Publications

Submitted

[fg-2588] Chen, W., R. F. da Silva, E. Deelman, and R. Sakellariou, "Balanced Task Clustering in Scientific Workflows", The 9th IEEE International Conference on e-Science (eScience 2013), to appear, Beijing, China, Oct 23-25, 2013, Submitted.  Download: balance.pdf (513.81 KB)

2014

[fg-2820] Smith, W., and S. Smallen, "Building an Information System for a Distributed Testbed", the 2014 Annual ConferenceProceedings of the 2014 Annual Conference on Extreme Science and Engineering Discovery Environment - XSEDE '14, Atlanta, GA, USANew York, New York, USA, ACM Press, pp. 1 - 8, 2014.
[fg-2801] Lin, Z., M. M. Zachariah, L. Marett, R. W. Hughen, R. W. Teichert, G. P. Concepcion, M. G. Haygood, B. M. Olivera, A. R. Light, and E. W. Schmidt, "Griseorhodins D–F, Neuroactive Intermediates and End Products of Post-PKS Tailoring Modification in Griseorhodin Biosynthesis", Journal of Natural Products, vol. 77, issue 5, pp. 1224 - 1230, 05/2014.
[fg-2833] de Silva, R. F., W. Chen, G. Juve, K. vahi, and E. Deelman, "Community Resources for Enabling Research in Distributed Scientific Workflows", the 10th IEEE International Conference on eScience 2014 (eScience 2014), Guaruja, SP, Brazil, Oct 20-24, 2014.  Download: communityresources-weiweichen.pdf (421.05 KB)

2013

[fg-2307] Bosin, A., "A SOA-based model for the integrated provisioning of cloud and grid resources", Advances in Software Engineering, vol. 2013, 2013. Abstract
[fg-2736] Nelson, J., "Analyzing PAPI Performance on Virtual Machines", VMware Technical Journal, vol. Winter 2013, 2013.
[Marathe:2013:CSH:2493123.2462919] Marathe, A., R. Harris, D. K. Lowenthal, B. R. de Supinski, B. Rountree, M. Schulz, and X. Yuan, "A comparative study of high-performance computing on the cloud", Proceedings of the 22nd international symposium on High-performance parallel and distributed computing, New York, NY, USA, ACM, pp. 239–250, 2013.  Download: cloud-final.pdf (194.15 KB)
[Kwan:2013hy] Kwan, J. C., and E. W. Schmidt, "Bacterial endosymbiosis in a chordate host: long-term co-evolution and conservation of secondary metabolism.", PloS One, vol. 8, no. 12, pp. e80822, 2013.
[10.1371/journal.pcbi.1002950] Larsson, P., and P. M. Kasson, "Lipid Tail Protrusion in Simulations Predicts Fusogenic Activity of Influenza Fusion Peptide Mutants and Conformational Models", PLoS Comput Biol, vol. 9, no. 3: Public Library of Science, pp. e1002950, 03, 2013. Abstract  Download: journal.pcbi_.1002950.pdf (1022.66 KB)
[fg-2034] Fox, G., G. von Laszewski, J. Diaz, K. Keahey, J. Fortes, R. Figueiredo, S. Smallen, W. Smith, and A. Grimshaw, "FutureGrid - a reconfigurable testbed for Cloud, HPC, and Grid Computing", Contemporary High Performance Computing: From Petascale toward Exascale: Chapman & Hall, 04/2013.  Download: vonLaszewski-fg-bookchapter.pdf (1.6 MB)
[fg-2719] Cunha, L., R. Montiel, M. Novo, P. Orozco-terWengel, A. Rodrigues, A. J. Morgan, and P. Kille, "Living on a volcano’s edge: genetic isolation of an extremophile terrestrial metazoan", Heredtiy, 09/2013.
[fg-2695] S, S., and A. Basu, "Performance of Eucalyptus and OpenStack Clouds on FutureGrid", International Journal of Computer Applications, vol. 80, issue 13, pp. 31 - 37, 10/2013.
[fg-2721] Canonico, M., A. Lombado, and I. Lovotti, "CloudTUI: a multi Cloud platform Text User Interface", International conference on Perfomance Evaluation Methodologies and Tools, Turin, Italy, 12/2013.  Download: cloudtui.pdf (202.24 KB)
[fg-2539] Yang, J., S. Tilak, and T. Rosing, "An Interactive Context-aware Power Management Technique for Optimizing Sensor Network Lifetime", Sixth IEEE International Conference on Intelligent Sensors, Sensor Networks and Information Processing (ISSNIP), 2013.
[fg-2549] Yang, J., S. Tilak, and T. S. Rosing, "An Interactive Context-aware Power Management Technique for Optimizing Sensor Network Lifetime", Sixth IEEE International Conference on Intelligent Sensors, Sensor Networks and Information Processing (ISSNIP), 2013.  Download: ISSNIP-CR.pdf (810.34 KB)
[fg-2603] Bosin, A., "Resource Provisioning for e-Science Environments", International Journal of Grid and High Performance Computing, vol. 5, issue 1: IGI Global, pp. 1 - 24, 31/2013. Abstract
[fg-2589] Chen, W., E. Deelman, and R. Sakellariou, "Imbalance Optimization in Scientific Workflows", International Conference on Supercomputing (ICS 2013) , Eugene, Oregon, Jun 10-14, 2013.  Download: balancing-ics13.pdf (116.16 KB)
[fg-2550] Tilak, S., "Real-World Deployments of Participatory Sensing Applications: Current Trends and Future Directions", ISRN Sensor Networks, vol. 2013, March 17, 2013. Abstract  Download: 583165.pdf (1.58 MB)
[fg-2762] Prathibha, S., "Monitoring the Performance Analysis Of Executing Workflow applications with different resource types in a cloud environment,", 1st International Symposium on Big Data and Cloud Computing Challenges(ISBCC-2014), VIT University, Chennai, India, March 27-28,2013.  Download: soma.pdf (408.18 KB)
[fg-2526] Fox, G., "Robust Scalable Visualized Clustering in Vector and non Vector Semimetric Spaces", Parallel Processing Letters, May 17, 2013.

2012

[ResStealAndBASE] Guo, Z., G. Fox, M. Zhou, and Y. Ruan, "Improving Resource Utilization in MapReduce", the 2012 IEEE International Conference on Cluster Computing, Beijing, China, IEEE Computer Society, 2012.
[fg-2392] Kwan, J. C., M. S. Donia, A. W. Han, E. Hirose, M. G. Haygood, and E. W. Schmidt, "Genome streamlining and chemical defense in a coral reef symbiosis", Proceedings of the National Academy of Sciences, 2012.
[ruan2012dacidr] Ruan, Y., S. Ekanayake, M. Rho, H. Tang, S. - H. Bae, J. Qiu, and G. Fox, "DACIDR: deterministic annealed clustering with interpolative dimension reduction using a large collection of 16S rRNA sequences", Proceedings of the ACM Conference on Bioinformatics, Computational Biology and Biomedicine: ACM, pp. 329–336, 2012.
[Guo:2012:IDL:2287016.2287022] Guo, Z., G. Fox, and M. Zhou, "Investigation of data locality and fairness in MapReduce", Proceedings of third international workshop on MapReduce and its Applications Date, Delft, The Netherlands, ACM, pp. 25–32, 2012.
[las12fg-bookchapter] Fox, G. C., G. von Laszewski, J. Diaz, K. Keahey, J. Fortes, R. Figueiredo, S. Smallen, W. Smith, and A. Grimshaw, Contemporary {HPC} Architectures, , draft, 2012.
[fg-2047] Wolinsky, D. I., P. Chuchaisri, K. Lee, and R. J. Figueiredo, "Experiences with self-organizing, decentralized grids using the grid appliance", Cluster Computing, 01/2012. Abstract
[fg-1934] Furlani, T. R., M. D. Jones, S. M. Gallo, A. E. Bruno, C. - D. Lu, A. Ghadersohi, R. J. Gentner, A. Patra, R. L. DeLeon, G. von Laszewski, et al., "Performance metrics and auditing framework using application kernels for high performance computer systems", Concurrency Experience and Practice, issue to be published, 05/2012. Abstract
[fg-261-05-2012-a] Guo, Z., G. Fox, and M. Zhou, "Investigation of Data Locality in MapReduce", Proceedings of the 2012 12th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing (ccgrid 2012), Ottawa, Canada, IEEE Computer Society, pp. 419–426, 05/2012. Abstract
[fg-1469] Chen, W., and E. Deelman, "Integration of Workflow Partitioning and Resource Provisioning", The 12th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing (CCGrid 2012), Ottawa, Canada, 05/2012.
[fg-1892] William, T., D. K. Berry, and R. Henschel, "Analysis and Optimization of a Molecular Dynamics Code using PAPI and the Vampir Toolchain", Cray User Group 2012, Stuttgart, CUG, 05/2012. Abstract  Download: 2012-CUG-pap142.pdf (2.82 MB); 2012-CUG-pap142-presentation.pdf (10.5 MB)
[fg-1913] Yin, W., Y. Simmhan, and V. Prasanna, "Scalable Regression Tree Learning on Hadoop using OpenPlanet", International Workshop on MapReduce and its Applications (MAPREDUCE), 06/2012.
[fg-1933] von Laszewski, G., J. Diaz, F. Wang, and G. Fox, "Comparison of Multiple Cloud Frameworks", IEEE CLOUD 2012, 5th International Conference on Cloud Computing, Honolulu, Hawaii, IEEE, 06/2012.  Download: laszewski-IEEECloud2012_id-4803.pdf (603.3 KB)
[fg-1916] Peluso, S., P. Ruivo, P. Romano, F. Quaglia, and L. Rodrigues, "When Scalability Meets Consistency: Genuine Multiversion Update-Serializable Partial Data Replication", The 32nd International Conference on Distributed Computing Systems, Macau, China, IEEE, 06/2012.
[fg-1909] Lee, K., D. I. Wolinsky, and R. Figueiredo, "PonD : Dynamic Creation of HTC Pool on Demand Using a Decentralized Resource Discovery System", Proceedings of the 21st international symposium on High Performance Distributed Computing (HPDC), Delft, the Netherlands, ACM, 06/2012.
[fg-1932] Diaz, J., G. von Laszewski, F. Wang, and G. Fox, "Abstract Image Management and Universal Image Registration for Cloud and HPC Infrastructures", IEEE CLOUD 2012, 5th International Conference on Cloud Computing, Honolulu, Hawaii, IEEE, 06/2012.  Download: jdiaz-IEEECloud2012_id-4656.pdf (555.62 KB); _ImageManagement_slides.ppt (4.12 MB)
[fg-2441] Mitchell, J. E., G. Fox, R. Figueiredo, B. A. O'Leary, L. Hayden, S. Jha, M. Canonico, and J. Qiu, "FutureGrid education: Using case studies to develop a curriculum for communicating parallel and distributed computing concepts", XSEDE12, 07/2012.  Download: FutureGrid_Education_pdf.pdf (3.39 MB)
[fg-2045] von Laszewski, G., H. Lee, J. Diaz, F. Wang, K. Tanaka, S. Karavinkoppa, G. C. Fox, and T. Furlani, "Design of a Dynamic Provisioning System for a Federated Cloud and Bare-metal Environment", Workshop on Cloud Services, Federation, and the 8th Open Cirrus Summit, San Jose, CA, IEEE, 09/2012.  Download: vonLaszewski-federated-cloud-07-14-2012.pdf (1.06 MB)
[fg-2202] Chen, W., and E. Deelman, "WorkflowSim: A Toolkit for Simulating Scientific Workflows in Distributed Environments", The 8th IEEE International Conference on eScience, Chicago, IEEE, 10/2012. Abstract
[fg-2231] Bates, A., B. Mood, J. Pletcher, H. Pruse, M. Valafar, and K. Butler, "Detecting Co-Residency with Active Traffic Analysis Techniques", ACM Cloud Computer Security Workshop, Raleigh, NC, ACM, 10/2012.
[fg-2217] Lee, K., and R. J. Figueiredo, "MapReduce on Opportunistic Resources Leveraging Resource Availability", IEEE CloudCom 2012, Taipei, Taiwan, 12/2012.
[fg-1923] Bosin, A., M. Dessalvi, G. M. Mereu, and G. Serra, "Enhancing Eucalyptus Community Cloud", Intelligent Information Management, vol. 04, issue 03, pp. 52 - 59, 2012. Abstract
[fg-2636] Chen, W., and E. Deelman, "Fault Tolerant Clustering in Scientific Workflows", IEEE International Workshop on Scientific Workflows (SWF), in conjunction with 8th IEEE World Congress on Servicess, Honolulu, Hawaii, Jun 2012.  Download: ft-final.pdf (998.71 KB)
[fg-2208] Lee, K., T. Choi, P. O. Boykin, and R. J. Figueiredo, "MatchTree: Flexible, Scalable, and Fault-tolerant Wide-area Resource Discovery with Distributed Matchmaking and Aggregation", Future Generation Computer Systems, vol. to be published , issue to be published , to be published , 2012.

2011

[fg-1975] Sehgal, S., M. Erdelyi, A. Merzky, and S. Jha, "Understanding application-level interoperability: Scaling-out MapReduce over high-performance grids and clouds", Future Generation Computer Systems, vol. 27, issue 5, 2011.
[ inria-00625203] Matsunaga, A., P. Riteau, M. Tsugawa, and J. Fortes, "Crosscloud Computing", High Performance Computing: From Grids and Clouds to Exascale, vol. 20: IOS Press, pp. 94-108, 2011. Abstract
[Loffler:2011:UTT:2016741.2016800] Löffler, F., G. Allen, W. Benger, A. Hutanu, S. Jha, and E. Schnetter, "Using the TeraGrid to teach scientific computing", Proceedings of the 2011 TeraGrid Conference: Extreme Digital Discovery, New York, NY, USA, ACM, pp. 55:1–55:7, 2011. Abstract
[fg-2266] Funika, W., and P. Koperek, "Scalable Resource Provisioning in the Cloud Using Business Metrics", Advanced Engineering Computing and Applications in Sciences (ADVCOMP'2011), 20-25 November 2011, Lisbon, Portugal, 2011, 2011.
[Vockler:2011:EUC:1996109.1996114] Vöckler, J. - S., G. Juve, E. Deelman, M. Rynge, and B. Berriman, "Experiences using cloud computing for a scientific workflow application", Proceedings of the 2nd international workshop on Scientific cloud computing, New York, NY, USA, ACM, pp. 15–24, 2011.
[Wolinsky:2011:ESD:1996130.1996156] Wolinsky, D. I., and R. Figueiredo, "Experiences with self-organizing, decentralized grids using the grid appliance", Proceedings of the 20th international symposium on High performance distributed computing, New York, NY, USA, ACM, pp. 183–194, 2011. Abstract
[Juve:2011:WVC:1996130.1996173] Juve, G., and E. Deelman, "Wrangler: virtual cluster provisioning for the cloud", Proceedings of the 20th international symposium on High performance distributed computing, New York, NY, USA, ACM, pp. 277–278, 2011.
[fg-2305] Naab, J., "Overview of FutureGrid An Experimental Grid Cloud and HPC Test Bed", Overview-of-FutureGrid-An-Experimental-Grid-Cloud-and-HPC-Test-Bed, 2011.
[DBLP:journals/procedia/AllenBHJLS11] Allen, G., W. Benger, A. Hutanu, S. Jha, F. Löffler, and E. Schnetter, "A practical and comprehensive graduate course preparing students for research involving scientific computing", Procedia CS, vol. 4, pp. 1927-1936, 2011.
[fg-1978] Kim, J., S. Maddineni, and S. Jha, "Building Gateways for Life-Science Applications using the Dynamic Application Runtime Environment (DARE) Framework", The 2011 TeraGrid Conference: Extreme Digital Discovery, 2011.
[Allen20111927] Allen, G., W. Benger, A. Hutanu, S. Jha, F. Löffler, and E. Schnetter, "A practical and comprehensive graduate course preparing students for research involving scientific computing", Procedia Computer Science, vol. 4, pp. 1927 - 1936, 2011. Abstract
[fg-1014] Diaz, J., A. J. Younge, G. von Laszewski, F. Wang, and G. C. Fox, "Grappling Cloud Infrastructure Services with a Generic Image Repository", The Third workshop on Cloud Computing and Its Applications (CCA11), Argonne, Il, 04/2011.
[fg-1013] von Laszewski, G., L. Wang, F. Wang, G. C. Fox, and G. K. Mahinthakumar, "Threat Detection in Urban Water Distribution Systems with Simulations Conducted in Grids and Clouds", The Second International Conference on Parallel, Distributed, Grid and Cloud Computing for Engineering, Ajaccio - Corsica - France, Civil-Comp Press, 04/2011.
[fg-1979] Kim, J., S. Maddineni, and S. Jha, "Characterizing Deep Sequencing Analytics using BFAST: Towards a Scalable Distributed Architecture for Next-Generation Sequencing Data", The Second International Workshop on Emerging Computational Methods for the Life Sciences, 06/2011.
[fg-1057] Vöckler, J. - S., E. Deelman, M. Rynge, and G. B. Berriman, "Experiences Using Cloud Computing for a Scientific Workflow Application", Workshop on Scientific Cloud Computing (ScienceCloud) , 06/2011.
[fg-1196] Figueiredo, R. J., D. I. Wolinsky, and P. Chuchaisri, "Educational Virtual Clusters for On-demand MPI/Hadoop/Condor in FutureGrid [extended abstract]", TeraGrid Conference, Salt Lake City, Utah, 07/2011.  Download: tg11_extended_abstract_figueiredo.doc (41.5 KB)
[Loffler:2011:UTT:2016741.2016800] Löffler, F., G. Allen, W. Benger, A. Hutanu, S. Jha, and E. Schnetter, "Using the TeraGrid to teach scientific computing", Proceedings of the 2011 TeraGrid Conference: Extreme Digital Discovery, New York, NY, USA, ACM, pp. 55:1–55:7, 07/2011.
[fg-1015] Younge, A. J., R. Henschel, J. Brown, G. von Laszewski, J. Qiu, and G. C. Fox, "Analysis of Virtualization Technologies for High Performance Computing Environments", The 4th International Conference on Cloud Computing (IEEE CLOUD 2011), Washington, DC, IEEE, 07/2011.
[fg-1316] Klinginsmith, J., M. Mahoui, and Y. M. Wu, "Towards Reproducible eScience in the Cloud", IEEE International Conference on Cloud Computing Technology and Science, 07/2011.
[fg-1155] von Laszewski, G., J. Diaz, F. Wang, A. J. Younge, A. Kulshrestha, and G. Fox, "Towards Generic FutureGrid Image Management", TG11: ACM, 07/2011.  Download: TG11-image-repo-overview.docx (178.83 KB); fg-repo-generator-TG11.pptx (1.76 MB)
[fg-1232] Luszczek, P., E. Meek, S. Moore, D. Terpstra, V. M. Weaver, and J. Dongarra, "Evaluation of the HPC Challenge Benchmarks in Virtualized Environments", VHPC 2011, 6th Workshop on Virtualization in High-Performance Cloud Computing, Bordeaux, France, 08/2011.  Download: Evaluartion of the HPC Challenge Benchmarks in Virtualized Environments.pdf (229.51 KB)
[fg-1367] Chen, W., and E. Deelman, "Partitioning and Scheduling Workflows across Multiple Sites with Storage Constraints", 9th International Conference on Parallel Processing and Applied Mathmatics, Torun, Poland, 09/2011.
[fg-1280] von Laszewski, G., J. Diaz, F. Wang, G. Fox, and A. J. Younge, RAIN: A system to Dynamically Generate & Provision Images on Bare Metal by Application Users, : ISC Cloud’11, Mannheim, Germany, 09/2011.
[fg-1366] Chen, W., and E. Deelman, "Workflow Overhead Analysis and Optimizations", 6th Workshop on Workflows in Support of Large-Scale Science (WORKS 11), Seattle, WA, 11/2011.
[fg-1295] Diaz, J., G. von Laszewski, F. Wang, A. J. Younge, and G. C. Fox, "FutureGrid Image Repository: A Generic Catalog and Storage System for Heterogeneous Virtual Machine Images", Third IEEE International Conference on Coud Computing Technology and Science (CloudCom2011), Athens, Greece, IEEE, 12/2011.  Download: jdiazCloudCom2011.pdf (937.38 KB); ImageRepo_CloudCom2011.pptx (2.27 MB)
[fg-1361] Klinginsmith, J., M. Mahoui, and Y. M. Wu, "Towards Reproducible eScience in the Cloud", CloudCom2011, Athens, Greece, IEEE, 12/2011.
[6133211] Juve, G., and E. Deelman, "Automating Application Deployment in Infrastructure Clouds", Cloud Computing Technology and Science (CloudCom), 2011 IEEE Third International Conference on, pp. 658 -665, 29 2011-dec. 1. Abstract
[fg-2265] Funika, W., and P. Koperek, "Automatic Scaling in Cloud Computing Environments Based on Business Metrics", Conference on Parallel Programming and Applied Mathematics (PPAM'2011), 11-14 September 2011, Torun, Poland, LNCS, Springer, 2012 : NA, NA, 2011.
[5719579] Chen, D., L. Wang, G. Ouyang, and X. Li, "Massively Parallel Neural Signal Processing on a Many-Core Platform", Computing in Science Engineering, vol. 13, no. 6, pp. 42 -51, nov.-dec., 2011.
[fg-2292] Klinginsmith, J., M. Mahoui, and Y. M. Wu, "Towards Reproducible eScience in the Cloud", Cloud Computing Technology and Science (CloudCom), 2011 IEEE Third International Conference on, Athens, pp. 582-586, November, 2011. Abstract

2010

[fg-1976] Luckow, A., L. Lacinski, and S. Jha, "SAGA BigJob: An Extensible and Interoperable Pilot-Job Abstraction for Distributed Applications and Systems", 10th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing, 2010.
[fg-1977] Luckow, A., and S. Jha, "Abstractions for Loosely-Coupled and Ensemble-Based Simulations on Azure", IEEE International Conference on Cloud Computing Technology and Science, 2010.
[Chen] Chen, D., L. Wang, S. Wang, M. Xiong, G. von Laszewski, and X. Li, "Enabling Energy-Efficient Analysis of Massive Neural Signals Using GPGPU", Proceedings of the 2010 IEEE/ACM Int'l Conference on Green Computing and Communications & Int'l Conference on Cyber, Physical and Social Computing, Washington, DC, USA, IEEE Computer Society, pp. 147–154, 2010.
[fg-171] von Laszewski, G., G. C. Fox, F. Wang, A. J. Younge, A. Kulshrestha, G. G. Pike, W. Smith, J. Voeckler, R. J. Figueiredo, J. Fortes, et al., "Design of the FutureGrid Experiment Management Framework", GCE2010 at SC10, New Orleans, IEEE, 11/2010.