 628 - 631 (2016)  PDF
  • H. A. Carr, G. H. Weber, C. M. Sewell & J. P. Ahrens, "Parallel Peak Pruning for Scalable SMP Contour Tree Computation", Proceedings of the 6th IEEE Symposium on Large Data Analysis and Visualization (LDAV), 75-84 (2016)
  • D. C. Miller, D. A. Agarwal, D. Bhattacharyya, J. Boverhof, Y.-W. Cheah, Y. Chen, J. C. Eslick, J. Leek, J. Ma, P. Mahapatra, B. Ng, N. Sahinidis, C. Tong & Z. SEo, "Innovative computational tools and models for the design, optimization and control of carbon capture processes", 26th European Symposium on Computer Aided Process Engineering – ESCAPE 26, 2391-2396 (2016)
  • N. Chen, S. Poon, L. Ramakrishnan & C. Aragon, "Considering time in designing Large-Scale systems for scientific computing", Proceedings of the ACM Conference on Computer Supported Cooperative Work, CSCW, 27, 1535-1547 (2016)
  • D. S. Christianson & C. G. Kaufman, "Effects of sample design and landscape features on a measure of environmental heterogeneity", Methods in Ecology and Evolution, 7, 770-782 (2016)
  • C. Daley, D. Ghoshal, G. Lockwood, S. Dosanjh, L. Ramakrishnan & N. Wright, "Performance characterization of scientific workflows for the optimal use of Burst Buffers", CEUR Workshop Proceedings, 1800, 69-73 (2016)
  • D. Morozov & T. Peterka, "Block-Parallel Data Analysis with DIY2", Proceedings of the IEEE Symposium on Large Data Analysis and Visualization (LDAV), (2016)
  • C. R. Fischer, O. Ruebel & B. P. Bowen, "An accessible, scalable ecosystem for enabling and sharing diverse mass spectrometry imaging analyses ", Archives of Biochemistry and Biophysics , 589, 18 - 26 (2016)  PDF
  • B. Friesen, A. Almgren, Z. Lukić, G. H. Weber, D. Morozov, V. Beckner & M. Day, "In Situ and In-transit Analysis of Cosmological Simulations", Computational Astrophysics and Cosmology, 3, 1-18 (2016)
  • J. Ganz, M. Bishop & S. Peisert, "Security Analysis of Scantegrity, an Electronic Voting System", (2016)
  • A. Greiner, E. Racah, R. Canon, J. Liu, Y. Liu, D. Bard, L. Gerhardt, R. Thomas, S. Cholia, J. Porter, W. Bhimji, Q. Koziol & Prabhat, "Data-Intensive Supercomputing for Science", (2016)
  • V. Hendrix, J. Fox, D. Ghoshal & L. Ramakrishnan, "Tigres Workflow Library: Supporting Scientific Pipelines on HPC Systems", Proceedings - 2016 16th IEEE/ACM International Symposium on Cluster, Cloud, and Grid Computing, CCGrid 2016, 146-155 (2016)
  • D. Morozov & Z. Lukić, "Master of Puppets: Cooperative Multitasking for In Situ Processing", Proceedings of the Symposium on High-Performance Parallel and Distributed Computing (HPDC), 285-288 (2016)
  • P. Huck, D. Gunter, S. Cholia, D. Winston, A. N'Diaye & K. Persson, "User applications driven by the community contribution framework MPContribs in the Materials Project", Concurrency Computation, 28, 1982-1993 (2016)
  • M. Kerber, D. Morozov & A. Nigmetov, "Geometry Helps to Compare Persistence Diagrams", Proceedings of the Workshop on Algorithm Engineering and Experiments (ALENEX), (2016)
  • D. Miller, D. Agarwal, D. Bhattacharyya, J. Boverhof, Y. Cheah, Y. Chen, J. Eslick, J. Leek, J. Ma, P. Mahapatra, B. Ng, N. Sahinidis, C. Tong & S. Zitney, "Innovative computational tools and models for the design, optimization and control of carbon capture processes", Computer Aided Chemical Engineering, 38, 2391-2396 (2016)
  • S. Murugesan, K. Bouchard, E. Chang, M. Dougherty, B. Hamann & G. H. Weber, "Hierarchical Spatio-temporal Visual Analysis of Cluster Evolution in Electrocorticography Data", Proceedings of the 7th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, 630-639 (2016)
  • H. Nguyen, D. Stone & E. W. Bethel, "Statistical Projections for Multi-dimensional Visual Data Exploration", 6th IEEE Symposium on Large Data Analysis and Visualization, (2016)
  • H. T. Nguyen, D. Stone & E. W. Bethel, "Statistical Projections for Multi-resolution, Multi-dimensional Visual Data Exploration and Analysis", (2016)
  • A. Ovsyannikov, M. Romanus, B. Van Straalen, G. H. Weber & D. Trebotich, "Scientific Workflows at DataWarp-Speed: Accelerated Data-Intensive Science using NERSC's Burst Buffer", Proceedings of the 1st Joint International Workshop on Parallel Data Storage & Data Intensive Scalable Computing Systems, 1-6 (2016)
  • M. Jamei, E. Stewart, S. Peisert, A. Scaglione, C. McParland, C. Roberts & A. McEachern, "Micro Synchrophasor-Based Intrusion Detection in Automated Distribution Systems: Towards Critical Infrastructure Security", IEEE Internet Computing, 20, (2016)  PDF
  • A. Gonzalez, J. Leigh, S. Peisert, B. Tierney, A. Lee & Jennifer M.. Schopf, "NetSage: Open Privacy-Aware Network Measurement, Analysis, And Visualization Service", Proceedings of TNC16 Networking Conference, (2016)
  • S. Peisert, W. K. Barnett, E. Dart, J. Cuff, R. L. Grossman, E. Balas, A. Berman, A. Shankar & B. Tierney, "The Medical Science DMZ", Journal of the American Medical Informatics Association (JAMIA), (2016)  PDF
  • G. Rodrigo, P.-O. Ostberg, E. Elmroth, K. Antypas, R. Gerber, L. Ramakrishnan & IEEE, "Towards Understanding Job Heterogeneity in HPC: A NERSC Case Study", 2016 16TH IEEE/ACM INTERNATIONAL SYMPOSIUM ON CLUSTER, CLOUD AND GRID COMPUTING (CCGRID), 521-526 (2016)  PDF
  • S. V. Venkatakrishnan, K. A. Mohan, K. Beattie, J. Correa, E. Dart, J. R. Deslippe, A. Hexemer, H. Krishnan, A. A. MacDowell, S. Marchesini, S. J. Patton, T. Perciano, J. A. Sethian, R. Stromsness, B. L. Tierney, C. E. Tull, D. Ushizima & D. Y. Parkinson, "Making Advanced Scientific Algorithms and Big Scientific Data Management More Accessible", Electronic Imaging, 2016, 1-7 (2016)  PDF
  • M. Verma, J. Fisher, K. Mallick, Y. Ryu, H. Kobayashi, A. Guillaume, G. Moore, L. Ramakrishnan, V. Hendrix, S. Wolf, M. Sikka, G. Kiely, G. Wohlfahrt, B. Gielen, O. Roupsard, P. Toscano, A. Arain & A. Cescatti, "Global surface net-radiation at 5 km from MODIS Terra", Remote Sensing, 8, (2016)
  • O. Rübel, B. Loring, J. L. Vay, D. P. Grote, R. Lehe, S. Bulanov, H. Vincenti & E. W. Bethel, "WarpIV: In Situ Visualization and Analysis of Ion Accelerator Simulations", IEEE Computer Graphics and Applications, 36, 22-35 (2016)

2015

  • A. W. Wills, D. J. Michalak, P. Ercius, E. R. Rosenberg, T. Perciano, D. Ushizima, R. Runser & B. A. Helms, "Block Copolymer Packing Limits and Interfacial Reconfigurability in the Assembly of Periodic Mesoporous Organosilicas", Advanced Functional Materials, n/a-n/a (2015)  PDF
  • D. A. Agarwal, B. Faybishenko, V. L. Freedman, H. Krishnan, C. L. Gary Kushner, E. Porter, A. Romosan, A. Shoshani, H. Wainwright, A. Weidmer & K. Wu, "A Science Data Gateway for Environmental Management", Concurrency and Computation: Practice and Experience, To appear (2015)
  • D. A. Agarwal, B. Faybishenko, V. L. Freedman, H. Krishnan, G. Kushner, C. Lansing, E. Porter, A. Romosan, A. Shoshani, H. Wainwright & others, "A science data gateway for environmental management", Concurrency and Computation: Practice and Experience, (2015)
  • C. Varadharajan, D. Agarwal, B. Faybishenko & R. Versteeg, "Agile data management for curation of genomes to watershed datasets", American Geophysical Union, Fall Meeting 2015, abstract #IN13A-1824, (2015)
  • E. W. Bethel, D. Camp, D. Donofrio & M. Howison, "Improving Performance of Structured-memory, Data-Intensive Applications on Multi-core Platforms via a Space-Filling Curve Memory Layout", International Workshop on High Performance Data Intensive Computing, an IEEE International Parallel and Distributed Processing Symposium (IPDPS) workshop, (2015)
  • R. Chard, S. Sehrish, A. Rodriguez, R. Madduri, T. Uram, M. Paterno, K. Heitmann, S. Cholia, J. Kowalkowski & S. Habib, "PDACS-A portal for data analysis services for cosmological simulations", Proceedings of GCE 2014: 9th Gateway Computing Environments Workshop, held in conjunction with SC 2014: The International Conference for High Performance Computing, Networking, Storage and Analysis, 30-33 (2015)
  • S. Cholia & T. Sun, "The NEWT platform: An extensible plugin framework for creating ReSTful HPC APIs", Concurrency Computation, 27, 4304-4317 (2015)
  • D. Chung, M. Bishop & S. Peisert, "Distributed Helios - Mitigating Denial of Service Attacks in Online Voting", (2015)  PDF
  • C. Daley, L. Ramakrishnan, S. Dosanjh & N. Wright, "Analyses of Scientific Workflows for Effective Use of Future Architectures", The 6th International Workshop on Big Data Analytics: Challenges, and Opportunities (BDAC-15), 2015 at SC, (2015)
  • E. Dede, B. Sendir, P. Kuzlu, J. Weachock, M. Govindaraju & L. Ramakrishnan, "Processing Cassandra Datasets with Hadoop-Streaming Based Approaches", Services Computing, IEEE Transactions on, PP, 1-1 (2015)
  • J. Yang, O. Ruebel, Prabhat, M. W. Mahoney & B. P. Bowen, "Identifying Important Ions and Positions in Mass Spectrometry Imaging Data Using CUR Matrix Decompositions", Analytical Chemistry, 87, 4658-4666 (2015)  PDF
  • D. S. Dalisay, K. W. Kim, C. Lee, H. Yang, O. Ruebel, B. P. Bowen, L. B. Davin & N. G. Lewis, "Dirigent Protein-Mediated Lignan and Cyanogenic Glucoside Formation in Flax Seed: Integrated Omics and MALDI Mass Spectrometry Imaging", Journal of Natural Products, 78, 1231-1242 (2015)  PDF
  • A. Agranovsky, D. Camp, K. I. Joy & H. Childs, "Subsampling-based compression and flow visualization", Proc. SPIE, 9397, 93970J-93970J-14 (2015)
  • J. Donatelli, M. Haranczyk, A. Hexemer, H. Krishnan, X. Li, L. Lin, F. Maia, S. Marchesini, D. Parkinson, T. Perciano, D. Shapiro, D. Ushizima, C. Yang & J. Sethian, "CAMERA: The Center for Advanced Mathematics for Energy Research Applications", Synchrotron Radiation News, 28, 4-9 (2015)  PDF
  • B. Dong, S. Byna & K. Wu, "Heavy-tailed Distribution of Parallel I/O System Response Time", Proceedings of the 10th Parallel Data Storage Workshop, 37-42 (2015)  PDF
  • B. Dong, S. Byna & K. Wu, "Spatially clustered join on heterogeneous scientific data sets", Big Data (Big Data), 2015 IEEE International Conference on, 371-380 (2015)
  • S. Duan, S. Peisert & K. Levitt, "hBFT: Fast Byzantine Fault Tolerance With Optimal Resilience", IEEE Transactions on Dependable and Secure Computing, 12, 58-70 (2015)
  • C. A. Emmerton, V. L. St. Louis, E. R. Humphreys, J. A. Gamon, J. D. Barker & G. Z. Pastorello, "Net ecosystem exchange of CO2 with rapidly changing high Arctic landscapes", Global Change Biology, (2015)  PDF
  • E. Feller, L. Ramakrishnan & C. Morin, "Performance and energy efficiency of big data applications in cloud environments: A Hadoop case study", Journal of Parallel and Distributed Computing, 79-80, 80-89 (2015)
  • C. Simon, J. Kim, D. Gomez-Gualdron, J. Camp, Y. G. Chung, R. L. Martin, R. Mercado, M. W. Deem, D. Gunter, M. Haranczyk, D. Sholl, R. Q. Snurr & B. Smit, "The Materials Genome in Action: Identifying the Performance Limits for Methane Storage", Energy Environ. Sci., (2015)  PDF
  • A. Jain, S. P. Ong, W. Chen, B. Medasani, X. Qu, M. Kocher, M. Brafman, G. Petretto, G.-M. Rignanese, G. Hautier, D. Gunter & K. A. Persson, "FireWorks: a dynamic workflow system designed for high-throughput applications", Concurrency and Computation: Practice and Experience, (2015)  PDF
  • C. Simon, J. Kim, Y. G. Chung, R. L. Martin, R. Mercado, M. W. Deem, D. Gunter, M. Haranczyk, R. Q. Snurr & B. Smit, "Computer-aided search for materials to store natural gas for vehicles", New Discovery, Front. Young Minds - Understanding the Earth and its Resources, (2015)
  • P. Huck, A. Jain, D. Gunter, D. Winston & K. Persson, "A Community Contribution Framework for Sharing Materials Data with Materials Project", 2015 IEEE 11th International Conference on eScience, 535-541 (2015)  PDF
  • T. Hey, D. Agarwal, C. Borgman, C. Cartaro, S. Crivelli, K. K. Van Dam, R. Luce, S. Arjun, A. Trefethen, A. Wade & others, "DOE Advanced Scientific Computing Advisory Committee (ASCAC) Subcommittee Report on Scientific and Technical Information", (2015)
  • P. Huck, D. Gunter, S. Cholia, D. Winston, A. N'Diaye & K. Persson, "User applications driven by the community contribution framework MPContribs in the Materials Project", Concurrency and Computation: Practice and Experience, (2015)
  • P. Huck, D. Gunter, S. Cholia, D. Winston, A. N'Diaye & K. Persson, "User Applications Driven by the Community Contribution Framework MPContribs in the Materials Project.", CoRR, abs/1510.05727, (2015)
  • J. Kim, B. Dong, S. Byna & K. Wu, "Security for the scientific data services framework", Big Data (Big Data), 2015 IEEE International Conference on, 1871-1875 (2015)
  • R. Madduri, A. Rodriguez, T. Uram, K. Heitmann, T. Malik, S. Sehrish, R. Chard, S. Cholia, M. Paterno, J. Kowalkowski & others, "PDACS: A Portal for Data Analysis Services for Cosmological Simulations", Computing in Science & Engineering, 17, 18-26 (2015)
  • R. Madduri, A. Rodriguez, T. Uram, K. Heitmann, T. Malik, S. Sehrish, R. Chard, S. Cholia, M. Paterno, J. Kowalkowski & S. Habib, "PDACS: A Portal for Data Analysis Services for Cosmological Simulations", Computing in Science and Engineering, 17, 18-26 (2015)
  • Y. Yao, T. Sun, T. Wang, O. Ruebel, T. Northen & B. P. Bowen, "Analysis of Metabolomics Datasets with High-Performance Computing and Metabolite Atlases", Metabolites, 5, 431 (2015)  PDF
  • S. Ong, S. Cholia, A. Jain, M. Brafman, D. Gunter, G. Ceder & K. Persson, "The Materials Application Programming Interface (API): A simple, flexible and efficient API for materials data based on REpresentational State Transfer (REST) principles", Computational Materials Science, 97, 209-215 (2015)  PDF
  • S. Peisert & et al., "ASCR Cybersecurity for Scientific Computing Integrity --- Research Pathways and Ideas Workshop", (2015)
  • A. Chavez, W. M. Stout & S. Peisert, "Techniques for the Dynamic Randomization of Network Attributes", Proceedings of the 49th Annual International Carnahan Conference on Security Technology, (2015)
  • G. Koutsandria, R. Gentzand, M. J. A. Scaglione, S. Peisert & C. McParland, "A Real-Time Testbed Environment for Cyber-Physical Security on the Power Grid", Proceedings of the First ACM Workshop on Cyber-Physical Systems Security & Privacy (CPS-SPC), (2015)
  • S. Duan, J. Sun & S. Peisert, "Towards a Self-Adaptive Middleware for Building Reliable Publish/Subscribe Systems", Proceedings of the 8th International Conference on Internet and Distributed Computing Systems (IDCS), (2015)
  • G. Rodrigo Álvarez, P.-O. Östberg, E. Elmroth & L. Ramakrishnan, "A2L2: An Application Aware Flexible HPC Scheduling Model for Low-Latency Allocation", Proceedings of the 8th International Workshop on Virtualization Technologies in Distributed Computing, 11-19 (2015)  PDF
  • G. Rodrigo Álvarez, P.-O. Östberg, E. Elmroth, K. Antypas, R. Gerber & L. Ramakrishnan, "HPC System Lifetime Story: Workload Characterization and Evolutionary Analyses on NERSC Systems", Proceedings of the 24th International Symposium on High-Performance Parallel and Distributed Computing, 57-60 (2015)
  • G. Rosenberg, P. Haghnegahdar, P. Goddard, P. Carr, K. Wu & M. L. de Prado, "Solving the optimal trading trajectory problem using a quantum annealer", Proceedings of the 8th Workshop on High Performance Computational Finance, 7 (2015)
  • O. Ruebel, M. Prabhat, P. Denes, D. Conant, E. Chang & K. Bouchard, "BRAINformat: A Data Standardization Framework for Neuroscience Data", bioRxiv, (2015)
  • H. Sim, Y. Kim, S. Vazhkudai, D. Tiwari, A. Anwar, A. Butt, L. Ramakrishnan & ACM, "AnalyzeThis: An Analysis Workflow-Aware Storage System", PROCEEDINGS OF SC15: THE INTERNATIONAL CONFERENCE FOR HIGH PERFORMANCE COMPUTING, NETWORKING, STORAGE AND ANALYSIS, (2015)  PDF
  • J. H. Song, M. Lopez de Prado, H. D. Simon & K. Wu, "Understanding Natural Gas Futures Trading Through Data Analysis", Available at SSRN 2657224, (2015)
  • N. Wright, S. Dosanjh, A. Andrews, K. Antypas, B. Draney, R. Canon, S. Cholia, C. Daley, K. Fagnan, R. Gerber, L. Gerhardt, L. Pezzaglia, A. Prabhat, K. Schafer & J. Srinivasan, "Cori: A pre-exascale supercomputer for big data and HPC applications", Advances in Parallel Computing, 26, 82-100 (2015)
  • L. Wu, K. Wu, A. Sim, M. Churchill, J. Y. Choi, A. Stathopoulos, CS. Chang & S. Klasky, "Towards Real-Time Detection and Tracking of Blob-Filaments in Fusion Plasma Big Data", (2015)
  • X. Zou, K. Wu, I. I. D. Boyuka, D. Martin, S. Byna, H. Tang, K. Bansal, T. Ligocki, H. Johansen & N. Samatova, "Parallel In Situ Detection of Connected Components in Adaptive Mesh Refinement Data", IEEE/ACM CCGrid, (2015)  PDF

2014

  • A. Agranovsky, D. Camp, C. Garth, E. W. Bethel, K. I. Joy & H. Childs, "Improved Post Hoc Flow Analysis Via Lagrangian Representations", Proceedings of the IEEE Symposium on Large Data Visualization and Analysis (LDAV), 67-75 (2014)
  • D. H. Bailey, S. Ger, M. L. de Prado, A. Sim & K. Wu, "Statistical Overfitting and Backtest Performance", (2014)
  • J. Balderrama, M. Simonin, L. Ramakrishnan, V. Hendrix, C. Morin, D. Agarwal & C. Tedeschi, "Combining workflow templates with a shared space-based execution model", Proceedings of WORKS 2014: The 9th Workshop on Workflows in Support of Large-Scale Science - held in conjunction with SC 2014: The International Conference for High Performance Computing, Networking, Storage and Analysis, 50-58 (2014)
  • D. Baldocchi, D. Agarwal, D. Papale & M. Torn, "Update on Fluxnet and the Role of Flux Networks in Biogeosciences", AGU Fall Meeting Abstracts, 1, 05 (2014)
  • K. Beketayev, D. Yeliussizov, D. Morozov, G. H. Weber & B. Hamann, "Measuring the Distance Between Merge Trees", Topological Methods in Data Analysis and Visualization III: Theory, Algorithms, and Applications, 151-166 (2014)
  • S. Blanas, K. Wu, S. Byna, B. Dong & A. Shoshani, "Parallel Data Analysis Directly on Scientific File Formats", SIGMOD'14, 385-396 (2014)
  • E. Dede, B. Sendir, P. Kuzlu, M. Govindaraju & L. Ramakrishnan, "A Processing Pipeline for Cassandra Datasets Based on Hadoop Streaming", IEEE International Congress on Big Data, (2014)
  • T. Chang, S. Duan, H. Meling & S. Peisert, "P2S: A Fault-Tolerant Publish/Subscribe Infrastructure", Proceedings of the 8th ACM International Conference on Distributed Event Based Systems (DEBS), 189-197 (2014)
  • R. Chard, S. Sehrish, A. Rodriguez, R. Madduri, T. D. Uram, M. Paterno, K. Heitmann, S. Cholia, J. Kowalkowski & S. Habib, "PDACS: a portal for data analysis services for cosmological simulations", Proceedings of the 9th Gateway Computing Environments Workshop, 30-33 (2014)
  • H.-T. Chiu, J. Chou, V. Vishwanath, S. Byna & K. Wu, "Simplifying Index File Structure to Improve I/O Performance of Parallel Indexing", The 20th IEEE International Conference on Parallel and Distributed Systems (ICPADS 2014), (2014)
  • R. Cowles, C. Jackson, V. Welch & S. Cholia, "A model for identity management in future scientific collaboratories", Proceedings of Science, 23-28-March-2014, (2014)
  • R. Cowles, C. Jackson, V. Welch & S. Cholia, "A Model for Identity Management in Future Scientific Collaboratories", International Symposium on Grids and Clouds (ISGC), (2014)
  • B. Dong, S. Byna & K. Wu, "Parallel query evaluation as a Scientific Data Service", Cluster Computing (CLUSTER), 2014 IEEE International Conference on, 194-202 (2014)
  • S. Duan, H. Meling, S. Peisert & H. Zhang, "BChain: Byzantine Replication with High Throughput and Embedded Reconfiguration", Proceedings of the 18th International Conference on Principles of Distributed Systems (OPODIS), (2014)
  • S. Duan, K. Levitt, H. Meling, S. Peisert & H. Zhang, "Byzantine Fault Tolerance from Intrusion Detection", Proceedings of the 33rd IEEE International Symposium on Reliable Distributed Systems (SRDS), 253-264 (2014)
  • V. Freedman, D. Agarwal, K. Bensema, S. Finsterle, C. Gable, E. Keating, H. Krishnan, C. Lansing, W. Moeglein, G. Pau & others, "Akuna: An Open Source User Environment for Managing Subsurface Simulation Workflows", AGU Fall Meeting Abstracts, 1, 04 (2014)
  • T. Hawk, I. Raicu & L. Ramakrishnan, "Scalable State Management for Scientific Applications in the Cloud", IEEE International Congress on Big Data, (2014)
  • R. Gerber, W. Allcock, C. Beggio, S. Campbell, A. Cherry, S. Cholia, E. Dart, C. England, T. Fahey, F. Foertter & others, "DOE High Performance Computing Operational Review (HPCOR): Enabling Data-Driven Scientific Discovery at HPC Facilities", (2014)
  • E. Dede, Z. Fadika, M. Govindaraju & L. Ramakrishnan, "Benchmarking MapReduce Implementations Under Different Application Scenarios", Future Generation Computer Systems , (2014)
  • H. Childs, S. Biersdorff, D. Poliakoff, D. Camp & A. D. Malony, "Particle Advection Performance Over Varied Architectures and Workloads", 21th Annual International Conference on High Performance Computing, HiPC 2014, (2014)
  • A. Harris, J. Gamon, G. Pastorello & C. Wong, "Retrieval of the photochemical reflectance index for assessing xanthophyll cycle activity: a comparison of near-surface optical sensors", Biogeosciences Discussions, 11, 11903-11942 (2014)  PDF
  • W. Harvey, I.-H. Park, O. Ruebel, V. Pascucci, P.-T. Bremer, C. Li & Y. Wang, "A collaborative visual analytics suite for protein folding research", Journal of Molecular Graphics and Modelling, 53, 59-71 (2014)
  • V. Hendrix, L. Ramakrishnan, Y. Ryu, C. Van Ingen, K. Jackson & D. Agarwal, "CAMP: Community access MODIS pipeline", Future Generation Computer Systems, 36, 418-429 (2014)
  • H. Öhman, S. Panitkin & V. Hendrix, "Using Puppet to contextualize computing resources for ATLAS analysis on Google compute engine", Journal of Physics: Conference Series, 513, (2014)
  • M. Howison & E. Bethel, "GPU-Accelerated Denoising of 3D Magnetic Resonance Images", Journal of Real-Time Image Processing, 1-12 (2014)  PDF
  • S. Hubbard, D. Agarwal, J. Banfield, H. Beller, E. Brodie, P. Long, P. Nico, C. Steefel, T. Tokunaga & K. Williams, "Genome-to-Watershed Predictive Understanding of Terrestrial Environments", AGU Fall Meeting Abstracts, 1, 0020 (2014)
  • D. Ushizima, T. Perciano, H. Krishnan, B. Loring, H. Bale, D. Parkinson & J. Sethian, "Structure Recognition from High Resolution Images of Ceramic Composites", IEEE International Conference on Big Data, (2014)
  • G. Koutsandria, V. Muthukumar, M. Parvania, S. Peisert, C. McParland & A. Scaglione, "A Hybrid Network IDS for Protective Digital Relays in the Power Transmission Grid", Proceedings of the 5th IEEE International Conference on Smart Grid Communications (SmartGridComm), 908-913 (2014)
  • Q. Liu, J. Logan, Y. Tian, H. Abbasi, N. Podhorszki, J. Y. Choi, S. Klasky, R. Tchoua, J. Lofstead, R. Oldfield, M. Parashar, N. Samatova, K. Schwan, A. Shoshani, M. Wolf, K. Wu & W. Yu, "Hello ADIOS: the challenges and lessons of developing leadership class I/O frameworks", Concurrency and Computation: Practice and Experience, 26, 1453-1473 (2014)
  • J. Liu, S. Byna, B. Dong, K. Wu & Y. Chen, "Model-Driven Data Layout Selection for Improving Read Performance", Parallel Distributed Processing Symposium Workshops (IPDPSW), 2014 IEEE International, 1708-1716 (2014)
  • P. E. Long, S. S. Hubbard, J. F. Banfield, H. R. Beller, E. L. Brodie, P. S. Nico, C. I. Steefel, T. K. Tokunaga, K. H. Williams & D. A. Agarwal, "Predictive Understanding of Subsurface Biogeochemical Functioning: Using Genomes to Inform Watershed-Scale Models", 2014 GSA Annual Meeting in Vancouver, British Columbia, (2014)
  • E. Dede, Z. Fadika, M. Govindaraju & L. Ramakrishnan, "MARIANE: Using MApReduce In HPC Environments", Future Generation Computer Systems , (2014)
  • C. McParland, S. Peisert & A. Scaglione, "Monitoring Security of Networked Control Systems: It's the Physics", IEEE Security & Privacy, 12, 32-39 (2014)
  • O. Menzer, G. Pastorello, S. Metzger, C. Poindexter, D. Agarwal & D. Papale, "Mapping AmeriFlux footprints: Towards knowing the flux source area across a network of towers", AGU Fall Meeting Abstracts, 1, 0155 (2014)
  • D. C. Miller, M. Syamlal, D. Mebane, C. Storlie, D. Bhattacharyya, N. V. Sahinidis, D. Agarwal, C. Tong, S. E. Zitney, A. Sarkar, X. Sun, S. Sundaresan, E. Ryan, D. Engel & C. Dale, "Carbon Capture Simulation Initiative: A Case Study in Multiscale Modeling and New Challenges", Annual Review of Chemical and Biomolecular Engineering, 5, (2014)
  • S. Panitkin, F. Megino, J. Bejar, D. Benjamin, A. Girolamo, I. Gable, V. Hendrix, J. Hover, K. Kucharczyk, R. Llamas, P. Love, H. Ohman, M. Paterson, R. Sobie, R. Taylor, R. Walker & A. Zaytsev, "ATLAS cloud R&D", Journal of Physics: Conference Series, 513, (2014)
  • M. Parvania, G. Koutsandria, V. Muthukumar, S. Peisert, C. McParland & A. Scaglione, "Hybrid Control Network Intrusion Detection Systems for Automated Power Distribution Systems", Proceedings of the 1st International Workshop on Trustworthiness of Smart Grids (ToSG), (2014)
  • G. Pastorello, D. Agarwal, T. Samak, D. Papale, C. Trotta, A. Ribeca, C. Poindexter, B. Faybishenko, D. Gunter, R. Hollowgrass & E. Canfora, "Observational data patterns for time series data quality assessment", Proceedings of the 10th IEEE International Conference on e-Science, (2014)
  • G. Pastorello, B. Faybishenko, C. Poindexter, O. Menzer, D. Agarwal, D. Papale & D. Baldocchi, "Evaluation of Growing Season Milestones, Using Eddy Covariance Time-Series of Net Ecosystem Exchange", AGU Fall Meeting Abstracts, 1, 0207 (2014)
  • G. Pastorello, C. Poindexter, C. van Ingen, D. Papale & D. Agarwal, "The many facets of integrating data and metadata for research networks: experience from the AmeriFlux Network", AGU Fall Meeting Abstracts, 1, 05 (2014)
  • G. Pastorello, C. Poindexter, D. Agarwal, D. Papale, C. van Ingen & M. Torn, "An overview of AmeriFlux data products and methods for data acquisition, processing, and publication", AGU Fall Meeting Abstracts, 1, 0158 (2014)
  • S. Peisert & J. Margulies, "Closing the Gap on Securing Energy Sector Control Systems [Guest editors' introduction]", Security & Privacy, IEEE, 12, 13-14 (2014)
  • S. Peisert, J. Margulies, E. Byres, P. Dorey, D. Peterson & Z. Tudor, "Control Systems Security from the Front Lines", Security & Privacy, IEEE, 12, 55-58 (2014)
  • S. Peisert, J. Margulies, D. M. Nicol, H. Khurana & C. Sawall, "Designed-in Security for Cyber-Physical Systems", Security & Privacy, IEEE, 12, 9-12 (2014)
  • L. Ramakrishnan, S. Poon, V. Hendrix, D. Gunter, G. Pastorello & D. Agarwal, "Experiences with user-centered design for the tigres workflow API", Proceedings - 2014 IEEE 10th International Conference on eScience, eScience 2014, 1, 290-297 (2014)
  • L. Ramakrishnan, D. Ghoshal, V. Hendrix, E. Feller, P. Mantha & C. Morin, "Storage and Data Life Cycle Management in Cloud Environments with FRIEDA.", Cloud Computing for Data-Intensive Applications, 357-378 (2014)  PDF
  • O. Rubel, C. G. Geddes, M. Chen, E. Cormier-Michel & E. W. Bethel, "Feature-Based Analysis of Plasma-Based Particle Acceleration Data", IEEE Transactions on Visualization and Computer Graphics, 20, 196-210 (2014)
  • F. Rusu, P. Nugent & K. Wu, "Implementing the Palomar Transient Factory Real-Time Detection Pipeline in GLADE: Results and Observations", Databases in Networked Information Systems, 8381, 53-66 (2014)
  • J. H. Song, M. L. de Prado, H. D. Simon & K. Wu, "Exploring Irregular Time Series Through Non-uniform Fast Fourier Transform", Proceedings of the 7th Workshop on High Performance Computational Finance, 37-44 (2014)  PDF
  • J. H. Song, K. Wu & H. D. Simon, "Parameter Analysis of the VPIN (Volume synchronized Probability of Informed Trading) Metric", Quantitative Financial Risk Management: Theory and Practice, (2014)
  • G. H. Weber & H. Hauser, "Interactive Visual Exploration and Analysis", Scientific Visualization: Uncertainty, Multifield, Bio-Medical and Scalable Visualization, 161-174 (2014)
  • G. H. Weber, H. Johansen, D. T. Graves & T. J. Ligocki, "Simulating Urban Environments for Energy Analysis", Proceedings Visualization in Environmental Sciences (EnvirVis), (2014)
  • L. Wu, K. Wu, A. Sim, M. Churchill, J. Y. Choi, A. Stathopoulos, C. Chang & S. Klasky, "High-Performance Outlier Detection Algorithm for Finding Blob-Filaments in Plasma", 5th International Workshop on Big Data Analytics: Challenges, and Opportunities (BDAC'14), (2014)

2013

  • D. Agarwal, S. Pullman, J. Voytek, G. Z. Pastorello, D. Papale, S. Biraud, W.-y. S. Chan, S. S. Hubbard & M. S. Torn, "Enabling Mobile Data and Metadata Collection and Submission in Support of AmeriFlux and NGEE Data Collection and Access", Eos Trans. American Geophysical Union, (2013)
  • E. W. Bethel, P. Prabhat, S. Byna, O. Rübel, K. J. Wu & M. Wehner, "Why high performance visual data analytics is both relevant and difficult", IS&T/SPIE Electronic Imaging, 86540B-86540B-10 (2013)  PDF
  • J. Y. Choi, K. Wu, J. C. Wu, A. Sim, Q. G. Liu, M. Wolf, C. Chang & S. Klasky, "ICEE: Wide-area In Transit Data Processing Framework For Near Real-Time Scientific Applications", PDAC workshop, SC13, (2013)
  • E. Masanet, A. Shehabi, L. Ramakrishnan, J. Liang, X. Ma, B. Walker, V. Hendrix & P. Mantha, "The Energy Efficiency Potential of Cloud-Based Software: A U.S.Case Study", (2013)
  • M. Di Pierro, J. Hetrick, S. Cholia, J. Simone & C. DeTar, "The new “Gauge Connection” at NERSC", (2013)
  • M. Di Pierro, J. Hetrick, S. Cholia, J. Simone & C. Deta, "The new "Gauge Connection" at NERSC", Proceedings of Science, 29-July-2013, (2013)
  • B. Dong, S. Byna & K. Wu, "Expediting scientific data analysis with reorganization of data", Cluster Computing (CLUSTER), 2013 IEEE International Conference on, 1-8 (2013)
  • B. Dong, S. Byna & K. Wu, "SDS: a framework for scientific data services", Proceedings of the 8th Parallel Data Storage Workshop, (2013)
  • B. Faybishenko, D. Agarwal, D. Baldocchi, C. van Ingen, S. Biraud, G. Pastorello & D. Papale, "Intercomparison of the AmeriFlux In Situ Measurements Across Multiple Biomes as an Alternative to Climatic Classification", American Geophysical Union, Fall Meeting 2013, (2013)
  • E. Feller, L. Ramakrishnan & C. Morin, "On the Performance and Energy Efficiency of Hadoop Deployment Models", The IEEE International Conference on Big Data 2013 (IEEE BigData 2013), (2013)
  • J. Gamon, F. Huemmrich, C. Emmerton, E. Humphreys, P. Lafleur, G. Pastorello, A. Rocha, G. Shaver, V. St.Louis, M. Tenuta, D. Thayer & S. Williamson, "Observing dynamic Arctic surface optical properties with an optical sensor network", American Geophysical Union, Fall Meeting 2013, (2013)
  • W. Gu, J. Choi, M. Gu, H. D. Simon & K. Wu, "Fast Change Point Detection for electricity market analysis", 2013 IEEE International Conference on Big Data, 50-57 (2013)
  • D. Gunter, L. Ramakrishnan, S. Poon, G. Pastorello, V. Hendrix & D. Agarwal, "Experiences with User-Centered Design for the Tigres Workflow API (poster)", Proceedings of the 9th IEEE International Conference on e-Science, (2013)
  • A. Jain, S. Ong, G. Hautier, W. Chen, W. Richards, S. Dacek, S. Cholia, D. Gunter, D. Skinner, G. Ceder & K. Persson, "Commentary: The materials project: A materials genome approach to accelerating materials innovation", APL Materials, 1, 011002 (2013)
  • K.-W. Lin, S. Byna, J. Chou & K. Wu, "Optimizing FastQuery performance on Lustre file system", Proceedings of the 25th International Conference on Scientific and Statistical Database Management, 29 (2013)
  • Y.-W. Cheah, R. Canon, B. Plale & L. Ramakrishnan, "Milieu: Provenance Collection and Query Framework for High Performance Computing Systems", IEEE Big Data Congress [Acceptance rate:30\%], (2013)
  • E. Dede, M. Govindaraju, D. Gunter, R. Canon & L. Ramakrishnan, "Semi-Structured Data Analysis using MongoDB and MapReduce: A Performance Evaluation", Proceedings of the 4th international workshop on Scientific cloud computing, (2013)
  • S. Ong, W. Richards, A. Jain, G. Hautier, M. Kocher, S. Cholia, D. Gunter, V. Chevrier, K. Persson & G. Ceder, "Python Materials Genomics (pymatgen): A robust, open-source python library for materials analysis", Computational Materials Science, 68, 314-319 (2013)
  • G. Pastorello, J. Gamon & D. Agarwal, "Comparison of Broadband Optical Sensor Responses for Proxy NDVI Measurements", American Geophysical Union, Fall Meeting 2013, (2013)
  • S. Peisert & M. Bishop, "Dynamic, Flexible, and Optimistic Access Control", (2013)
  • S. Peisert, E. Talbot & T. Kroeger, "Principles of Authentication", Proceedings of the 2013 New Security Paradigms Workshop (NSPW) (to appear), (2013)
  • L. Ramakrishnan, A. Scovel, I. Sakrejda, S. Coghlan, S. Canon, A. Liu, D. Ghoshal, K. Muriki & N. J. Wright, "On the Road to Exascale Computing: Contemporary Architectures in High Performance Computing ", (2013)
  • O. Rübel, A. Greiner, S. Cholia, K. Louie, E. Bethel, T. Northen & B. Bowen, "OpenMSI: A high-performance web-based platform for mass spectrometry imaging", Analytical Chemistry, 85, 10354-10361 (2013)
  • A. Romosan, A. Shoshani, K. Wu, V. Markowitz & K. Mavrommatis, "Accelerating gene context analysis using bitmaps", Proceedings of the 25th International Conference on Scientific and Statistical Database Management, 26 (2013)
  • S. Whalen, S. Peisert & M. Bishop, "Multiclass Classification of Distributed Memory Parallel Computations", Pattern Recognition Letters (PRL), 34, 322-329 (2013)
  • K. Wu, W. Bethel, M. Gu, D. Leinweber & O. Rübel, "A Big Data Approach to Analyzing Market Volatility", Algorithmic Finance, 2, 241-267 (2013)
  • K. Wu, W. Bethel, M. Gu, D. Leinweber & O. Rübel, "Testing VPIN on Big Data", (2013)

2012

  • D. Agarwal, A. Wiedmer, B. Faybishenko, T. Whiteside, J. Hunt, G. Kushner, A. Romosan & S. Arie, "A Methodology for Management of Heterogeneous Site Characterization and Modeling Data", Proceedings XIX International Conference on Water Resources (CMWR), (2012)
  • E. Bethel, S. Byna, J. Chou, E. Cormier-Michel, C. Geddes, M. Howison, F. Li, J. Q. Prabhat, O. Rübel, R. Ryne & others, "Big Data Analaysis and Visualization: What Do LINACS and Tropical Storms Have In Common?", 11th International Computational Accelerator Physics Conference, ICAP 2012, (2012)
  • E. W. Bethel, D. Leinweber, O. Rübel & K. Wu, "Federal Market Information Technology in the Post-Flash Crash Era: Roles for Supercomputing", The Journal of Trading, 7, 9-25 (2012)
  • E. W. Bethel, S. Byna, J. Chou, E. Cormier-Michel, C. G. R. Geddes, M. Howison, F. Li, Prabhat, J. Qiang, O. Rübel, R. D. Ryne, M. Wehner & K. Wu, "Big Data Analysis and Visualization: What Do LINACS and Tropical Storms Have In Common?", 11th International Computational Accelerator Physics Conference, ICAP 2012, Germany, (2012)
  • S. Byna, J. Chou, O. Rübel, Prabhat, H. Karimabadi, W. S. Daughton, V. Roytershteyn, E. W. Bethel, M. Howison, K.-J. Hsu, K.-W. Lin, A. Shoshani, A. Uselton & K. Wu, "Parallel I/O, Analysis, and Visualization of a Trillion Particle Simulation", Proceedings of SuperComputing 2012, (2012)  PDF
  • L. Coles-Kemp, C. Gates, D. Gollmann, S. Peisert, C. W. Probst, L. Coles-Kemp, C. Gates, D. Gollmann, S. Peisert & C. Probst, "Organizational Processes for Supporting Sustainable Security (Dagstuhl Seminar 12501).", Dagstuhl Reports, 2, 37-48 (2012)
  • A. El-Atawy & T. Samak, "End-to-end verification of QoS policies", 2012 IEEE Network Operations and Management Symposium, Maui, HI, USA, April 16-20, 2012, 426-434 (2012)
  • D. Ghoshal & L. Ramakrishnan, "FRIEDA: Flexible Robust Intelligent Elastic Data Management in Cloud Environments", The Third International Workshop on Data Intensive Computing in the Clouds (DataCloud 2012) Best Paper Award, (2012)
  • D. Gunter, S. Cholia, A. Jain, M. Kocher, K. Persson, L. Ramakrishnan, S. Ong & G. Ceder, "Community accessible datastore of high-throughput calculations: Experiences from the materials project", Proceedings - 2012 SC Companion: High Performance Computing, Networking Storage and Analysis, SCC 2012, 1244-1251 (2012)
  • F. Harald Barreiro Megino, D. Benjamin, K. De, I. Gable, V. Hendrix, S. Panitkin, M. Paterson, A. De Silva, D. Van Der Ster, R. Taylor, R. Vitillo & R. Walker, "Exploiting virtualization and cloud computing in ATLAS", Journal of Physics: Conference Series, Journal of Physics: Conference Series, 396, (2012)  PDF
  • V. Hendrix, D. Benjamin & Y. Yao, "Scientific cluster deployment and recovery - Using puppet to simplify cluster management", Journal of Physics: Conference Series, 396, (2012)  PDF
  • A. Jain, G. Hautier, S. Ong, C. Moore, B. Kang, H. Chen, X. Ma, J. Kim, M. Kocher, D. Gunter, S. Cholia, A. Greiner, D. Bailey, D. Skinner, K. Persson & G. Ceder, "Materials Project: A public materials database and its application to lithium ion battery cathode design", ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 243, (2012)  PDF
  • E. Kissel, A. El-Hassany, G. Fernandes, M. Swany, D. Gunter, T. Samak & J. Schopf, "Scalable Integrated Performance Analysis of Multi-Gigabit Networks", 5th Workshop on Distributed Autonomous Network Management System (DANMS), co-located with NOMS 2012, (2012)
  • G. F. Lofstead, Q. Liu, J. Logan, Y. Tian, H. Abbasi, N. Podhorszki, J. Y. Choi, S. Klasky, R. Tchoua, R. A. Oldfield & others, "Hello ADIOS: The Challenges and Lessons of Developing Leadership Class I/O Frameworks", (2012)
  • B. Ma, A. Shoshani, A. Sim, K. Wu, Y.-I. Byun, J. Hahm & M.-S. Shin, "Efficient Attribute-Based Data Access in Astronomy Analysis", The 2nd International Workshop on Network-Aware Data Management Workshop (NDM2012), 562-571 (2012)
  • E. Dede, Z. Fadika, J. Hartog, M. Govindaraju, L. Ramakrishnan, D. Gunter & R. S. Canon, "MARISSA: MApReduce Implementation for Streaming Science Applications", eScience, (2012)
  • D. Papale, D. Agarwal, D. Baldocchi, R. Cook, J. B. Fisher & C. van_Ingen, "Database Maintenance, Data Sharing Policy, Collaboration", Eddy Covariance, 399-424 (2012)
  • X. Li, Z. Wang, V. Muthukumar, A. Scaglione, C. McParland & S. Peisert, "Networked Loads in the Distribution Grid", Proceedings of the 2012 APSIPA Annual Summit and Conference, (2012)
  • S. Peisert, E. Talbot & M. Bishop, "Turtles All The Way Down: A Clean-Slate, Ground-Up, First-Principles Approach to Secure Systems", Proceedings of the 2012 New Security Paradigms Workshop (NSPW), 15-26 (2012)
  • E. Pourabbas, A. Shoshani & K. Wu, "Minimizing index size by reordering rows and columns", SSDBM, 467-484 (2012)
  • Prabhat, O. Rübel, S. Byna, K. Wu, F. Li, M. Wehner & E. W. Bethel, "TECA: A Parallel Toolkit for Extreme Climate Analysis", Third Workshop on Data Mining in Earth System Science (DMESS 2012) at the International Conference on Computational Science (ICCS 2012), Omaha, Nebraska, (2012)
  • L. Ramakrishnan, R. S. Canon, K. Muriki, I. Sakrejda & N. J. Wright, "Evaluating Interconnect and Virtualization Performance for High Performance Computing", Special Issue of ACM Performance Evaluation Review, 40(2), (2012)
  • T. Samak, D. Gunter, M. Goode, E. Deelman, G. Juve, F. Silva & K. Vahi, "Failure Analysis of Distributed Scientific Workflows Executing in the Cloud", 8th International Conference on Network and Service Management, CNSM 2012, Las Vegas, USA, October 22-26, 2012, (2012)
  • T. Samak, D. Gunter & Z. Wang, "Prediction of Protein Solubility in E. Coli", eScience, (2012)
  • T. Samak, D. Gunter & V. Hendrix, "Scalable analysis of network measurements with Hadoop and Pig", Proceedings of the 2012 IEEE Network Operations and Management Symposium, NOMS 2012, 1254-1259 (2012)
  • A. R. Sanderson, B. Whitlock, O. Rübel, H. Childs, G. H. Weber, Prabhat & K. Wu, "A System for Query Based Analysis and Visualization", Third International Eurovis Workshop on Visual Analytics EuroVA 2012, (2012)
  • K. Schuchardt, D. Agarwal, S. Finsterle, C. Gable, I. Gorto, L. Gosink & etal., "Akuna - Integrated Toolsets Supporting Advanced Subsurface Flow and Transport Simulations for Environmental Management", to appear in XIX International Conference on Water Resources (CMWR), (2012)
  • K. Vahi, I. Harvey, T. Samak, D. Gunter, K. Evans, D. Rogers, I. Taylor, M. Goode, F. Silva, E. Al-Shakarchi, G. Mehta, A. Jones & E. Deelman, "A General Approach to Real-time Workflow Monitoring", The Seventh Workshop on Workflows in Support of Large-Scale Science (WORKS12), in conjunction with SC 2012, Salt Lake City, November 10-16 2012, (2012)
  • S. Whalen, S. Engle, S. Peisert & M. Bishop, "Network-Theoretic Classification of Parallel Computation Patterns", International Journal of High Performance Computing Applications (IJHPCA), 26, 159-169 (2012)
  • I. Yamazaki & K. Wu, "A Communication-Avoiding Thick-Restart Lanczos Method on a Distributed-Memory System", Euro-Par 2011: Parallel Processing Workshops, 7155, 345-354 (2012)
  • Z. Fadika, M. Govindaraju, S. Canon & L. Ramakrishnan, "Evaluating Hadoop for Data-Intensive Scientific Operations", IEEE Cloud Computing, (2012 )

2011

  • D. Agarwal, Y.-W. Cheah, D. Fay, J. Fay, D. Guo, T. Hey, M. Humphrey, K. Jackson, J. Li, C. Poulain, Y. Ryu & C. van_Ingen, "Data-intensive science: The Terapixel and MODISAzure projects", International Journal of High Performance Computing Applications, 25, 304-316 (2011)  PDF
  • E. W. Bethel, D. Leinweber, O. Rübel & K. Wu, "Federal Market Information Technology in the Post Flash Crash Era: Roles for Supercomputing", WHPCF, 23-30 (2011)
  • S. Byna, Prabhat, M. F. Wehner & K. Wu, "Detecting Atmospheric Rivers in Large Climate Datasets", PDAC-11, (2011)
  • D. C. Miller, M. Syamlal, J. C. Meza, D. L. Brown, M. M. Fox, M. Khaleel, R. K. Cottrell, J. D. Kress, X. Sun, S. Sundaresan, N. Sahinidis, S. E. Zitney, D. A. Agarwal, C. Tong, G. Lin, B. C. Letellier, D. Engel, P. Calafiura, G. A. Richards & J. H. Shinn, "The US Department of Energys Carbon Capture Simulation Initiative", 10th Annual Conference on Carbon Capture & Sequestration, (2011)
  • D. C. Miller, M. Syamlal, J. C. Meza, D. L. Brown, M. M. Fox, M. Khaleel, R. K. Cottrell, J. D. Kress, X. Sun, S. Sundaresan, N. Sahinidis, S. E. Zitney, D. A. Agarwal, C. Tong, G. Lin, B. C. Letellier, D. Engel, P. Calafiura, G. A. Richards & J. H. Shinn, "Overview of the US DOEs Carbon Capture Simulation Initiative for Accelerating the Commercialization of CCS Technology", 36th International Technical Conference on Clean Coal & Fuel Systems, (2011)
  • J. Chou, K. Wu & Prabhat, "FastQuery: A General Indexing and Querying System for Scientific Data", SSDBM, 573-574 (2011)
  • J. Chou, K. Wu & Prabhat, "FastQuery: A Parallel Indexing System for Scientific Data", IASDS, (2011)
  • J. Chou, K. Wu, O. Rübel, M. Howison, J. Qiang, Prabhat, B. Austin, E. W. Bethel, R. D. Ryne & A. Shoshani, "Parallel Index and Query for Large Scale Data Analysis", SC11, (2011)
  • M. Di Pierro, J. Hetrick, S. Cholia & D. Skinner, "Making QCD Lattice Data Accessible and Organized through Advanced Web Interfaces", arXiv preprint arXiv:1112.2193, (2011)
  • D. Gunter, E. Deelman, T. Samak, C. X. Brooks, M. Goode, G. Juve, G. Mehta, P. Moraes, F. Silva, D. M. Swany & K. Vahi, "Online workflow management and performance analysis with Stampede", 7th International Conference on Network and Service Management, CNSM 2011, Paris, France, October 24-28, 2011, 1-10 (2011)
  • E. Dede, L. Ramakrishnan, D. Gunter & M. Govindaraju, "Riding the Elephant: Managing Ensembles with Hadoop", The 4th Workshop on Many-Task Computing on Grids and Supercomputers (MTAGS), (2011)
  • D. Gunter, T. Samak, E. Deelman, C. H. Brooks, M. Goode, G. Juve, G. Mehta, P. Moraes, F. Silva, M. Swany & K. Vahi, "Online Workflow Management and Performance Analysis with STAMPEDE", 7th International Conference on Network and Service Management (CNSM 2011), (2011)
  • T. Samak, D. Gunter, M. Goode, E. Deelman, G. Juve & F. Silva, "Using Machine Learning Techniques for Online Failure Prediction in Large Scientific Workflows", (2011)
  • D. Ghoshal, R. S. Canon & L. Ramakrishnan, "I/O Performance of Virtualized Cloud Environments", The Second International Workshop on Data Intensive Computing in the Clouds (DataCloud-SC11), (2011)
  • J. Kim, H. Abbasi, L. Chacón, C. Docan, S. Klasky, Q. Liu, N. Podhorszki, A. Shoshani & K. Wu, "Parallel In Situ Indexing for Data-intensive Computing", LDAV, 65-72 (2011)
  • E. Kissel, D. Gunter, T. Samak, A. El-Hassany, G. Fernandes & M. Swany, "An Instrumentation and Measurement Framework for End-to-End Performance Analysis", (2011)
  • K. Madduri & K. Wu, "Massive-Scale RDF Processing Using Compressed Bitmap Indexes", SSDBM, 470-479 (2011)
  • D. C. Miller, D. A. Agarwal, X. Sun & C. Tong, "iCCSI and the role of advanced computing in accelerating the commercial deployment of carbon capture systems", Proceedings of the SciDAC 2011 Conference, (2011)
  • Z. Fadika, E. Dede, M. Govindaraju & L. Ramakrishnan, "Benchmarking MapReduce Implementations for Application Usage Scenarios", Grid 2011: 12th IEEE/ACM International Conference on Grid Computing, 0, 1-8 (2011)
  • M. Pala, S. Cholia, S. A. Rea & S. W. Smith, "Federated PKI authentication in computing grids: Past, present, and future", Cloud, Grid and High Performance Computing: Emerging Applications, 165-179 (2011)
  • M. Pierro, J. Hetrick, S. Cholia & D. Skinner, "Making QCD lattice data accessible and organized through advanced web interfaces", Proceedings of Science, 139, (2011)
  • Prabhat, Q. Koziol, K. Schuchardt, E. W. Bethel, J. Chuo, M. Howison, M. McGreevy, B. Palmer, O. Ruebel & K. Wu, "ExaHDF5: An I/O Platform for Exascale Data Models, Analysis and Performance", SciDAC 2011, (2011)
  • Prabhat, S. Byna, C. Paciorek, G. Weber, K. Wu, T. Yopes, M. F. Wehner, G. Ostrouchov, D. Pugmire, R. Strelitz, W. Collins & E. W. Bethel, "Pattern Detection and Extreme Value Analysis on Large Climate Data", (2011)
  • Prabhat, S. Byna, C. Paciorek, G. Weber, K. Wu, T. Yopes, M. Wehner, W. Collins, G. Ostrouchov, R. Strelitz & E. W. Bethel, "Pattern Detection and Extreme Value Analysis on Large Climate Data", (2011)
  • L. Ramakrishnan, J. Chase, D. Gannon, D. Nurmi & R. Wolski, "Deadline-Sensitive Workflow Orchestration Without Explicit Rescource Control", J. Parallel Distributed Computing, 71, 343-353 (2011)  PDF
  • L. Ramakrishnan, P. T. Zbiegel, S. Campbell, R. Bradshaw, R. Canon, S. Coghlan, I. Sakrejda, N. Desai, T. Declerck & A. Liu, "Magellan: Experiences from a science cloud", proceedings of the 2nd international workshop on Scientific cloud computing,ScienceCloud'11, 49-58 (2011)
  • R. Ryne, B. Austin, J. Byrd, J. Corlett, E. Esarey, C. G. R. Geddes, W. Leemans, X. Li, Prabhat, J. Qiang, O. Rübel, J.-L. Vay, M. Venturini, K. Wu, B. Carlsten, D. Higdon & N. Yampolsky, "High Performance Computing in Accelerator Science: Past Successes, Future Challenges", (2011)
  • T. Samak, D. Gunter, E. Deelman, G. Juve, G. Mehta, F. Silva & K. Vahi, "Online Fault and Anomaly Detection for Large-Scale Scientific Workflows", 13th IEEE International Conference on High Performance Computing and Communications (HPCC-2011), (2011)
  • T. Samak, D. Gunter, M. Goode, E. Deelman, G. Mehta, F. Silva & K. Vahi, "Failure Prediction and Localization in Large Scientific Workflows", The Sixth Workshop on Workflows in Support of Large-Scale Science (WORKS11), (2011)
  • K. R. Jackson, K. Muriki, L. Ramakrishnan, K. J. Runge & R. C. Thomas, "Performance and cost analysis of the Supernova factory on the Amazon AWS cloud", Sci. Program., 19, 107-119 (2011)  PDF
  • S. Whalen, S. Peisert & M. Bishop, "Network-Theoretic Classification of Parallel Computation Patterns", Proceedings of the First International Workshop on Characterizing Applications for Heterogeneous Exascale Systems (CACHES), (2011)
  • K. Wu, R. R. Sinha, C. Jones, S. Ethier, S. Klasky, K.-L. Ma, A. Shoshani & M. Winslett, "Finding regions of interest on toroidal meshes", Computational Science & Discovery, 4, 015003 (2011)
  • K. Wu, S. Byna, D. Rotem & A. Shoshani, "Scientific Data Services -- A High-Performance I/O System with Array Semantics", HPCDB, (2011)
  • W. Yu, K. Wu, W.-S. Ku, C. Xu & J. Gao, "BMF: Bitmapped Mass Fingerprinting for Fast Protein Identification", CLUSTER, (2011)

2010

  • D. Agarwal, M. Humphrey, N. Beekwilder, K. Jackson, M. Goode & C. van Ingen, "A Data Centered Collaboration Portal to Support Global Carbon-Flux Analysis", Concurrency and Computation: Practice and Experience - Successes in Furthering Scientific Discovery, (2010)
  • M. Altunay, D. Olson & M. Helm, "OSG-ESnet Joint Identity Management Workshop report", OSG Doc 931, (2010)
  • S. J. Bailey, G. Aldering, P. Antilogus, C. Aragon, C. Baltay, S. Bongard, C. Buton, M. Chidress, N. Chotard, Y. Copin, H. Fakhouri, E. Gangler, S. Loken, P. Nugent, R. Pain, E. Pecontal, R. Pereira, S. Perlmutter, D. Rabinowitz, G. Rigaudier, K. Runge, R. Scalzo, G. S. C. Tao, R. C. Thomas & C. Wu, "Using Spectra to Make Cosmology's Best Standard Candles Even Better", Bulletin of the American Astronomical Society, 42, 313 (2010)
  • S. Binet, P. Calafiura, S. Snyder, W. Wiedenmann & F. Winklmeier, "Harnessing Multicores:Strategies and Implementations in Atlas", J. Phys. Conf, (2010)
  • M. Bishop, J. Cummins, S. Peisert, A. Singh, B. Bhumiratana, D. Agarwal, D. Frincke & M. Hogarth, "Relationships and data sanitization: a study in scarlet", Proceedings of the 2010 workshop on New security paradigms, 151-164 (2010)
  • Y. Simmhan, E. Soroush, C. van Ingen, D. Agarwal & L. Ramakrishnan, "Brew: Blackbox Resource Selection for e-science Workflows", Fifth Workshop on Workflows in Support of Large-SCale Science(WORKS10), 1-10 (2010)
  • E. Carvalho, D. Ushizima, F. Medeiros, C. Martins, R. Marques & I. Oliveira, "SAR\ imagery segmentation by statistical region growing and hierarchical merging ", Digital Signal Processing , 20, 1365 - 1378 (2010)  PDF
  • S. Cholia, "Integrating Grid Services into the Cray XT4 Environment", Lawrence Berkeley National Laboratory, (2010)
  • S. Cholia, D. Skinner & J. Boverhof, "NEWT: A RESTful service for building High: Performance Computing web applications", 2010 Gateway Computing Environments Workshop, GCE 2010, 1-11 (2010)
  • S. Callaghan, E. Deelman, D. Gunter, G. Juve, P. Maechling, C. Brooks, K. Vahi, K. Milner, R. Graves, E. Field, D. Okaya & T. Jordan, "Scaling up Workflow-based Applications", Journal of Computer and System Sciences, 76, 428-446 (2010)
  • L. Hajdu, L. Dideno, J. Lauret & D. Olson, "Comparison of Cloud Approaches: Overview and Perspectives from STAR", International Symposium on Grid Computing, (2010)
  • D. Hasenkamp, A. sim, M. Wehner & K. Wu, "Finding Tropical Cyclones on a Cloud Computing Cluster: Using Parallel Virtualization for Large-Scale Climate Simulation Analysis", CloudCom, 201-208 (2010)
  • K. Jackson, L. Ramakrishnan, R. Thomas & K. Runge, "Seeking Supernovae in the Clouds: A performance Study", High Perfomrance Distributed Computing, (2010)
  • K. Jackson, L. Ramakrishnan, K. Muriki, S. Canon, S. Cholia, J. Shalf, H. Wasserman & N. Wright, "Performance analysis of high performance computing applications on the Amazon Web Services cloud", Proceedings - 2nd IEEE International Conference on Cloud Computing Technology and Science, CloudCom 2010, 159-168 (2010)
  • R. Kettimuthu, A. Sim, D. Gunter, B. Allcock, P. T. Bremer, J. Bresnahan, A. Cherry, L. Childers, E. Dart, I. Foster, K. Harms, J. Hick, J. Lee, M. Link, J. Long, K. Miller, V. Natarajan, V. Pascucci, K. Raffenetti, D. Ressman, D. Williams, L. Wilson & L. Winkler, "Lessons learned from moving earth system grid data sets over a 20 Gbps wide-area network", Proceedings of the 19th ACM International Symposium on High Performance Distributed Computing, 316-319 (2010)  PDF
  • O. Komogortsev, S. Jayarathna, C. Aragon & M. Mahmoud, "Biometric Identification via an Oculomotor Plant Mathematical Model", Eye Tracking Research and Applications, ETRA, (2010)
  • J. Li, D. Agarwal, M. Humphrey, C. van Ingen, K. Jackson & Y. Ryu, "eScience in the Cloud: A MODIS Satellite Data Reprojection and Reduction Pipeline in the Windows Azure Platform", 24th IEEE International Parallel and Distributed Precessing Symposium, IPDPS, (2010)
  • J. Li, M. Humphrey, Y. Cheah, Y. Ryu, D. Agarwal, K. Jackson & C. van Ingen, "Fault Tolerance and Scaling in e-Science Cloud Applications: Observations from the Continuing Development of MODISAzure", 2010 IEEE Sixth International Conference on eScience, 246-253 (2010)
  • A. Meier, C. Aragon, B. Hurwitz, D. Mujumdar, T. Peffer, D. Perry & M. Pritoni, "How People Actually use Thermostats", The American Council for an Energy-Efficient Economy inproceedings, ACEEE 2010, (2010)
  • P. G. Neumann, M. Bishop, S. Peisert & M. Schaefer, "Reflections on the 30th Anniversary of the IEEE Symposium on Security and Privacy", Proceedings of the 31st IEEE Symposium on Security & Privacy, 3-13 (2010)
  • E. Otoo & K. Wu, "Accelerating Queries on Very Large Datasets", Scientific Data Management: Challenges, Existing Technology, and Deployment, 183-234 (2010)
  • M. Pala, "Interoperable PKI Data Distribution in Computational Grids", Lawrence Berkeley National Laboratory, (2010)
  • B. I. Simidchieva, S. J. Engle, M. Clifford, A. C. Jones, S. Peisert, M. Bishop, L. A. Clarke & L. J. Osterweil, "Modeling Faults to Improve Election Process Robustness", Proceedings of the 2010 Electronic Voting Technology Workshop/Workshop on Trustworthy Computing (EVT/WOTE '10), (2010)
  • S. Peisert, "Fingerprinting Communication and Computation on HPC Machines", (2010)
  • S. Peisert, M. Bishop & K. Marzullo, "What Do Firewalls Protect? An Empirical Study of Vulnerabilities and Attacks", (2010)
  • M. Bishop, S. Engle, D. A. Frincke, C. Gates, F. L. Greitzer, S. Peisert & S. Whalen, "A Risk Management Approach to the ``Insider Threat''", Insider Threats in Cybersecurity, (2010)
  • L. Ramakrishnan, D. Gannon & B. Plale, "WORKEM: Representing and Emulating Disturbed Scientific Workflow Execution State", 10th IEEE/ACM International Symposium on Cluster, Cloud and Grip Computing, CCGid, (2010)
  • L. Ramakrishnan & B. Plale, "A multidimensional classification model for scientific workflow characteristics", 1st Int'l Workshop on Workflow Approaches for New Data-Centric Science, (2010)
  • L. Ramakrishnan, C. Guok, K. Jackson, E. Kissel, D. M. Swany & D. Agarwal, "On-demand Overlay Networks for Large Scientific Data Transfer", 10th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing, CCGrid, (2010)
  • L. Ramakrishnan, K. Jackson, S. Canon, S. Cholia & J. Shalf, "Defining future platform requirements for e-Science clouds", Proceedings of the 1st ACM Symposium on Cloud Computing, SoCC '10, 101-106 (2010)
  • R. Roberts, T.Trucano, P. Pope, C. Aragon, M. Jiang, T. Wei, L. Chilton & A. Bakel, "On the Verification and Validation of Geospatial Image Analysis Algorithms", IEEE International Geoscience and Remote Sensing Sympsium, IGARSS, (2010)
  • O. Rübel, S. Ahern, E. W. Bethel, M. D. Biggin, H. Childs, E. Cormier-Michel, A. DePace, M. B. Eisen, C. C. Fowlkes, C. G. R. Geddes, H. Hagen, B. Hamann, M.-Y. Huang, S. V. E. Keränen, D. W. Knowles, C. L. L. Hendriks, J. Malik, J. Meredith, P. Messmer, Prabhat, D. Ushizima, G. H. Weber & K. Wu, "Coupling visualization and data analysis for knowledge discovery from multi-dimensional scientific data", Procedia Computer Science, 1, 1751-1758 (2010)
  • R. Scalzo, C. Akerlof, G. Aldering, P. Antilogus, C. Aragon, S. Bailey, C. Baltay, A. Bauer, D. Birchall, S. Bongard, C. Buton, M. Childress, Y. Copin, A. Gal-Yam, E. Gangler, J. Holtzman, S. Hoyer, M. Kasliwal, S. Loken, J. Miller, P. Nugent, R. Pain, E. Pecontal, R. Pereira, S. Perlmutter, C. Peters, G. Smadja, C. Tao, R. Thomas, J. Thorstensen, B. Weaver, C. Wu & F. Yuan, "Nearby Supernova Factory Observations of SN 2007if: Evidence for Shell Structure in the Explosion of a Super-Chandrasekhar-Mass White Dwarf,", American Astronomical Society,, 42, 450 (2010)
  • R. Scalzo, G. Aldering, P. Antilogus, C. Aragon, C. Baltay, S. Bailey, S. Bongard, C. Buton, M. Childress, N. Chotard, Y. Copin, E. Gangler, S. Loken, P. Nugent, R. Pain, E. Pecontal, R. Pereira, S. Perlmutter, D. Rabinowitz, G. Rigaudier, K. Runge, G. Smadja, H. Swift, C. Tao, R. Rabinowitz, G. Rigaudier, K. Runge, G. Smadja, H. Swift, C. Tao, R. Thomas & C. Wu, "Nearby Supernova Factory Observations of SN 2007if: First Total Mass Measurement of a Super -Chandrasekhar-Mass Progenitor", Astrophysical Journal, 713, 1073-1094 (2010)
  • A. Sim, D. Gunter, V. Natarajan, A. Shoshani, D. Williams, J. Long, J. Hick, J. Lee & E. Dart, "Efficient bulk data:replication for the earthy systems grid", International Symposium on Grid Computing.National Science Council, (2010)
  • A. Sim, D. Gunter, V. Natarajan, A. Shoshani, D. Williams, J. Long, J. Hick, J. Lee & E. Dart, "Efficient Bulk Data Replication for the Earth System Grid", Data Driven E-science: Use Cases and Successful Applications of Distributed Computing Infrastructures (Isgc 2010), 435 (2010)
  • Y. Simmhan & L. Ranakrishnan, "Comparison of resource platform selection approaches for scientific workflows", 1st Workshop on Scientific Cloud Computing, Colocated with ACM and High Performance Distributed Computing, (2010)
  • G. H. Weber, S. Ahern, E. W. Bethel, S. Borovikov, H. R. C. E. Deines, C. Garth, H. Hagen, B. Hamann, K. I. Joy, D. Martin, J. Meredith, Prabhat, D. Pugmire, O. Rübel, B. V. Strallen & K. Wu, "Recent Advances in VisIt: AMR Streamlines and Query-Driven Visualization", Numerical Modeling of Space Plasma Flows: Astronum-2009, ASP Conference Series, 429, 329-334 (2010)
  • K. Wu, K. Madduri & S. Cannon, "Multi-level bitmap indexes for flash memory storage", IDEAS, (2010)
  • I. Yamazaki, Z. Bai, H. D. Simon, L.-W. Wang & K. Wu, "Adaptive Projection Subspace Dimension for the Thick-Restart Lanczos Method", ACM Transactions on Mathematical Software, 37, (2010)
  • Y. Yao, P. Calafirua, J. Poffet, A. Cavalli, C. Leggett & B. Frederic, "Virtual Machine Logbook:EnablingVirtualization for Atlas", J. Phys. Conference Series, (2010)

2009

  • L. Ramakrishnan & D. A. Reed, "“Predictable quality of service atop degradable distributed systems, ", Cluster Computing , (2009)
  • S. Bailey, G. Aldering, P. Antilogus, C. Aragon, C. Baltay, S. Bongard, C. Buton, M. Childress, N. Chotard, E. G. Copin, S. Loken, P. Nugent, R. Pain, E. Pecontal, R. Pereira, S. Perlmutter, D. Rabinowitz, G. Rigaudier, K. Runge, R. Scalzo, G. Smadja, H. Swift, C., Tao, R. C. Thomas & C. Wu, "Using Spectral Flux Ratios to Standardize SN Ia Luminosities,", Astronomy & Astrophysics Letters, (2009)
  • L. Ramakrishnan, D. Nurmi, A. Mandal, C. Koelbel, D. Gannon, T. M. Huang, Y.-S. Kee, G. Oberteli, K. Thyagaraja, R. Wolski, A. Yarkhan & D. Zagorodnov, "Automated Analysis for Detecting Beams in Laser Wakefield Simulations,", ACM/IEEE SC inproceedings, (2009)
  • S. Callaghan, E. Deelman & others (in submission), "Scaling up Workflow-based Applications", Journal of Computer and System Sciences, (2009)
  • F. Gey, "Dynamic Change in Classification Systems: A Preliminary Model for Instance-based Matching, ", (2009)
  • K. Chard, J. Boverhof, W. Tan, R. Madduri & I. Foster, "Wrap Scientific Applications as WSRF Grid Services using gRAVI,", The International Conference on Web Services, (2009)
  • C. R. Aragon, "Collaborative analytics for astrophysics explorations, ", Springer Handbook of Automation, (2009)
  • K. Keck, B. Bargmeyer & others, "Committee Draft 1 of ISO/IEC 11179 Information Technology -- Metadata registries (MDR) Part 3 Edition 3", (2009)
  • S. S. Poon, R. C. Thomas, C. R. Aragon & B. Lee, "Context-Linked Intelligent User Interfaces, ", Workshop on Human Interaction with Intelligent and Networked Systems at the IUI International Conference on Intelligent User Interfaces, (2009)
  • B. Bargmeyer, "Emerging Semantic Technology Standards - Making Life Easier in the Information World", Proceedings of the 12th Open Forum on Metadata Registries, (2009)
  • B. Bargmeyer & S. Chance, "Environmental Data: Edge Issues and the Path Forward", Environmental Data Exchange Network For Inland Water, (2009)
  • B. Bargmeyer, "Metadata Registries: Research, Standards Development and Practice", International Journal of Metadata, Special Edition of Semantics and Ontologies (IJMSO), , (2009)
  • M. Piette, G. Ghatikar, S. Kiliccote, E. Koch, D. Hennage, P. Palensky & C. McParland, "Open Automated Demand Response Communications Specification (Version 1.0)", Journal of Cluster Computing, (2009)
  • C.R.Aragon & K. J. Runge, "Workflow Management for High Volume Supernova Search,", ACM Symposium on Applied Computing SAC '09, (2009)
  • C. Aragon, S. Poon, A. Monroy-Hernandez & D. Aragon, "A Tale of Two Online Communities: Fostering Collaboration and Creativity in Scientists and Children", ACM Conference on Creativity and Cognition, (2009)
  • C. Aragon, S. Poon, G. Aldering, R. C. Thomas & R. Quimby, "Using Visual Analytics to Develop Situation Awareness in Astrophysics,", Journal of Information Visualization, (2009)
  • S. Bailey, G. Aldering, P. Antilogus, C. Aragon, C. Baltay, S. Bongard, C. Buton, M. Childress, N. Chotard, Y. Copin, E. Gangler, S. Loken, P. Nugent, R. Pain, E. Pecontal, R. Pereira, S. Perlmutter, D. Rabinowitz, G. Rigaudier, P. Ripoche, K. Runge, R. Scalzo, G. Smadja, C. Tao, R. Thomas & C. Wu, "Generalized Spectral Correlations of Type Ia Supernovae from the Nearby Supernova Factory", Bulletin of the American Astronomical Society, 41, (2009)
  • S. Bailey, G. Aldering, P. Antilogus, C. Aragon, C. Baltay, S. Bongard, C. Buton, M. Childress, N. Chotard, Y. Copin, E. Gangler, S. Loken, P. Nugent, R. Pain, E. Pecontal, R. Pereira, S. Perlmutter, D. Rabinowitz, G. Rigaudier, K. Runge, R. Scalzo, G. Smadja, H. Swift, C. Tao, R. C. Thomas & C. Wu, "Using Spectral Flux Ratios to Standardize SN Ia Luminosities", Astronomy & Astrophysics Letters, (2009)
  • B. Bargmeyer, "Metadata Registries: Research, Standards Development and Practice", International Journal of Metadata, Semantics and Ontologies,Special Edition of Semantics and Ontologits, 4, (2009)
  • B.Bargmeyer, "Metadata Registries and Cloud Computing-Standards Challenges", 13th Open Forum on Metadata Registries, (2009)
  • E. W. Bethel, C. Johnson, S. Ahern, J. Bell, P.-T. Bremer, H. Childs, E. Cormier-Michel, M. Day, E. Deines, T. Fogal, C. Garth, C. G. R. Geddes, H. Hagen, B. Hamann, C. Hansen, J. Jacobsen, K. Joy, J. Kruger, J. Meredith, P. Messmer, G. Ostrouchov, V. Pascucci, K. Potter, Prabhat, D. Pugmire, O. Rubel, A. Sanderson, C. Silva, D. Ushizima, G. Weber, B. Whitlock & K. Wu, "Occam's Razor and Petascale Visual Data Analysis", SciDAC 2009, (2009)  PDF
  • S. Canon, S. Cholia, J. Shalf, K. Jackson, L. Ramakrishnan & V. Markowitz, "A performance comparison of massively parallel sequence matching computations on cloud computing platforms and hpc clusters using hadoop", Using Clouds for Parallel Computations in Systems Biology Workshop, Held at SC09, (2009)
  • S. Cholia & R. Porter, "Publication and Protection of Sensitive Site Information in a Grid Infrastructure", International Journal of Grid and High Performance Computing, 1, 45-55 (2009)
  • Y. Copin, G. Aldering, P. Antilogus, C. Aragon, S. Bailey, C. Baltay, S. Bongard, C. Buton, M. Childress, E. Gangler, J. Jerke, S. Loken, P. Nugent, R. Pain, E. Pecontal, R. Pereira, S. Perlmutter, D. Rabinovitz, G. Rigaudier, P. Ripoche, K. Runge, R. Scalzo, G. Smadja, H. Swift, C. Tao, R. C. Thomas & C. Wu, "The Nearby Supernova Factory: First Results", EAS Publications Series, 36, 11-15 (2009)
  • L. J. Gosink, K. Wu, E. W. Bethel, J. D. Owens & K. I. Joy, "Data Parallel Bin-Based Indexing for Answering Queries on Multi-core Architectures", SSDBM, 5566, 110-129 (2009)
  • B. R. Supinski, S. Alam, D. H. Bailey, L. Carrington, C. Daley, A. Dubey, T. Gamblin, D. Gunter, P. D. Hovland, H. Jagode, K. Karavanic, G. Marin, J. Mellor-Crummey, S. Moore, B. Norris, L. Oliker, C. Olschanowsky, P. C. Roth, M. Schulz, S. Shende, A. Snavely, W. Spear, M. Tikir, J. Vetter, P. Worley & N. Wright, "Modeling the Office of Science ten year facilities plan: The PERI Architecture Tiger Team", Journal of Physics: Conference Series, 180, 012039+ (2009)  PDF
  • L. He, Y. Chao, K. Suzuki & K. Wu, "Fast Connected-Component Labeling", Pattern Recognition, 42, 1977-1987 (2009)
  • M. Humphrey, D. Agarwal & C. van Ingen, "Fluxdata.org: Publication and Curation of Shared Scientific Climate and Earth Sciences Data", 2009 Fifth IEEE International Conference on e-Science, 118-125 (2009)
  • O. Komogortsev, S. Jayarathna, C. Aragon & M. Mahmoud, "Biometric Identificaton Via an Oculomotor Plant Mathematical Model", (2009)
  • J. Li, Y.Ryu, K. Jackson, D. Agarwal, M. Humphrey & C. van Ingen, "A Cloud Computing Service for Remote Sensing Data Reprojection and Science Reduction", EOS Trans. Amercian Geophysical Union, (2009)
  • J. Li, Y. Ryu, K. Jackson, D. Agarwal, M. Humphrey & C. van Ingen, "Process-based estimates of terrestrial CO2 assimilation and evEovs", Trans. American Geophysical Union, (2009)
  • K. Madduri & K. Wu, "Efficient joins with compressed bitmap indexes", CIKM, 1017-1026 (2009)
  • C. McParland, "The Evolution of the Internet Community and the 'Yet-to-evolve'Smart Grid Community:Parallels and Lessons-to-be-learned", Grid-Interop Forum, (2009)
  • M. Nagappan, K. Wu & M. A. Vouk, "Efficiently Extracting Operational Profiles from Execution Logs Using Suffix Arrays", ISSRE, 41-50 (2009)
  • M. Pala, S. Cholia, S. Rea & S. Smith, "Interoperable PKI data distribution in computational grids", International Journal of Grid and High Performance Computing, 1, 56-73 (2009)
  • M. Bishop, S. Peisert, C. Hoke, M. Graff & D. Jefferson, "E-Voting and Forensics: Prying Open the Black Box", Proceedings of the 2009 Electronic Voting Technology Workshop/Workshop on Trustworthy Computing (EVT/WOTE), (2009)
  • S. Peisert, M. Bishop, L. Corriss & S. Greenwald, "Quis Custodiet ipsos Custodes? A New Paradigm for Analyzing Security Paradigms", Proceedings of the 2009 New Security Paradigms Workshop (NSPW), 133-144 (2009)
  • L.Ramkrishnan, D. Nurmi, A. Mandal, C. Koelbel, D. Gannon, T. Huang, Y. S. Kee, G. Oberteli, K. Thyagaraja, R. Wolski, A. Yarhan & D. Zagorodnov, "VGrADS: Enabling eScience Workflows on Grids and Clouds with Fault Tolerance", ACM/IEEE SC2009 Conference on High Performance Computing, Networking, Storage and Analysis, (2009)
  • O. Rübel, C. G. R. Geddes, E. Cormier-Michel, K. Wu, Prabhat, G. H. Weber, D. M. Ushizima, P. Messmer, H. Hagen, B. Hamann & W. Bethel, "Automatic beam path analysis of laser wakefield particle acceleration data", Computational Science & Discovery, 2, 015005 (2009)
  • R. R. Sinha, M. Winslett & K. Wu, "Finding Regions of Interest in Large Scientific Datasets", SSDBM, 5566, 130-147 (2009)
  • K. Wu, S. Ahern, E. W. Bethel, J. Chen, H. Childs, E. Cormier-Michel, C. Geddes, J. Gu, H. Hagen, B. Hamann, W. Koegler, J. Lauret, J. Meredith, P. Messmer, E. Otoo, V. Perevoztchikov, A. Poskanzer, Prabhat, O. Rübel, A. Shoshani, A. Sim, K. Stockinger, G. Weber & W.-M. Zhang, "FastBit: Interactively Searching Massive Data", SciDAC 2009, (2009)
  • K. Wu, E. Otoo & K. Suzuki, "Optimizing two-pass connected-component labeling algorithms", Pattern Analysis & Applications, 12, 117-135 (2009)

2008

  • D. Ushizima, O. Ruebel, Prabhat, G. Weber, E. W. Bethel, C. Aragon, C. Geddes, E. Cormier-Michel, B. Hamann, P. Messmer & H. Hagen, "Automated Analysis for Detecting Beams in Laser Wakefield Simulations", Seventh International Conference on Machine Learning and Applications, Proceedings of IEEE ICMLA, (2008)
  • D. Agarwal, D. Baldocchi, M. Goode, M. Humphreys, C. van Ingen, D. Papale, M. Reichstein, M. Rodriguez, Y. Ryu & R. Vargas, "An Evolving La Thuile Fluxnet Dataset and Support Infrastructure", European Geosciences Union General Assembly, (2008)
  • C. van Ingen, "Environmental Science as a data intensive Science", BWC and Innovation Center, (2008)
  • S. Callaghan, P. Maechling & others, "Reducing Time-to-Solution Using Distributed High-Throughput Mega-Workflows?Experiences from SCEC CyberShake", Fourth IEEE International Conference on eScience , (2008)
  • C. Guok, D. W. Robertson, E. Chaniotakis, M. R. Thompson, W. E. Johnston & B. L. Tierney, "A User Driven Dynamic Circuit Network Implementation.", Distributed Autonomous Network Management Systems, (2008)
  • S. S. Poon, R. C. Thomas, C. R. Aragon & B. Lee, "Context-Linked Virtual Assistants for Distributed Teams: An Astrophysics Case Study ", CSCW: ACM Conference on Computer Supported Cooperative Work, (2008)
  • M. Humphrey, N. Beekwilder, D. Agarwal, D. Baldocchi, M. Goode, J. Gupchup, C. van Ingen, D. Papale, M. Reichstein, M. Rodriguez, Y. Ryu, R. Vargas & N. Li, "Creating and Accessing the Global Fluxnet Data Set", Microsoft eScience All Hands Meeting, (2008)
  • F. Olken & L. Gruenwald, "Data Stream Management: Aggregation, Classification, Modeling, and Operator Placement", IEEE Internet Computing , 12, 9-12 (2008)  PDF
  • C. van Ingen, D. Agarwal, M. Humphrey & J. Li, "Deriving Daytime Variables From the AmeriFlux Standard Eddy Covariance Data Set", Eos Trans. American Geophysical Union, Fall Meet. Suppl., (2008)  PDF
  • C. R. Aragon & S. S. Poon, "Designing Scientific Workflow Management Systems for Data-Intensive Astrophysics Projects", Designing Cyberinfrastructure to Support Science Workshop, CSCW 2008: ACM Conference on Computer Supported Cooperative Work, (2008)
  • W. Johnston, B. Tierney, C. Tull, A. Hanushevsky & others, "Data-Intensive Computing in Widely Distributed Environments", (2008)
  • A. Baranovski, K. Beattie, S. Bharathi, J. Boverhof, J. Bresnahan, A. Chervenak, I. Foster, T. Freeman, D. Gunter, K. Keahey, C. Kesselman, R. Kettimuthu, N. Leroy, M. Link, M. Livny, R. Madduri, G. Oleynik, L. Pearlman, R. Schuler, B. Tierney & F. N. A. Laboratory, "Enabling petascale science: data management, troubleshooting, and scalable science services", Journal of Physics: Conference Series, 125, 012068+ (2008)  PDF
  • D. Agarwal, M. Humphrey, C. van Ingen, N.Beekwilder, M. Goode, K. Jackson, M. Rodriguez & R. Weber, "Fluxnet Synthesis Dataset Collaboration Infrastructure", 1, (2008)
  • D. Agarwal, M. Humphrey, N. Beekwilder, M. Goode, K. Jackson, R. Weber, C. van Ingen & D. Baldocchi, "Interaction Support for the Global FLUXNET Data Set,", Eos Trans. American Geophysical Union, (2008)
  • S. Bailey, C. Aragon, R. Romano, R. C. Thomas, B. A. Weaver & D.Wong, "Object classification at the Nearby Supernova Factory ", Astronomische Nachrichten , 329, 292-294 (2008)
  • M. Humphrey, D. Agarwal & C. van Ingen, "Publication and Curation of Large-Scale Shared Environmental Scientific Data", (2008)
  • C. R. Aragon, S. J. Bailey, S. Poon, K. Runge & R. C. Thomas, "Sunfall: A Collaborative Visual Analytics System for Astrophysics ", J. Phys.: Conf. Ser, 125, (2008)
  • S. S. Poon & C. R. Aragon, "Towards Virtual Radical Collocation in Science Projects,", Distributed Team Work Workshop, CSCW ACM Conference on Computer Supported Cooperative Work, (2008)
  • C. Aragon, S. Poon, G. Aldering, R. Thomas & R. Quimby, "Using Visual Analytics to Maintain Situational Awareness in Astrophysics ", IEEE Symposium on Visual Analytics Science and Technology (IEEE VAST), (2008)
  • E. W. Bethel, O. Rübel, Prabhat, K. Wu, G. H. Weber, V. Pascucci, H. Childs, A. Mascarenhas, J. Meredith & S. Ahern, "Modern Scientific Visualization is More than Just Pretty Pictures", Numerical Modeling of Space Plasma Flows: Astronum-2008 (Astronomical Society of the Pacific Conference Series), 301-317 (2008)
  • S. Cholia & R. Porter, "Publication and protection of sensitive site information in a grid infrastructure", Proceedings CCGRID 2008 - 8th IEEE International Symposium on Cluster Computing and the Grid, 639-644 (2008)
  • L. J. Gosink, K. Wu, E. W. Bethel, J. D. Owens & K. I. Joy, "Bin-Hash Indexing: A Parallel Method For Fast Query Processing", (2008)
  • S. Callaghan, P. Maechling, E. Deelman, K. Vahi, G. Mehta, G. Juve, K. Milner, R. Graves, E. Field, D. Okaya, D. Gunter, K. Beattie & T. Jordan, "Reducing Time-to-Solution Using Distributed High-Throughput Mega-Workflows - Experiences from SCEC CyberShake", Proceedings of the 2008 Fourth IEEE International Conference on eScience, 151-158 (2008)  PDF
  • M. Nagappan, M. A. Vouk, K. Wu, A. Sim & A. Shoshani, "Efficient Operational Profiling of Systems Using Suffix Arrays on Execution Logs", ISSRE, 313-314 (2008)
  • M. Pala, S. Cholia, S. Rea & S. Smith, "Extending PKI interoperability in computational grids", Proceedings CCGRID 2008 - 8th IEEE International Symposium on Cluster Computing and the Grid, 645-650 (2008)
  • O. Rübel, Prabhat, K. Wu, H. Childs, J. Meredith, C. G. R. Geddes, E. Cormier-Michel, S. Ahern, G. H. Weber, P. Messmer, H. Hagen, B. Hamann & E. W. Bethel, "Application of High-performance Visual Analysis Methods to Laser Wakefield Particle Acceleration Data", IEEE Visualization 2008, (2008)
  • O. Rübel, Prabhat, K. Wu, H. Childs, J. Meredith, C. G. R. Geddes, E. Cormier-Michel, S. Ahern, G. H. weber, P. Messmer, H. Hagen, B. Hamann & E. W. Bethel, "High Performance Multivariate Visual Data Exploration for Extemely Large Data", SuperComputing 2008 (SC08), 51 (2008)
  • R. R. Sinha, M. Winslett, K. Wu, K. Stockinger & A. Shoshani, "Adaptive Bitmap Indexes for Space-Constrained Systems", ICDE 2008, 1418-1420 (2008)
  • K. Stockinger, J. Cieslewicz, K. Wu, D. Rotem & A. Shoshani, "Using Bitmap Indexing Technology for Combined Numerical and Text Queries", New Trends in Data Warehousing and Data Analysis, 3, 1-23 (2008)
  • K. Wu, K. Stockinger & A. Shosani, "Breaking the Curse of Cardinality on Bitmap Indexes", SSDBM'08, 348-365 (2008)
  • I. Yamazaki, K. Wu & H. Simon, "nu-TRLan User Guide version 1.0", (2008)

2007

  • J. M. Schopf, A. Chervenak, I. Foster, D. Fraser, D. Gunter, N. LeRoy & B. Tierney, "End-to-End Data Solutions for Distributed Petascale Science", CTWatch Quarterly, (2007)
  • I. Zaslavsky, M. Rodriguez, B. Beran, D. Valentine & C. van Ingen, "OLAP Cube Visualization of Hydrologic Data Catalogs", Eos Trans., 88, (2007)
  • J. Jung, R. Milito & V. Paxson, "On the Adaptive Real-Time Detection of Fast-Propagating Network Worms", Fourth GI International Conference on Detection of Intrusions & Malware, and Vulnerability Assessment, (2007)
  • M. Allman, V. Paxson & J. Terrell, "A Brief History of Scanning", ACM Internet Measurement inproceedings, (2007)
  • J. M. Gonzalez, V. Paxson & N. Weaver, "A Hardware/Software Architecture for Flexible, High-Performance Network Intrusion Prevention ", Proc. ACM CCS , (2007)
  • D. Agarwal, C. van Ingen, S. Holladay & M. Krassovski, "AmeriFlux Data Server User Tutorial,", AmeriFlux Annual Meeting, (2007)
  • V. Paxson, R. Sommer & N. Weaver, "An Architecture for Exploiting Multi-Core Processors to Parallelize Network Intrusion Prevention", IEEE Sarnoff Symposium, (2007)
  • D. Agarwal, D. Baldocchi, T. Boden, B. Cook, D. Frank, M. Goode, J. Gupchup, S. Holladay, M. Humphreys, C. van Ingen, B. Jackson, D. Papale, M. Reichstein, M. Rodriguez, Y. Ryu, R. Vargas, B. Wilson & N. Li, "Creating and Accessing the Global Fluxnet Data Set", Eos Trans. American Geophysical Union, 88, (2007)
  • J. McCarthy & B. Bargmeyer, "Ecoinformatics Project: Semantics Management and Semantics Services, Committee Draft 1 of Part 3, Edition 3 of the ISO/IEC 11179 Metadata Registries Standard", (2007)
  • I. Foster, D. Gunter, K. Jackson, J. M. Schopf & e. A. B. Tierney, "Enabling Distributed Petascale Science", SciDAC, (2007)
  • B. Tierney & e. a. Dan Gunter, "Grid Logging: Best Practices Guide", (2007)
  • M. Allman & V. Paxson, "Issues and Etiquette Concerning Use of Shared Measurement Data ", ACM Internet Measurement Conference , (2007)
  • C. Guok, J. R. Lee & K. Berket, "Improving the Bulk Data Transfer Experience", Special issue of the journal on Management of IP Networks and Services , (2007)
  • D. Gunter, B. L. Tierney, A. Brown, M. Swany, J. Bresnahan & J. M. Schopf, "Log Summarization and Anomaly Detection for Troubleshooting Distributed Systems", Grid Computing, 2007 8th IEEE/ACM International Conference on, IEEE/ACM International Conference on Grid Computing, 226-234 (2007)  PDF
  • W. Lavrijsen & S. Binet, "Optimizations in Python-based HEP Analysis", CHEP inproceedings, (2007)
  • D. H. Bailey, R. Lucas, P. Hovland, B. Norris, K. Yelick, D. Gunter, B. de Supinski, D. Quinlan, P. Worley, J. Vetter, P. Roth, J. Mellor-Crummey, A. Snavely, J. Hollingsworth, D. Reed, R. Fowler, Y. Zhang, M. Hall, J. Chame, J. Dongarra & S. Moore, "Performance Engineering: Understanding and Improving the Performance of Large-Scale Codes", CT Watch Quarterely, 3, 18-23 (2007)  PDF
  • E. Bresson, O. Chevassut & D. Pointcheval, "Provably-Secure Authenticated Group Diffie-Hellman Key Exchange", ACM Transactions on Information and System Security Journal , (2007)  PDF
  • L. Ramakrishnan, Y. Simmhan & B. Plale, "Realization of Dynamically Adaptive Weather Analysis and Forecasting in LEAD,", In Dynamic Data Driven Applications Systems Workshop (DDDAS) in conjunction with ICCS, (2007)
  • S. Kamil, A. Pinar, D. Gunter, M. Lijewski, L. Oliker & J. Shalf, "Reconfigurable hybrid interconnection for static and dynamic scientific applications", Conference on Computing Frontiers , (2007)
  • M. Humphrey, M. R. Thompson & K. R. Jackson, "Security for grids", Proceedings of IEEE, 93, 644-652 (2007)  PDF
  • J. M. Gonzalez, V. Paxson & N. Weaver, "Shunting: A Hardware/Software Architecture for Flexible, High-Performance Network Intrusion Prevention ", ACM CCS , (2007)
  • M. Abdalla, E. Bresson, O. Chevassut, B. Moller & D. Pointcheval, "Strong Password-Based Authentication in TLS Using the Three-Party Group Diffie-Hellman Protocol", International Journal of Security and Networks, 2, (2007)  PDF
  • B. L. Tierney, D. Gunter & J. M. Schopf, "“The CEDPS Troubleshooting Architecture and Deployment on the Open Science Grid", SciDAC, (2007)
  • K. S. Beattie, C. T. Day, D. Glowacki, K. D. Hanson, J. E. Jacobsen, C. P. McParland & S. J. Patton, "The IceCube Data Acquisition Software: Lessons Learned during Distributed, Collaborative, Multi-Disciplined Software Development. ", CHEP , (2007)
  • M. Vallentin, R. Sommer, J. Lee, C. Leres, V. Paxson & B. Tierney, "The NIDS Cluster: Scalable, Stateful Network Intrusion Detection on Commodity Hardware", Symposium on Recent Advances in Intrusion Detection, (2007)
  • N. Weaver, V. Paxson & N. Weaver, "The Shunt: An FPGA-Based Accelerator for Network Intrusion Prevention", FPGA , (2007)
  • D. Agarwal, M. Goode, J. Gupchup, J. Hunt, C. van Ingen, R. Leonardson, M. Rodriguez & N. Li, "Unifying Diverse Watershed Data to Enable Analysis ,", EOS Trans. American Geophysical Union Fall Meet. Suppl., (2007)
  • D. Agarwal, M. Goode, J. Gupchup, J. Hunt, C. van Ingen, R. Leonardson, M. Rodriguez & N. Li, "Using the database to rapidly assess FLUXNET data,", Eos Trans. American Geophysical Union Fall Meet. Suppl., (2007)
  • B. L. Tierney, D. Gunter & J. M. Schopf, "The CEDPS troubleshooting architecture and deployment on the open science grid", Journal of Physics: Conference Series, 78, 012075+ (2007)  PDF
  • J. M. Schopf, A. Chervenak, I. Foster, D. Fraser, D. Gunter, N. LeRoy & B. Tierney, "End-to-End Data Solutions for Distributed Petascale Science", CTWatch Quarterly, 3, 1+ (2007)  PDF
  • E. O'Neil, P. O'Neil & K. Wu, "Bitmap Index Design Choices and Their Performance Implications", IDEAS 2007, 72-84 (2007)
  • F. Reiss, K. Stockinger, K. Wu, A. Shoshani & J. M. Hellerstein, "Enabling Real-Time Querying of Live and Historical Stream Data", SSDBM 2007, (2007)
  • K. Wu, "FastBit Reference Manual", (2007)
  • K. Wu, K. Stockinger & A. Shoshani, "Performance of Multi-Level and Multi-Component Compressed Bitmap Indexes", ACM Transactions on Database Systems, 35, 1-52 (2007)

2006

  • C. Guok, D. Robertson, M. Thompson, J. Lee, B. Tierney & W. Johnston, "Intra and Interdomain Circuit Provisioning Using the OSCARS Reservation System ", GridNets Third International Workshop on Networks for Grid Applications, , (2006)
  • M. Abdalla, E. Bresson, O. Chevassut & D. Pointcheval, "Password-Based Group Key Exchange in a Constant Number of Rounds", Workshop on Practice and Theory in Public Key Cryptography PKC , (2006)
  • W. Liebig, D. Rousseau, P. Calafiura, W. Lavrijsen, P. Loch & A. Salzburger, "Physics-level Job Configuration", Computing in High Energy and Nuclear Physics,, (2006)
  • M. Abdalla, E. Bresson, O. Chevassut, B. Moeller & D. Pointcheval, "Provably Secure Password-Based Authentication in TLS", ACM Symposium on InformAtion, Computer and Communications Security (ASIACCS'06), (2006)
  • K. Berket, A. Essiari & D. Agarwal, "A New Approach to Asymmetric Group Communication Membership", (2006)
  • J. Zurawski, M. Swany & D. Gunter, "A Scalable Framework for Representation and Exchange of Network Measurments", 2nd International IEEE/Create-Net Conference on Testbeds and Research Infrastructures for the Development of Networks and Communities (Tridentcom) , (2006)
  • E. Bresson, O.Chevassut & D. Pointcheval, "A Security Solution for IEEE 802.11 Ad-hoc Mode: Password-Authentication and Group Diffie-Hellman Key Exchange", Wireless and International Journal of Mobile Computing (IJWMC)--Special Issue on Security of Computer Network and Mobile Systems, (2006)
  • R. Pang, V. Paxson, R. Sommer & L. Peterson, "binpac: A yacc for Writing Application Protocol Parsers", ACM Internet Measurement Conference , (2006)
  • B. E. Bargmeyer, "Common Sense, Common Logic", ISO Focus Journal , (2006)
  • E. Hjort, D. Olson, J. Lauret, A. Sim & A. Shoshani, "Data and Computational Grid decoupling in STAR An Analysis Scenario using SRM Technology", Computing in High Energy and Nuclear Physics Conference (CHEP), (2006)
  • W. Lavrijsen & S. Binet, "Eclipse-Based Physicist Work Environment", Computing in High Energy and Nuclear Physics, (2006)
  • H. Palle & B. Bargmeyer, "Chapter Title: Environmental Data: Edge Issues and the Path Forward Doc_Format ", (2006)
  • S. Floyd, V. Paxson & A. Falk, "IAB Thoughts on the Role of the Internet Research Task Force (IRTF) ", (2006)
  • K. Berket, C. Guok & J. R. Lee, "Improving the Bulk Data Transfer Experience ", The special issue of the IJIPT journal on Management of IP Networks and Services, (2006)
  • D. Agarwal & D. Ramsey, "Protecting DOE Office of Science Resources while Maintaining an Effective Open Collaborative Science Environment", (2006)
  • W. Cui, V. Paxson, N. Weaver & R. Katz, "Protocol-Independent Adaptive Replay of Application Dialog", NDSS, (2006)
  • V. Paxson, K. Asanovic, S. Dharmapurikar, J. Lockwood, R. Pang, R.Sommer & N. Weaver, "Rethinking Hardware Support for Network Analysis and Intrusion Prevention", USENIX Hot Security , (2006)
  • J. R. Burruss, T. W. Fredian & M. R. Thompson, "Security on the US Fusion Grid: Simplifying FusionGrid Security, Security Challenges of Large", Applications in Distributed Environments (CLADE) workshop at HPDC14, (2006)
  • J. Kannan, J. Jung, V. Paxson & C. Koksal, "Semi-Automated Discovery of Application Session Structure", ACM Internet Measurement Conference , (2006)
  • R. Pang, M. Allman, V. Paxson & J. Lee, "The Devil and Packet Trace Anonymization", Computer Communication Review, 36, (2006)  PDF
  • E. Bresson, O.Chevassut & D. Pointcheval, "The Group Diffie-Hellman Protocol,Password-based Group key Exchange in a Constant Number of Rounds", ACM Transactions on Information and System Security , (2006)
  • O. Chevasut, P. A. Fouque, P. Gaudry & D. Pointcheval, "The Twist-Augmented Technique for Key Exchange", International Workshop on Practice and Theory in Public Key Cryptography (PKC), (2006)
  • E. W. Bethel, S. Campbell, E. Dart, K. Stockinger & K. Wu, "Accelerating Network Traffic Analysis Using Query-Driven Visualization", Symposium on Visual Analytics Science and Technology (VAST), Baltimore, Maryland, USA, October 31 - November 2, 2006, 115-122 (2006)
  • E. Bethel, S. Campbell, E. Dart, J. Shalf, K. Stockinger & K. Wu, "High Performance Visualization using Query-Driven Visualization and Analytics", (2006)
  • L. Gosink, J. Shalf, K. Stockinger, K. Wu & W. Bethel, "HDF5-FastQuery: Accelerating Complex Queries on HDF Datasets using Fast Bitmap Indices", SSDBM 2006, Vienna, Austria, July 2006, 149-158 (2006)
  • F. Reiss, K. Stockinger, K. Wu, A. Shoshani & J. M. Hellerstein, "Efficient analysis of live and historical streaming data and its application to cybersecurity", (2006)
  • D. Rotem, K. Stockinger & K. Wu, "Minimizing I/O Costs of Multi-Dimensional Queries with Bitmap Indices", SSDBM 2006, Vienna, Austria, July 2006, (2006)
  • K. Stockinger, K. Wu, R. Brun & P. Canal, "Bitmap indices for fast end-user physics analysis in ROOT", Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment, 559, 99-102 (2006)
  • K. Stockinger, D. Rotem, A. Shoshani & K. Wu, "Analyzing Enron Data: Bitmap Indexing Outperforms MySQL Queries by Several Orders of Magnitude", (2006)
  • K. Stockinger & K. Wu, "Bitmap Indices for Data Warehouses", Data Warehouses and OLAP: Concepts, Architectures and Solutions, 179-202 (2006)
  • K. Stockinger, E. W. Bethel, S. Campbell, E. Dart & K. Wu, "Detecting distributed scans using high-performance query-driven visualization", SC '06, 82 (2006)
  • K. Stockinger, D. Rotem, A. Shoshani & K. Wu, "Enron Data Revisited - Neighborhood Queries with FastBit Win over Popular Commercial Database System", (2006)
  • K. Wu, K. Stockinger, A. Shoshani & W. Bethel, "FastBit--Helps Finding the Proverbial Needle in a Haystack", (2006)
  • K. Wu, E. Otoo & A. Shoshani, "Optimizing bitmap indices with efficient compression", ACM Transactions on Database Systems, 31, 1-38 (2006)

2005

  • J. Hellerstein, V. Paxson, L. Peterson, T. Roscoe, S. Shenker & D. Wetherall, "The Network Oracle", Data Engineering, 28, (2005)
  • R. Pang, M. Allman, M. Bennett, J. Lee, V. Paxson & B. Tierney, "A First Look at Modern Enterprise Traffic", ACM Internet Measurement inproceedings, (2005)
  • M. Allman, E. Blanton & V. Paxson, "An Architecture for Developing Behavioral History", Steps to Reducing Unwanted Traffic on the Internet (SRUTI) , (2005)
  • A. Antony, J. Blom, C. de Laat & J. Lee, " Exploring practical limitations of TCP over TransAtlantic networks", High-Speed Networks and Services for Data-Intensive Grids: the DataTAG Project, special issue, Future Generation Computer Systems, 21, (2005)
  • M. Humphrey, G. Wasson, K. Jackson, J. Boverhof, M. Rodriguez, J. Gawor, S. Lang, J. Bester, I. Foster, S. Meder, S. Pickles & M. McKeown, " State and Events for Web Services: A Comparison of Five WS-Resource Framework and WS-Notification Implementations", 14th IEEE International Symposium on High Performance Distributed Computing (HPDC-14), Research Triangle , (2005)
  • J. R. Burruss, T. Fredian & M. Thompson, "Data Security on the National Fusion Grid", Fifth International Atomic Energy Agency (IAEA) Technical Meeting on Control, Data Acquisition, and Remote Participation for Fusion Research, , (2005)
  • H. Dreger, C. Kreibich, V. Paxson & R. Sommer, "Enhancing the accuracy of network-based intrusion detection with host-based context", Conference on Detection of Intrusions and Malware and Vulnerability Assessment (DIMVA), (2005)
  • W. Bethel, S. Campbell, J. L. E. Dart, S. A. Smith, K. Stockinger, B. Tierney & K. Wu, "Interactive Analysis of Large Network Data Collections Using Query-Driven Visualization", (2005)
  • J. Ahrens, C. McParland & others, "NEW RESULTS FROM THE ANTARCTIC MUON AND NEUTRINO DETECTOR ARRAY", Nucl.Phys. B Suppl., 143, 343-350 (2005)
  • M. Humphrey, G. Wasson, K. Jackson, J. Boverhof, M. Rodriguez & et al, "State and Events for Web Services: A Comparison of Five WS-Resource Framework and WS-Notification Implementations", High Performance Distributed Computing, (2005)
  • I. C. (A. Achterberg & others), "The icecube collaboration:", 29th International Cosmic Ray Conference (ICRC) , (2005)
  • V. Yegneswaran, P. Barford & V. Paxson, "Using Honeynets for Internet Situational Awareness", ACM SIGCOMM HotNets, (2005)
  • M. Abdalla, O.Chevassut, P. A. .. Fouque & D. Pointcheval, " A Simple Threshold Authenticated Key Exchange from Short Secrets ", Asiacrypt inproceedings, (2005)
  • M. Thompson, V. Welch, M. Lorch, R. Lepro, D. Chadwick & V. Ciaschini, "Attributes Used in OGSI Authorization", Global Grid Forum, (2005)
  • D. K. Gunter, K. R. Jackson, D. E. Konerding, J. R. Lee & B. L. Tierney, "Essential Grid Workflow Monitoring Elements", International Conference on Grid Computing and Applications (GCA'05) , (2005)
  • R. Sommer & V. Paxson, "Exploiting independent state for network intrusion detection", Annual Computer Security Applications Conference , (2005)
  • A. Kumar, V. Paxson & N. Weaver, "Exploiting Underlying Structure for Detailed Reconstruction of an Internet Scale Event", ACM IMC, (2005)
  • M. Ackermann, C. McParland & others, "FLUX LIMITS ON ULTRA HIGH ENERGY NEUTRINOS WITH AMANDA-B10First measurements of inclusive W and Z cross sections from run II of the Tevatron collider.", Astropart.Phys, 22, 339-353 (2005)
  • M. Thomas, J. Burruss, L. cinquini, G. Fox, D. Gannon, I. Gilbert, G. von Laszewski, K. Jackson, D. Middleton, R. Moore, M. Pierce, B. Plale, A. Rajasekar, R. Regno, E. Roberts, D. Schissel, A. Seth & W. Schroeder, "Grid Portal Architectures for Scientific Applications", Journal of Physics, 16, 596-600. (2005)
  • M. Abdalla, O.Chevassut & D. Pointcheval, "One-time Verifier-based Encrypted Key Exchange", International Workshop on Practice and Theory in Public Key Cryptography (PKC), (2005)
  • S. Dharmapurikar & V. Paxson, "Robust TCP Stream Reassembly in the Presence of Adversaries ", USENIX Security Symposium , (2005)
  • D. K. Gunter, B. L. Tierney & S. J. Bailey, "Scalable Analysis of Distributed Workflow Traces ", International Conference on Parallel and Distributed Processing Techniques and Applications (PDPTA) , (2005)
  • K. Berket, A. Essiari & M. R. Thompson, "Securing Resources in Collaborative Environments: A Peer-to-Peer Approach", The 17th IASTED International Conference on Parallel and Distributed Computing and Systems (PDCS), (2005)
  • E. W. Bethel, S. Campbell, E. Dart, J. Lee, S. A. Smith, K. Stockinger, B. Tierney & K. Wu, "Interactive Analysis of Large Network Data Collections Using Query-Driven Visualization", (2005)
  • S. J. Bailey, B. Tierney & D. K. Gunter, "Scalable Analysis of Distributed Workflow Traces", PDPTA, 849-855 (2005)  PDF
  • D. Rotem, K. Stockinger & K. Wu, "Optimizing Candidate Check Costs for Bitmap Indices", CIKM, 648-655 (2005)
  • D. Rotem, K. Stockinger & K. Wu, "Optimizing I/O Costs of Multi-Dimensional Queries using Bitmap Indices", DEXA, Copenhagen, Denmark, August 2005, 220-229 (2005)
  • D. Rotem, K. Stockinger & K. Wu, "Towards Optimal Multi-Dimensional Query Processing with Bitmap Indices", (2005)
  • K. Stockinger, J. Shalf, W. Bethel & K. Wu, "DEX: Increasing the Capability of Scientific Data Analysis Pipelines by Using Efficient Bitmap Indices to Accelerate Scientific Visualization", SSDBM, 35-44 (2005)
  • K. Stockinger, K. Wu, S. Campbell, S. Lau, M. Fisk, E. Gavrilov, A. Kent, C. E. Davis, R. Olinger, R. Young, J. Prewett, P. Weber, T. P. Caudell, E. W. Bethel & S. Smith, "Network Traffic Analysis With Query Driven Visualization", SC 2005, (2005)
  • K. Stockinger, J. Shalf, W. Bethel & K. Wu, "Query-Driven Visualization of Large Data Sets", IEEE Visualization 2005, Minneapolis, MN, October 23-28, 2005, 22 (2005)
  • K. Wu, "FastBit: an efficient indexing technology for accelerating data-intensive science", Journal of Physics: Conference Series, 16, 556-560 (2005)
  • K. Wu, J. Gu, J. Lauret, A. M. Poskanzer, A. Shoshani, A. Sim & W.-M. Zhang, "Grid Collector: Facilitating Efficient Selective Access from Data Grids", (2005)
  • K. Wu, E. Otoo & A. Shoshani, "Optimizing Connected Component Labeling Algorithms", Proceedings of SPIE Medical Imaging Conference 2005, San Diego, CA, (2005)
  • K. Wu & E. Otoo, "A simpler proof of the average case complexity of union-find with path compression", (2005)
  • K. Wu, E. Otoo & K. Suzuki, "Two Strategies to Speed up Connected Component Labeling Algorithms", (2005)

2004

  • N. Weaver & V. Paxson, "A Worst-Case Worm", Third Annual Workshop on Economics and Information Security (WEIS04), (2004)
  • R. Pang, V. Yegneswaran, P. Barford, V. Paxson & L. Peterson, "Characteristics of Internet Background Radiation", ACM IMC, (2004)
  • R. Sommer & V. Paxson, "Exploiting Independent State For Network Intrusion Detection", (2004)
  • J. Jung, V. Paxson, A. Berger & H. Balakrishnan, "Fast Portscan Detection Using Sequential Hypothesis Testing ", IEEE Symposium on Security and Privacy, (2004)
  • E. Bresson, O.Chevassut, A. Essiari & D. Pointcheval, "Mutual Authentication and Group Key Agreement for Low-Power Mobile Devices", Journal of Computer Communications - Special Issue on Security and Performance in Wireless and Mobile Networks, (2004)
  • G. Jin, "Packet Drop Avoidance for High-speed network transmission protocol", International Conference on Information Technology: Research and Education, (2004)
  • K. Berket, D. G. A. Essiari & W. Hoschek, "Peer-to-Peer I/O (P2PIO) Protocol Specification", I/O (P2PIO) Protocol Specification Version 0.6 , (2004)
  • W. Lavrijsen, "PYBUS: A Python software bus", Computing in High-Energy Physics (CHEP), (2004)
  • J. Generowicz, W. Lavrijsen & M. Marino, "Reflection-Based Python-C++ Bindings", Computing in High Energy and Nuclear Physics, (2004)
  • D. Konerding, "Review of An Essential Guide to the Basic Local Alignment Search Tool", Bioinformatics, 5, 93-96 (2004)
  • M. Ackermann, C. McParland & others, "Search for Extraterrestrial Point Sources of High Energy Neutrinos With AMANDA-II ", Phys.Rev.D, 71, (2004)
  • J. Schopf & K. Jackson, "“So You Want to Set Up a Grid", ClusterWorld, 2:2., (2004)
  • C. Leggett, P. Calafiura, W. Lavrijsen, M. Marino & D. Quarrie, "The Athena Control Framework in Production, New Developments and Lessons Learned", Computing in High Energy and Nuclear Physics, (2004)
  • K. Jackson, D. Konerding, J. Lee, D. Olson & B. Tierney, "The Grid2003 Production Grid: Principles and Practice", 13th IEEE Intl. Symposium on High Performance Distributed Computing (HPDC-13) , (2004)
  • V. Paxson, "Strategies for Sound Internet Measurement", ACM IMC, (2004)
  • W. Kramer, A. Shoshani, D. Agarwal, B. Draney, G. Jin, G. Butler & J. Hules, "Deep scientific computing requires deep data", IBM Research and Development, 48, 209-232 (2004)
  • S.Tueke, V. Welch, D.Engert, L.Pearlman & M.Thompson, "Internet X.509 Public Key Infrastructure Proxy Certificate Profile", (2004)
  • F. Liang, S. Meder, O. Chevassut & F. Siebenlist, "Secure password-based authenticated key exchange for web services", ACM Computer and Communications Security (ACM CCS), Workshop on Secure Web Services , (2004)
  • W. Sjouw, A. Antony, J. Blom, C. de Laat & J. Lee, "TCP Behaviour On Transatlantic Lambda's", Grid Computing: First European Across Grids inproceedings, Santiago de , (2004)
  • E. Bresson, O.Chevassut & D. Pointcheval, "The Group Diffie-Hellman Protocol", International Workshop on Practice and Theory in Public Key Cryptography (PKC), , (2004)
  • P. Schissel, K. Keahey, T. Araki, J. Burruss, E. Feibush, S. Flanagan, I. Foster, T. Fredian, M. Greenwald, S. Klasky, T. Leggett, K. Li, D. McCune, P. Lane, M. Papka, Q. Peng, L. Randerson, A. Sanderson, J. Stillerman, M. Thompson & G. Wallace, "The National Fusion Collaboratory Project ", Applying Grid Technology For Magnetic Fusion Research, Workshop on Case Studies on Grid Applications, (2004)
  • S. Staniford, D. Moore, V. Paxson & N. Weaver, "The Top Speed of Flash Worms", ACM CCS WORM, (2004)
  • N. Weaver, S. Staniford & V. Paxson, "Very Fast Containment of Scanning Worms", USENIX Security Symposium, (2004)
  • S. S. N. Weaver, D. Ellis & V. Paxson, "Worms vs. Perimeters: The Case for Hard-LANs", Hot Interconnects, (2004)
  • J. R. Chelikowsky, Y. Saad, N. Troullier, A. Stathopoulos, K. Wu, S. Ogut, H. Kim, M. Jain, I. Vasiliev, L. Kronik & M. Alemany, "Pseudopotential Algorithms for Real Space Energy Calculations (PARSEC)", (2004)
  • D. Rotem, K. Stockinger & K. Wu, "Efficient binning for bitmap indices on high-cardinality attributes", (2004)
  • K. Stockinger, K. Wu & A. Shoshani, "Evaluation Strategies for Bitmap Indices with Binning", International Conference on Database and Expert Systems Applications (DEXA 2004), Zaragoza, Spain, (2004)
  • K. Stockinger & K. Wu, "Improved searching for spatial features in spatio-temporal data", (2004)
  • K. Wu, W.-M. Zhang, V. Perevoztchikov, J. Lauret & A. Shoshani, "The Grid Collector: Using an Event Catalog to Speed up User Analysis in Distributed Environment", Proceedings of Computing in High Energy and Nuclear Physics (CHEP) 2004, (2004)
  • K. Wu, E. Otoo & A. Shoshani, "On the performance of bitmap indices for high cardinality attributes", VLDB, 24-35 (2004)
  • K. Wu, A. Shoshani & E. J. Otoo, "Word aligned bitmap compression method, data structure, and apparatus", (2004)

2003

  • R. Pang & V. Paxson, " A High-level Programming Environment for Packet Trace Anonymization and Transformation", ACM SIGCOMM , (2003)
  • D. Agarwal, M.Lorch, M.Thompson & M. Perry, "A New Security Model for Collaborative Environments", Workshop on Advanced Collaborative Environments,, (2003)
  • J. Gonzalez & p. V. Paxson, "A Packet Capture and Injection Daemon, Proc. Passive & Active Measurement", PAM, (2003)
  • N. Weaver, V. Paxson, S. Staniford & R. Cunningham, "A Taxonomy of Computer Worms", ACM CCS , (2003)
  • U. Shankar & V. Paxson, "Active Mapping: Resisting NIDS Evasion Without Altering Traffic ", IEEE Symposium on Security and Privacy, (2003)
  • D. Agarwal, J. M. Gonzalez, J. Guojun & B. Tierney, "An infrastructure for passive network monitoring of application data streams", ACM Internet Measurement inproceedings, (2003)
  • G. Jin, "Available bandwidth measurement and sampling", ISMA Bandwidth Estimation Workshop Best, SDSC Auditorium , (2003)
  • M.Thompson, A. Essiari & S. Mudumbai, "Certificate-based Authorization Policy in a PKI Environment", ACM Transactions on Infomation and System Security , 566-588 (2003)
  • M. Perry & D. Agarwal, "Collaborative editing within the pervasive collaborative computing environment", European Computer Support for Cooperative Work inproceedings(ECSCW2003), , (2003)
  • S. Patton, "Concrete uses of XML in software development and data analysis", Computing in High-Energy and Nuclear Physics (CHEP) , (2003)
  • D. A. Agarwal, K. Berket & O. Chevassut, "Enabling Efficient Group Communication in a Collaborative Enviroment", Workshop on Advanced Collaborative Environments, (2003)
  • B. Lowekamp, B. Tierney, L. Cottrell, R. Hughes-Jones, T. Kielmann & M. Swany, "Enabling Network Measurement Portability Through a Hierarchy of Characteristics", 4th International Workshop on Grid Computing, , (2003)
  • K. Berket & D. Agarwal, "Enabling secure Ad-hoc collaboration", Proceedings of the Workshop on Advanced Collaborative Environments, (2003)
  • R. Sommer & V. Paxson, " Enhancing Byte-Level Network Intrusion Detection Signatures with Context", ACM CCS , (2003)
  • S. Patton, "FAYE: A Java implement of the Frame / Stream / Stop analysis model", Conference for Computing in High-Energy and Nuclear Physics (CHEP), , (2003)
  • M. Thompson, A. Essiari, V. W. K. Keahey, S.Lang & B.Lui, "Fine-grained Authorization for Job and Resource Management using Akenti and Globus", Computing in High Energy and Nuclear Physics (CHEP), (2003)
  • K. Harrison, W. Lavrijsen, C. Tull, P. Mato, A. Soroko, C. Tan, N. Brook & R. Jones, "GANGA: a user-Grid interface for Atlas and LHCb", Computing in High Energy and Nuclear Physics, (2003)
  • D. Gunter, W. Lavrijsen, D. Quarrie, B. Tierney & C. Tull, "GMA Instrumentation of the Athena Framework using NetLogger", Computing in High Energy and Nuclear Physics, (2003)
  • B. Tierney & J. Hollingsworth, "The Grid: Blueprint for a New Computing Infrastructure, 2nd Edition", (2003)
  • S. Patton & D. Glowacki, "IceCube's development environment", Computing in High Energy and Nuclear Physics, (2003)
  • D. Moore, V. Paxson, S. Savage, C. Shannon, S. Staniford & N. Weaver, "Inside the Slammer Worm", Security and Privacy, (2003)
  • B. Tierney & J. Hollingsworth, "Instrumentation and Monitoring", The Grid 2: Blueprint for a New Computing Infrastructure, (2003)
  • E. Bresson, O.Chevassut, A. Essiari & D. Pointcheval, "Mutual Authentication and Group Key Agreement for Low-Power Mobile Devices", 5th IFIP-TC6 International Conference on Mobile and Wireless Communications Networks, (2003)
  • G. Jin & B. Tierney, "Netest: A Tool to Measure Maximum Burst Size, Available Bandwidth and Achievable Throughput", Proceedings of the International Conference on Information Technology, (2003)
  • D. Gunter & B. Tierney, "NetLogger: A Toolkit for Distributed System Tuning and Debugging ", Proceedings of The 8th IFIP/IEEE International Symposium on Integrated Network Management, (2003)
  • E. Bresson, O. Chevassut & D. Pointcheval, "New Security Results on Encrypted Key Exchange", International Workshop on Practice and Theory in Public Key Cryptographyc (PKC), (2003)
  • D. Gunter, B. Tierney, C. E. Tull & V. Virmani, "On-Demand Grid Application Tuning and Debugging with the NetLogger Activation Service ", 4th International Workshop on Grid Computing (Grid), (2003)
  • S. Peggs, T. Satogata, D. Agarwal & D. Rice, "Remote operations in a global accelerator network", Particle Accelerator inproceedings, (2003)
  • M. Thompson & K. Jackson, "Resource Management for Grid Computing.", (2003)
  • E. Bresson, O. Chevassut & D. Pointcheval, "Security Proofs for an efficient password-based key exchange", 10th ACM Conference on Computer and Communications Security (ACM CCS'03), (2003)
  • D. Agarwal & K. Berket, "Supporting Dynamic Ad hoc Collaboration Capabilities ", Conference for Computing in High Energy and Nuclear Physics, (2003)
  • G. Jin & B. Tierney, "System Capability Effects on Algorithms for Network Bandwidth Measurement", Proceedings of the Internet Measurement inproceedings, (2003)
  • W. Lavrijsen, "The Athena startup kit", Conference for Computing in High-Energy and Nuclear Physics (CHEP 03), (2003)
  • P. Calafiura, C. Leggett, D. Quarrie, H. Ma & S.Rajagopalan, "The StoreGate: A Data model for the Atlas software architecture", Conference for Computing in High-Energy and Nuclear Physics (CHEP 03)24-28 Mar . In the Proceedings of Conference for Computing in High-Energy and Nuclear Physics (CHEP), , (2003)
  • S. Cannon, D. O. S. Chan, C. E. Tull, V. Welch & L. Pearlman, "Using CAS to manage role based VO subgroups", Computing in High-Energy and Nuclear Physics (CHEP 03), 5 (2003)
  • B. Tierney, "Using NetLogger and Web100 for TCP analysis", First International Workshop on Protocols for Fast Long-Distance Networks, (2003)
  • G. von Laszweski, J. Gawor, S. Krishnan & K. Jackson, "Commodity Grid Kits: Middleware for Building Grid Computing Environments", Grid Computing: Making The Global Infrastructure a Reality, (2003)
  • G. von Laszewski, J. Gawor, S. Krishnan & K. Jackson, "Creating and Managing Grid Services in Grid Computing, A Practical Guide to Technology and Applications", (2003)
  • J. Burress, S. Flanagan, K. Keahey, C. Ludescher, D. McCune, Q. Peng, L. Randerson, D. Schissel & M. Thompson, "Remote Computing Using the National Fusion Grid", 4th IAEA Technical Meeting on Control, Data Acquisition, and Remote Participation for Fusion Research, (2003)
  • X. Bai, T. Gaisser, S. T. (B. R. Ins), J. Becker, k.-H. Becker, P. Ekstrom, H. Geenen, A. Gross, K. Goldmann, T.Messarius & e. A. W. Rhode, "Search for diffuse fluxes of extraterrestrial muon-neutrinos with the Amanda detector", 28th International Cosmic Ray inproceedingss (ICRC) , (2003)
  • J. Adams, D. Olson & others, "STAR Collaboration Transverse momentum and collision energy dependence of high pT hadron suppression in Au+Au collisions at ultrarelativistic energies . ", Phys. Rev. Lett, 91, (2003)
  • R. Chytracek, J. Generowicz, W. Lavrijsen, M. Marino, P. Mato, L. Moneta, S. Roiser, L. Tuura & M. Winkler, "Status of the SEAL Project", 9th International Workshop on Advanced Computing and Analysis Techniques in Physics Research (ACAT 03), (2003)
  • W. Sjouw, A. Antony, J. Blom, C. de Laat & J. Lee, "TCP behaviour on transatlantic Lambda's", Springer Verlag LNCS, (2003)
  • A. Bazan, T. Bouedo, P. Ghez, M. Marino & C. Tull, "The Athena data dictionary and description language", Conference for Computing in High-Energy and Nuclear Physics (CHEP), 4 (2003)
  • K. Wu, W.-M. Zhang, A. Sim, J. Gu & A. Shoshani, "Grid Collector: An Event Catalog With Automated File Management", Proceedings of IEEE Nuclear Science Symposium 2003, (2003)
  • K. Wu, W. Koegler, J. Chen & A. Shoshani, "Using Bitmap Index for Interactive Exploration of Large Datasets", Proceedings of SSDBM 2003, 65-74 (2003)

2002

  • K. Berket, D. A. Agarwal & O. Chevassut, "Practical Approach to the InterGroup Protocols", Future Generation Computer Systems, 18, 709-719 (2002)
  • O. Chevassut, "Authenticated Group Diffie-Hellman Key Exchange : Theory and Practice", (2002)
  • D. Agarwal, G. Olson & J. Olson, "Collaboration Tools for the Global Accelerator Network Workshop Report", (2002)
  • E. Bresson, O.Chevassut & D. Pointcheval, "Group Diffie-Hellman Key Exchange Secure Against Dictionary Attacks", Asiacrypt, (2002)
  • E. Bresson, O.Chevassut & D. Pointcheval, "Group Diffie-Hellman Key Exchange under Standard Assumptions", Eurocrypt , 6, 566-88 (2002)
  • J. Lee, D. Gunter, M. Stoufer & B. Tierney, "Monitoring Data Archives for Grid Environments", Supercomputing, ACM/IEEE 2002 inproceedings, 66 (2002)
  • K. R. Jackson, "PyGlobus: A python interface to the globus toolkit", Concurrency and Computation: Practice and Experience , 14, (13-15) (2002)
  • T. Dunigan, M. Mathis & B. Tierney, "A TCP tuning daemon", IEEE Supercomputing, , (2002)
  • A. Antony, J. Blom, C. de Laat, J. Lee & W. Sjouw, "Microscopic Examination of TCP Flows Over Transatlantic Links, ", (2002)
  • D. Agarwal, C. McParland & M. Perry, "Supporting collaborative computing and interaction", Grace Hopper Celebration of Women in Computing , (2002)
  • A. Stathopoulos & K. Wu, "A Block Orthogonalization Procedure with Constant Synchronization Rquirements", SIAM Journal on Scientific Computing, 23, 2165-2182 (2002)
  • K. Stockinger, K. Wu & A. Shoshani, "Strategies for processing ad hoc queries on large data warehouses", Proceedings of DOLAP'02, 72-79 (2002)
  • K. Wu, E. Otoo & A. Shoshani, "Compressing Bitmap Indexes for Faster Search Operations", Proceedings of SSDBM'02, 99-108 (2002)
  • K. Wu, E. Otoo & A. Shoshani, "An Efficient Compression Scheme For Bitmap Indices", (2002)

2001

  • D. Agarwal, "Discussion of Reliable Multicast Deployment Progress for the Continuous Data Protocol", 23rd Annual DoD/DOE Seismic Research Review: Worldwide Monitoring of Nuclear Explosions , (2001)
  • D. Agarwal, O. Chevassut & G. Tsudik, "Integrating access control with secure group communication for wide-area networks", Network and Distributed System Security Symposium, (2001)
  • D. Agarwal, B. Tierney, D. Gunter, J. Lee & W. Johnston, "Network Aware High-Performance Distributed Applications", Proceedings of the Workshop on New Visions for Large-Scale Networks: Research and Applications , (2001)
  • J. Becla & I. Gaponenko, "Optimizing parallel access to the BABAR database system using CORBA servers", CHEP: Computing in High-Energy Physics and Nuclear, (2001)
  • K. Berket, D. A. Agarwal, P. M. Melliar-Smith & L. E. Moser, "Overview of the InterGroup Protocols", LNCS, 316-25 (2001)
  • O. Chevassut, E. Bresson & D. Pointcheval, "Provably Authenticated Group Diffie-Hellman Key Exchange - The Dynamic Case", Asiacrypt'01, (2001)
  • S. Patton & A. Mohktarani, "Support in the BaBar objectivity database for multiple federations", CHEP'01: Computing in, High-EnergyPhysics and Nuclear, (2001)
  • I. Gaponenko, A. Mokhtarani, S. Patton, D. Quarrie, A. Adesanya, A. H. J. Becla, A. Hasan & A. Trunov, "The BABAR database: Challenges, trends and projections", CHEP'01: Computing in High-Energy Physics and Nuclear, (2001)
  • W. Bethel, B. Tierney, J. Lee, D. Gunter & S. Lau, "Using High-Speed WANs and Network Data Caches to Enable Remote and Distributed Visualization", 10th IEEE Symposium on High Performance Distributed Computing, (2001)
  • S. Loken & C. McParland, "Workflow Management for a Cosmology Collaboratory", CHEP, (2001)
  • G. Jin, G. Yang, B. Crowley & D. Agarwal, "Network Characterization Service (NCS)", 10th IEEE Symposium on High Performance Distributed Computing , (2001)
  • L. Bernardo, H. Nordberg, D. Olson, A. Shoshani, A. Sim, A. Vaniachine, D. Zimmerman, B. Gibbard, R. Porter, T. Wenaus & D. Malon, "New capabilities in the HENP Grand Challenge Storage Access System and its application at RHIC", Computer Physics Communications, 140, 179-188 (2001)
  • K. Wu, E. Otoo & A. Shoshani, "Compressed bitmap indices for efficient query processing", (2001)
  • K. Wu, E. Otoo, A. Shoshani & H. Nordberg, "Notes on Design and Implementation of Compressed Bit Vectors", (2001)
  • K. Wu, E. Otoo & A. Shoshani, "A Performance Comparison of bitmap indexes", CIKM, 559-561 (2001)

2000

  • K. Wu & B. Milne, "A survey of packages for large linear systems", (2000)
  • K. Wu & H. Simon, "Thick-restart Lanczos method for large symmetric eigenvalue problems", SIAM J. Matrix Anal. Appl., 22, 602-616 (2000)

1999

  • K. Wu & H. Simon, "A Parallel Lanczos method for symmetric generalized eigenvalue problems", Computing and Visualization in Science, 2, 37-46 (1999)
  • K. Wu & H. D. Simon, "Dynamic Restarting Schemes For Eigenvalue Problems", (1999)
  • K. Wu & H. Simon, "An Evaluation of Parallel Shift-and-Invert Lanczos Method", Proceedings of The 1999 International Conference on Parallel and Distributed Processing Techniques and Applications, Las Vegas, Nevada, June 28 - July 1, 1999, 2913-19 (1999)
  • K. Wu & H. Simon, "Parallel Efficiency of the Lanczos method for eigenvalue problems", (1999)
  • K. Wu, A. Canning, H. D. Simon & L.-W. Wang, "Thick-Restart Lanczos method for electronic structure calculations", Journal of Computational Physics, 154, 156-173 (1999)
  • K. Wu & H. Simon, "TRLAN user guide", (1999)

1998

  • A. Stathopoulos, Y. Saad & K. Wu, "Dynamic thick restarting of the Davidson and the implicitly restarted Arnoldi methods", SIAM Journal on Scientific Computing, 19, 227-245 (1998)
  • K. Wu, Y. Saad & A. Stathopoulos, "Inexact Newton Preconditioning Techniques for Eigenvalue Problems", Electronic Transactions on Numerical Analysis, 7, 202-214 (1998)
  • K. Wu, A. Canning & H. D. Simon, "A new Lanczos method for electronic structure calculations", Proceedings of ACM/IEEE SC98 Conference, November 7-13, 1998, in Orlando, FL, (1998)
  • K. Wu & H. Simon, "Thick-restart Lanczos method for symmetric eigenvalue problems", (1998)
  • K. Wu & H. D. Simon, "Thick-restart Lanczos method for symmetric eigenvlaue problems", IRREGULAR'98, 1457, 43-55 (1998)

1997

  • K. Wu, "Preconditioned Techniques for Large Eigenvalue Problems", (1997)
  • K. Wu, "Restarted variants of DQGMRES", Proceedings of 1997 International Workshop on Computational Science and Engineering, 59-63 (1997)

1996

  • J. R. Chelikowsky, X. Jing, K. Wu & Y. Saad, "Molecular dynamics with quantum forces: Vibrational spectra of localized systems", Physical Review B, 53, 12071 (1996)
  • Y. Saad & K. Wu, "DQGMRES: a quasi-minimal residual algorithm based on incomplete orthogonalization", Numerical Linear Algebra with Applications, 3, 329-343 (1996)
  • Y. Saad, A. Stathopoulos, J. Chelikowsky, K. Wu & S. ÖgüT, "Solution of large eigenvalue problems in electronic structure calculations", BIT, 36, 563-578 (1996)
  • A. Stathopoulos, Y. Saad & K. Wu, "Thick restarting of the Davidson method: an extension to implicit restarting", Copper Mountain Conference on Iterative Methods, (1996)
  • K. Wu, "An experimental study of Krylov subspace accelerators", (1996)
  • K. Wu, Y. Saad & A. Stathopoulos, "Preconditioned Krylov subspace methods for eigenvalue problems", Copper Mountain Conference on Iterative Methods, (1996)

1995

  • J. R. Chelikowsky, S. Ö˘ güt, X. Jing, K. Wu, A. Stathopoulos & Y. Saad, "Atomic and Electronic Structure of Germanium Clusters at Finite Temperature Using Finite Difference Methods", Mat. Res. Soc., 408, (1995)
  • J. R. Chelikowsky, N. R. Troullier, X. Jing, D. Dean, N. Binggeli, K. Wu & Y. Saad, "Algorithms for the structural properties of clusters", Computer Physics Communications, 85, 325-335 (1995)
  • X. Jing, N. R. Troullier, J. R. Chelikowsky, K. Wu & Y. Saad, "Vibrational modes of silicon nanostructures", Solid State Communication, 96, 231-235 (1995)
  • Y. Saad & K. Wu, "Design of an iterative solution module for a parallel matrix library (PSPARSLIB)", Applied Numerical Mathematics, 19, 343-357 (1995)
  • Y. Saad, A. Stathopoulos, J. R. Chelikowsky, K. Wu & S. Ögüt, "Solution of large eigenvalue problems in electronic structure calculations", (1995)

1994

  • S. Carney, M. Heroux, G. Li & K. Wu, "A revised proposal for a sparse BLAS toolkit: SPARKER working note 3", (1994)
  • J. R. Chelikowsky, N. Troullier, K. Wu & Y. Saad, "Algorithms for predicting properties of real materials on high performance computers", Proceedings of the Toward Teraflop Computing Conference, (1994)
  • J. R. Chelikowsky, N. Troullier, K. Wu & Y. Saad, "Combining a higher-order finite-difference method with ab Initio pseudopotentials: application to diatomic molecules", (1994)
  • J. R. Chelikowsky, N. Troullier, K. Wu & Y. Saad, "Higher order finite difference pseudopotential method: an application to diatomic molecules", Phys. Rev. B, 50, 11355-11364 (1994)  PDF
  • X. Jing, N. R. Troullier, D. Dean, N. Binggeli, J. R. Chelikowsky, K. Wu & Y. Saad, "Ab Initio molecular dynamics simulations of Si clusters using the higher-order finite-difference-pseudopotential method", Physical Review B, 50, 12234-12237 (1994)
  • Y. Saad & K. Wu, "Parallel SPARSe matrix LIBrary (PSPARSLIB): the iterative solvers module", (1994)

1993

  • J. R. Chelikowsky, N. Troullier, K. Wu & Y. Saad, "Algorithms for predicting properties of real materials on high-performance computers", (1993)
  • W. Ferng, S. Petiton & K. Wu, "Basic sparse computations on data parallel computers", Proceedings of Sixth SIAM Conference on Parallel Processing for Scientific Computing, 462-266 (1993)
  • S. Petiton, Y. Saad, K. Wu & W. Ferng, "Basic sparse matrix computations on the CM-5", International Journal of Modern Physics C, 4, (1993)
  • Y. Saad, K. Wu & S. Petiton, "Sparse matrix computations on the CM-5", Proceedings of Sixth SIAM Conference on Parallel Processing for Scientific Computing, 414-420 (1993)
  • K. Wu & Y. Saad, "Performance of the CM-5 message passing primitives", Proceedings of Sixth SIAM Conference on Parallel Processing for Scientific Computing, 937-942 (1993)
  • K. Wu, R. Savit & W. Brock, "Statistical tests for deterministic effects in broad band time series", Physica D, 69, 172-188 (1993)

1992

  • W. Ferng, K. Wu, S. Petiton & Y. Saad, "Basic sparse matrix computations on massively parallel computers", (1992)
  • K. Wu, "Stability of midpoint methods on second order ODEs", (1992)