• B. J. Burke, S. E. Kruger, C. C. Hegna, P. Zhu, P. B. Snyder, C. R. Sovinec, and E. C. Howell, "Edge localized linear ideal magnetohydrodynamic instability studies in an extended-magnetohydrodynamic code", AIP, Physics of Plasmas, Volume 17, Issue 3, 032103 (2010); doi:10.1063/1.3309732

• John R. Cary, Ammar Hakim, Mahmood Miah, Scott Kruger, Alexander Pletzer, Svetlana Shasharina, Srinath Vadlamani, Ronald Cohen, Tom Epperly, Tom Rognlien, Alexei Pankin, Richard Groebner, Satish Balay, Lois McInnes, Hong Zhang, "FACETS – a Framework for Parallel Coupling of Fusion Components," pp.435-442, 2010 18th Euromicro Conference on Parallel, Distributed and Network-based Processing, 2010.

• D. A. Dimitrov, R. Busby, J. R. Cary, I. Ben-Zvi, J. Smedley, X. Chang, T. Rao, J. Keister, and E. Miller, "Simulations of Charge Gain and Collection Efficiency from Diamond Amplifiers". In P. Bergonzo et al., editor, Diamond Electronics and Bioelectronics — Fundamentals to Applications III, volume 1203, Paper #: 1203-J17-43 of Mater. Res. Soc. Symp. Proc., Warrendale, PA, 2010. DOI: 10.1557/PROC-1203-J17-43

• "Modeling rf breakdown arcs", Zeke Insepov, Jim Norem, Dazhang Huang, Sudhakar Mahalingam, Seth Veitzer

• Atomistic self-sputtering mechanisms of rf breakdown in high-gradient linacs Z. Insepov, J. Norem and S. Veitzer, Nuclear Instruments and Methods in Physics Research Section B: Beam Interactions with Materials and Atoms, doi:10.1016/j.nimb.2009.12.016

• Phys. Plasmas 17, 012502 (2010); doi:10.1063/1.3276740 (/12 pages/),"Calculating electron cyclotron current drive stabilization of resistive tearing modes in a nonlinear magnetohydrodynamic model", Thomas G. Jenkins, Scott E. Kruger, C. C. Hegna, Dalton D. Schnack, and Carl R. Sovinec.

• Alexandre Likhanskii, "Particle-in-Cell Modeling of the Pulsed DBD Plasma Actuator", paper AIAA-2010-5101, 40th Fluid Dynamics Conference and Exhibit, Chicago, Illinois, June 28 - July 1, 2010.

• Alexandre Likhanskii, Mikhail Shneider, Dmitry Opaits, Sergey Macheret, Richard Miles, "Limitations of the DBD effects on the external flow", paper AIAA-2010-470, 48th AIAA Aerospace Sciences Meeting Including the New Horizons Forum and Aerospace Exposition, Orlando, Florida, Jan. 4-7, 2010.

• S. Mahalingam, and J. Menart, "Particle-Based Plasma Simulations for an Ion Engine Discharge Chamber", Journal of Propulsion and Power, Vol. 26, no. 4, pages 673-688, Jul-Aug, 2010.

• A V Sobol, D L Bruhwiler, G I Bell, A Fedotov, and V Litvinenko, "Numerical calculation of dynamical friction in electron cooling systems, including magnetic field perturbations and finite time effects, "New Journal of Physics", accepted 20 August 2010.

• J. Qiang, R.D. Ryne, M. Venturini, A.A. Zholents, and I.V. Pogorelov, “High Resolution Simulation of Beam Dynamics in Electron Linacs for X-Ray Free Electron Lasers”, Phys. Rev. ST Accel. Beams 12, 100702 (2009).

• Towards SVOPME: A Scalable Virtual Organization Privilege Management Environment. Nanbor Wang, Gabriele Garzoglio, Balamurali Ananthan, Steven Timm, Tanya Levshina, International Symposium on Grid Computing, 5-12 March 2010, Taipei, Taiwan.

• T.M. Austin, J.R. Cary, D.N. Smithe, C. Nieter, "Alternating Direction Implicit Methods for FDTD using the Dey-Mittra Embedded Boundary Method", accepted for publication in the Open Plasma Physics Journal.

• T.M. Austin, J.R. Cary, S. Ovtchinnikov, G. R. Werner, L. Bellantoni, "Validation of frequency and mode extraction calculations from time-domain simulations of accelerator cavities", http://arxiv.org/abs/1005.2531.

• T.M. Austin, J.R. Cary, G. Werner, L. Bellantoni, "Validation of Broadly Filtered Diagonalization Method for Extracting Frequencies and Modes from High Performance Computations", J. of Physics: Conference Series, 180, 012003, 2009.

• R. Busby, D. A. Dimitrov, J. R. Cary, I. Ben-Zvi, X. Chang, J. Keister, E. Muller, T. Rao, J. Smedley, and Q. Wu, 3D Simulations of Secondary Electron Generation and Transport in a Diamond Electron Beam Amplifier, in the Proceedings of the PAC09 Particle Accelerator Conference, IEEE (2009).

• J. A. Carlsson and J. R. Cary, “The hyper-secant Jacobian approximation,” J. Comp. Phys., in review (2009).

• J. R. Cary and A. J. Brizard, “Hamiltonian Theory of Guiding-Center Motion,” Rev. Mod. Phys. 81, 693 (2009); DOI:10.1103/RevModPhys.81.693.

• J R Cary, J Candy, J Cobb, R H Cohen, T Epperly, D J Estep, S Krasheninnikov, A D Malony, D C McCune, L McInnes, A Pankin, S Balay, J A Carlsson, M R Fahey, R J Groebner, A H Hakim, S E Kruger, M Miah, A Pletzer, S Shasharina, S Vadlamani, D Wade-Stein, T D Rognlien, A Morris, S Shende, G W Hammett, K Indireshkumar, A Yu Pigarov and H Zhang, "Concurrent, parallel, multiphysics coupling in the FACETS project," SciDAC 2009, J. Physics: Conf. Series 180, 012056 (2009).

• Choi, Y., Boyd, I. D., Keidar, M., "Effect of a Magnetic Field in Simulating the Plume-Field of an Anode Layer Hall Thruster", Journal of Applied Physics, Volume 105, Issue 1, pp. 013303 (2009).

• D.L. Bruhwiler, J.R. Cary, B. Cowan, K. Paul, C.G.R. Geddes, P.J. Mullowney, P. Messmer, E. Esarey, E. Cormier-Michel, W.P. Leemans and J.-L. Vay, “New Developments in the Simulation of Advanced Accelerator Concepts,” 13th Adv. Accel. Concepts Workshop, Eds. C.B. Schroeder, W.P. Leemans and E. Esarey, AIP Conf. Proc. 1086, p. 29 (AIP, Melville, 2009).

• E. Cormier-Michel, C.G.R. Geddes, E. Esarey, C.B. Schroeder, Cs. Toth, D.L. Bruhwiler, K. Paul, B. Cowan and W.P. Leemans, “Scaled simulations of a 10 GeV accelerator,” 13th Adv. Accel. Concepts Workshop, Eds. C.B. Schroeder, W.P. Leemans and E. Esarey, AIP Conf. Proc. 1086, p. 297 (AIP, Melville, 2009).

• B. Cowan, D.L. Bruhwiler, P. Messmer, K. Paul, C.G.R. Geddes, E. Esarey and E. Cormier-Michel, “Laser wakefield simulation using a speed-of-light frame envelope model,” 13th Adv. Accel. Concepts Workshop, Eds. C.B. Schroeder, W.P. Leemans and E. Esarey, AIP Conf. Proc. 1086, p. 309 (AIP, Melville, 2009).

• S. Di Mitri et al., “Design and Simulation Challenges for FERMI@elettra,” Nuclear Instruments and Methods in Physics Research A 608, 19 (2009).

• D. A. Dimitrov, R. Busby, J. R. Cary, I. Ben-Zvi, X. Chang, J. Keister, E. Muller, T. Rao, J. Smedley, and Q. Wu, Investigation of Charge Gain in Diamond Electron Beam Amplifiers via 3D Simulations, in the Proceedings of the PAC09 Particle Accelerator Conference, IEEE (2009).

• D. A. Dimitrov, R. Pundaleeka, A. Qasem, and J. Hefin, ISENS: A system for information integration, exploration, and querying of multi-ontology data sources. International Conference on Semantic Computing, pp. 330–335, IEEE Computer Society 2009.

• D. A. Dimitrov and I. Pogorelov, Path Integral Option Pricing on Nvidia GPUs, poster presentation at the SIAM Annual Meeting '09, July 2009, Denver. (Presentation slides.)

• "SVOPME: A Scalable Virtual Organization Privileges Management Environment" Gabriele Garzoglio, Nanbor Wang, Igor Sfiligoi, Balamurali Ananthan, International Conference on Computing in High Energy and Nuclear Physics (CHEP’09 21-27 Mar 2009, Prague, Czech Republic), Journal of Physics: Conference Series.

• C.G.R. Geddes, E. Cormier-Michel, E. Esarey, C.B. Schroeder, W.P. Leemans, D.L. Bruhwiler, B. Cowan, C. Nieter, K. Paul and J.R. Cary, “Scaled Simulation Design of High Quality Laser Wakefiled Accelerator Stages,” Proc. Particle Accelerator Conference (Vancouver, 2009), paper WE6RFP075.

• C.G.R. Geddes, E. Cormier-Michel, E. Esarey, K. Nakamura, G.R. Plateau, C.B. Schroeder, Cs. Toth, D.L. Bruhwiler, J.R. Cary, W.P. Leemans, “Plasma gradient controlled injection and postacceleration of high quality electron bunches,” 13th Adv. Accel. Concepts Workshop, Eds. C.B. Schroeder, W.P. Leemans and E. Esarey, AIP Conf. Proc. 1086, p. 12 (AIP, Melville, 2009).

• C.G.R. Geddes, E. Cormier-Michel, E.H. Esarey, C.B. Schroeder, J-L. Vay, W.P. Leemans, and the LOASIS team, LBNL; D.L. Bruhwiler, J.R. Cary, B. Cowan, M. Durant, P. Hamill, P. Messmer, P. Mullowney, C. Nieter, K. Paul, S. Shasharina, S. Veitzer, and the VORPAL development team, Tech-X; G. Weber, O. Rubel, D. Ushizima, Prabhat, and E.W. Bethel, VACET; and J. Wu, SciDAC Scientific Data Management Center, “Laser Plasma Particle Accelerators: Large Fields for Smaller Facility Sources,” SciDAC Review 13, p. 13 (2009); http://www.scidacreview.org/0903/

• Paul Hamill, David Alexander, Svetlana Shasharina, "Web Service Validation Enabling Test-Driven Development of Service-Oriented Applications," services, pp.467-470, 2009 Congress on Services - I, July 2009.

• W.P. Leemans, E. Esarey, C.G.R. Geddes, Cs. Toth, C.B. Schroeder, K. Nakamura, A.J. Gonsalves, D. Panasenko, E. Cormier-Michel, G.R. Plateau, C. Lin, D.L. Bruhwiler and J.R. Cary, “Progress on laser plasma accelerator development using transversely and longitudinally shaped plasmas,” Comptes Rendus Physique 10, p. 130 (2009).

• Sudhakar Mahalingam, Chet Nieter, John Loverich, David Smithe, and Peter Stoltz. "Space Charge Limited Currents Calculations in Coaxial Cylindrical Diodes Using Particle-in-Cell Simulations", The Open Plasma Physics Journal, vol 2, 63-69, 2009.

• Stephen D Miller, Kenneth W Herwig, Shelly Ren, Sudharshan S Vazhkudai, Pete R Jemian, Steffen Luitz, Andrei A Salnikov, Igor Gaponenko, Thomas Proffen, Paul Lewis and Mark L Green, "Data management and its role in delivering science at DOE BES user facilities – Past, Present, and Future", SciDAC 2009, J. Physics: Conf. Series 180, 012049 (2009).

• C. Nieter, J. R. Cary, G. R. Werner, D. N. Smithe, and P. H. Stoltz, “Application of Dey-Mittra conformal boundary algorithm to 3D electromagnetic modeling.” J. Comp. Phys. 228 (2009) 7902-7916.

• J. Norem, Z. Insepov, D. Huang, S. Mahalingam, and S. Veitzer, "The problem of rf gradient limits", Proc. of the 11th International Workshop on Neutrino Factories, Superbeams and Beta Beams (NuFact09), 2009.

• K. Paul, D.L. Bruhwiler, B. Cowan, J.R. Cary, C. Huang, F.S. Tsung, W.B. Mori, E. Cormier-Michel, C.G.R. Geddes, E. Esarey, S. Martins, R.A. Fonseca and L.O. Silva, “Benchmarking the codes VORPAL, OSIRIS and QuickPIC with Laser Wakefield Acceleration Simulations,” 13th Adv. Accel. Concepts Workshop, Eds. C.B. Schroeder, W.P. Leemans and E. Esarey, AIP Conf. Proc. 1086, p. 315 (AIP, Melville, 2009).

• K. H. Pae, I. W. Choi, S. J. Hahn, J. R. Cary, and J. Lee, “Proposed hole-target for improving maximum proton energy driven by a short intense laser pulse”, Phys. Plasma, 16, 073106 (2009); DOI: 10.1063/1.3174434.

• K. Paul, D. A. Dimitrov, R. Busby, D. L. Bruhwiler, D. Smithe, J. R. Cary, J. Kewisch, D. Kayran, R. Calaga, and I. Ben-Zvi, Half-Cell RF Gun Simulations with the Electromagnetic Particle-in-Cell Code VORPAL, in ADVANCED ACCELERATOR CONCEPTS: Proceedings of the Thirteenth Advanced Accelerator Concepts Workshop, vol. 1086, pp. 334-339, Editors: C. B. Schroeder, W. Leemans, and E. Esarey, AIP, 2009.

• Svetlana Shasharina, John R. Cary, Seth Veitzer, Paul Hamill, Scott Kruger, Marc Durant, and David A. Alexander, VizSchema – Visualization Interface for Scientific Data, IADIS International Conference, Computer Graphics, Visualization, Computer Vision and Image Processing, 2009, page 49.

VizSchema Presentation slides (PDF)

• D. N. Smithe, J. R. Cary, and J. A. Carlsson, “Divergence preservation in the ADI algorithms for electromagnetics,” Journal of Computational Physics 228 (2009) 7289-7299.

• K. G. Sonnad and J. R. Cary,  "Near equilibrium beam distribution functions for linear and nonlinear periodic focusing systems,” Phys. Rev. ST/AB, submitted (2009).

• Abir Qasem, Dimitre A. Dimitrov, Jeff Heflin, Towards Scalable Information Integration with Instance Coreferences, in the proceedings of International Joint Conferences on Artificial Intelligence (IJCAI09) - Workshop on Information Integration on the Web, Pasadena, July (2009).

• Veitzer, SA, LeBrun, P, Cary, JR, Spentzouris, P, Stoltz, PH, and Amundson, JF, "Computation of Electron Cloud Diagnostics and Mitigation in the Main Injector", J. Phys.: Conf. Ser., 180 012007, doi:10.1088/1742-6596/180/1/012007, 2009.

• G. R Werner, C. A. Bauer, and J. R. Cary,  "Wakefields in Photonic Crystal Cavities," Phys. Rev. ST/AB, accepted (2009).

• C Ng, V Akcelik, A Candel, S Chen, L Ge, A Kabel, Lie-Quan Lee, Z Li, E Prudencio, G Schussman, R Uplenchwar, L Xiao, K Ko, T Austin, J R Cary, S Ovtchinnikov, D N Smith, G R Werner and L Bellantoni, “Design and optimization of large accelerator systems through high-fidelity electromagnetic simulations,” J. Physics: Conf. Series 125, 012003 (2008).

• Alexander, D., R. Pundaleeka, S. Tramer, J. Lauret, V. Fine, Facilitating OSG Adoption Through User-Centric Application Monitoring, Open Science Grid All Hands Meeting, 3-4 March 2008.

• Babayev, D. A. , G. I. Bell, U. G. Nuriyev, The bandpass problem: combinatorial optimization and library of problems, Journal of Combinatorial Optimization, 1573-2886, 13 February 2008.

• C. A. Bauer, G. R. Werner, and J. R. Cary, “Optimization of a photonic crystal cavity,” J. Appl. Phys. 4 (105), 053107 (2008); DOI:10.1063/1.2973669.

• Bell, George I., David L. Bruhwiler, Alexei Fedotov, Andrey Sobol, Richard S. Busby, Peter Stoltz, Dan T. Abell, Peter Messmer, Ilan Ben-Zvi and Vladimir Litvinenko. "Simulating the dynamical friction force on ions due to a briefly co-propagating electron beam." Journal of Computational Physics (2008), DOI: 10.1016/j.jcp.2008.06.019.

• David L. Bruhwiler, John R. Cary, Benjamin M. Cowan, Kevin Paul, Cameron G. R. Geddes, Paul J. Mullowney, Peter Messmer, Eric Esarey, Estelle Cormier-Michel, Wim Leemans and Jean-Luc Vay, “New Developments in the Simulation of Advanced Accelerator Concepts,” AIP Conference Proceedings 1086, 29 (Proc. Adv. Accelerator Concepts Workshop, Santa Cruz, CA, 2008).

• J R Cary, J Candy, R H Cohen, S Krasheninnikov, D C McCune, D J Estep, J Larson, A D Malony, A. Pankin, P H Worley, J A Carlsson, A H Hakim, P Hamill, S Kruger, M Miah, S Muzsala, A Pletzer, S Shasharina, D Wade-Stein, N Wang, S. Balay, L McInnes, H Zhang, T Casper, L Diachin, T Epperly, T D Rognlien, M R Fahey, J Cobb, A Morris, S Shende, G W Hammett, K Indireshkumar, D Stotler, A Yu Pigarov, “First results from core-edge parallel composition in the FACETS project,” J. Physics: Conf. Series 125, 012040 (2008).

• J. R. Cary, G. Werner, and D. N. Smithe, “Embedded Boundary Methods for Electromagnetic Simulations,” J. Comp. Phys. in preparation (2008).

• Cowan, Benjamin M. Three-dimensional dielectric photonic crystal structures for laser-driven acceleration. Phys. Rev. ST Accel. Beams 11, 011301 (2008).

• Cetiner, S. O., P. Stoltz, P. Messmer, and J.-L. Cambier. "Dependence of electron peak current on hollow cathode dimensions and seed electron energy in a pseudospark discharge." J. Appl. Phys. 103, 023304 (2008), DOI:10.1063/1.2832507.

• C.G.R. Geddes, D. Bruhwiler, J.R. Cary, E. Cormier-Michel, E. Esarey, C.B. Schroeder, W.A. Isaacs, N. Stinus, P. Messmer, A. Hakim, K. Nakamura, A.J. Gonsalves, D. Panasenko, G.R. Plateau, Cs. Toth, B.Nagler, J. van Tilborg, T. Cowan, S. M. Hooker and W.P. Leemans, "Laser wakefield simulations towards development of compact particle accelerators," J. Physics: Conf. Series, 78, 012021 (2007).

• C G R Geddes, D L Bruhwiler, J R Cary, W B Mori, J-L Vay, S F Martins, T Katsouleas, E Cormier-Michel, W M Fawley, C Huang, X Wang, B Cowan, V K Decyk, E Esarey, R A Fonseca, W Lu, P Messmer, P Mullowney, K Nakamura, K Paul, G R Plateau, C B Schroeder, L O Silva, C Toth, F S Tsung, M Tzoufras, T Antonsen, J Vieira and W P Leemans, “Computational studies and optimization of wakefield accelerators,” J. Physics: Conf. Series 125, 012002 (2008).

• C. G. R. Geddes, E. Cormier-Michel, E. Esarey, K. Nakamura, G. R. Plateau, C. B. Schroeder, Cs. Toth, D. L. Bruhwiler, J. R. Cary, and W. P. Leemans, “Plasma Gradient Controlled Injection and Postacceleration of High-Quality Electron Bunches,” AIP Conference Proceedings 1086, 12 (Proc. Adv. Accelerator Concepts Workshop, Santa Cruz, CA, 2008).

• Green, Mark L.; Alexander, David A.; Pundaleeka, Roopa; Matykiewicz, James. "Automatic Certificate Based Account Generation and Secure AJAX Calls in a Grid Portal", Grid Computing Environments Workshop, 2008. GCE apos;08 Volume , Issue , 12-16 Nov. 2008 Page(s):1 - 8 DOI 10.1109/GCE.2008.4738444

• Hakim, Ammar H. "Extended MHD modelling with the ten-moment equations", Journal of Fusion Energy, vol 27, No 1-2, June 2008.

• Liangliang Ji, Baifei Shen, Xiaomei Zhang, Fengchao Wang,  Zhangyin Jin, Xuemei Li, Meng Wen, and John R. Cary, “Efficient generation of mono-energetic heavy ion bunches with laser induced electrostatic shock,” Phys. Rev. Lett. 101, 164802 (2008); DOI: 10.1103/PhysRevLett.101.164802.

• S. Muszala, T. Epperly, and N. Wang, ''Babel Fortran 2003 Binding for structured data types.'', Springer Lecture Notes in Computer Science. paper accepted, pending publication. PARA 2008-9th International Workshop on State-of-the-Art in Scientific and Parallel Computing. May, 2008. Trondheim, Norway.

• S. Muszala, G. Alaghband, J. Hack and D.A. Connors , ''Natural Load Indices (NLI) in NAMD2 load balancing algorithms.'', Springer Lecture Notes in Computer Science. paper accepted, pending publication. PARA 2008-9th International Workshop on State-of-the-Art in Scientific and Parallel Computing. May, 2008. Trondheim, Norway.

• Karoly Nemeth, Baifei Shen, Yuelin Li, Robert Crowell, Katherine C. Harkay, and John R. Cary, “Laser driven coherent betatron oscillation in a laser-wakefield cavity,” Phys. Rev. Lett. 100, 095002 (2008), doi:10.1103/PhysRevLett.100.095002.

• K. Paul, D. A. Dimitrov, R. Busby, D. L. Bruhwiler, D. Smithe, J. R. Cary, J. Kewisch, D. Kayran, R. Calaga, and I. Ben-Zvi, “Half-Cell RF Gun Simulations with the Electromagnetic Particle-in-Cell Code VORPAL,” AIP Conference Proceedings 1086, 334 (Proc. Adv. Accelerator Concepts Workshop, Santa Cruz, CA, 2008).

• K. Paul, C. Huang, D. L. Bruhwiler, W. B. Mori, F. S. Tsung, E. Cormier-Michel, C. G. R. Geddes, B. Cowan, J. R. Cary, E. Esarey, R. A. Fonseca, S. F. Martins, and L. O. Silva, “Benchmarking the Codes VORPAL, OSIRIS, and QuickPIC with Laser Wakefield Acceleration Simulations,” AIP Conference Proceedings 1086, 315 (Proc. Adv. Accelerator Concepts Workshop, Santa Cruz, CA, 2008).

• Penescu L., R. Catheralla, J. Lettrya, and T. Storaa, "Numerical simulations of space charge effects and plasma dynamics for FEBIAD ion sources." Proceedings of the XVth International Conference on Electromagnetic Isotope Separators and Techniques Related to their Applications Volume 266, Issues 19-20, Pages 4415-4419, October 2008. doi:10.1016/j.nimb.2008.05.071

• Pletzer, A., D. McCune, S. Muszala, S. Vadlamani, S. Kruger, Exposing Fortran Derived Types to C and Other Languages, Computing in Science and Engineering, July/August 2008.

• A. Qasem, D. A. Dimitrov, and J. Heflin. Efficient Selection and Integration of Data Sources for Answering Semantic Web Queries. In ICSC 08: Proceedings of the Second IEEE International Conference on Semantic Computing. IEEE Computer Society Press, pp. 245-252, IEEE (c), August 2008. Preprint.

• A. Qasem, D. A. Dimitrov, and J. Heflin, Goal Node Search for Semantic Web Source Selection. In WI 08: Proceedings of the International Conference on Web Intelligence. IEEE Computer Society Press, pp. 566-569, IEEE (c), 2008. Preprint.

• A. Qasem, D. A. Dimitrov, and J. Heflin, ISENS: A Multi-ontology Query System for the Semantic Deep Web. In Proc. of the Workshop on the Semantic Web Meets the Deep Web, IEEE CEC08 and EEE08, pages 396–9. IEEE Comp. Soc. Press, 2008.

• Ranjbar, V. H. and P. Ivanov, "Chromaticity and wakefield effect on the transverse motion of longitudinal bunch slices in the Fermilab Tevatron." Phys. Rev. ST Accel. Beams 11, 084401 (2008).

• C M Roach, M Walters, R V Budny, F Imbeaux, T W Fredian, M Greenwald, J A Stillerman, D A Alexander, J Carlsson, J R Cary, F Ryter, J Stober, P Gohil, C Greenfield, M Murakami, G Bracco, B Esposito, M Romanelli, V Parail, P Stubberfield, I Voitsekhovitch, C Brickley, A R Field, Y Sakamoto, T Fujita, T Fukuda, N Hayashi, G M D Hogeweij, A Chudnovskiy, N A Kinerva, C E Kessel, T Aniel, G T Hoang, J Ongena, E J Doyle, W A Houlberg, A R Polevoi, “The 2008 Public Release of the International Multi-tokamak Confinement Profile Database,” Nuclear Fusion 48 (2008) 125001.

• P Spentzouris, J Cary, L C McInnes, W Mori, C Ng, E Ng and R Ryne, “Community petascale project for accelerator science and simulation: advancing computational science for future accelerators and accelerator technologies,” J. Physics: Conf. Series 125, 012005 (2008).

• Stoltz, Peter H., Brian Granger, Ammar Hakim, Scott W. Sides and Seth A. Veitzer. "Effects of Sputtering of and Radiation by Aluminium on Magnetized Target Fusion Plasmas", Journal of Fusion Energy, vol 27, No 1-2, June 2008.

• S. Shasharina, J. R. Cary, A. Hakim, G. R. Werner, S. Kruger, A. Pletzer, “FACETS – A Multiphysics Parallel Component Framework,” COMPFRAME 2008 (Karlsruhe, Germany).

• B. Talin, A. Calisti, J.W. Dufty, and I.V. Pogorelov, "Electron Dynamics at a Positive Ion", Phys. Rev. E, 77, 036410 (2008).

• Tan, C. Y. and V. H. Ranjbar. Analytic approximation of the head-tail phase difference from continuous transverse excitation for measuring chromaticity. Phys. Rev. ST Accel. Beams 11, 032802 (2008).

• Xiang, Nong and John R. Cary. Second-Harmonic Generation of Electron-Bernstein Waves in an Inhomogeneous Plasma. Phys. Rev. Lett. 100, 085002 (2008).

• Alexander, D., R. Pundaleeka, S. Tramer, J. Lauret, V. Fine., Portlets for User Centric Job and Task Monitoring for Open Science Grid Virtual Organizations, GCE07, Grid Computing Environments Workshop (Supercomputing 2007), Nov 2007.

• J. R. Cary and N. Xiang, “Wave excitation in inhomogeneous dielectric media,” Phys. Rev. E 76, 055401(R) (2007).

• D. A. Dimitrov, R. E. Giacone, D. L. Bruhwiler, R. Busby, J. R. Cary, C. G. R. Geddes, E. Esarey, and W. P. Leemans. "Coupling of laser energy into plasma channels." Phys. Plasmas 14, 043105 (2007)

• I. Doxas, C. Nieter, D. C. Radford, K. Lagergren, John R. Cary, “An Approximate Method for Linear Signal Decomposition in Gamma-ray Tracking Detectors,” Nuc. Inst. Meth. 580, 1331-1337 (2007).

• Jerome Lauret, David Alexander, Valeri Fine, Chuang Li, "User Centric Monitoring (UCM) information service for the next generation of Grid-enabled scientists", International Conference for Computing in High Energy and Nuclear Physics (CHEP 2007), Victoria, British Columbia, September 2007.

• F. Perez and B. E. Granger, IPython: A System for Interactive Scientific Computing, Comput. Sci. Eng. 9 32 (2007).

• A. Qasem, D. A. Dimitrov, and J. Heflin, Efficient Selection and Integration of Data Sources for Answering Semantic Web Queries. In New Forms of Reasoning for the Semantic Web: Scalable, Tolerant and Dynamic, Workshop, 6th International Semantic Web Conference (ISWC2007), 2007.

• Svetlana G. Shasharina, Chuang Li, Nanbor Wang, Rooparani Pundaleeka, David Wade-Stein, "Distributed Technologies for Remote Access of HDF Data", In proceeding of 16th IEEE International Workshops on Enabling Technologies: Infrastructures for Collaborative Enterprises (WETICE-2007), June 18-20, Paris, France, p. 255-260."

Presentation slides (PDF)

• S. Shasharina, N.Wang, S. Muszala, R. Pundaleeka, "Grid and Component Technologies in Physics Applications," proceedings of ICALEPCS 2007, October 15-19, 2007, Knoxville, TN.

Presentation slides (PDF)

• Baifei Shen, Yuelin Li, Karoly Nemeth, Hairong Shang, Robert Soliday, Robert Crowell, Edward Frank, William Gropp, and John Cary, “Triggering wave breaking in a laser plasma bubble by a nanowire,” Phys. Plasmas 14, 053115 (2007).

• Baifei Shen, Yuelin Li, M. Y. Yu, and John Cary, “Bubble regime for ion acceleration in a laser driven plasma,” Phys. Rev. E 76, 055402 (2007).

• Seth A. Veitzer, Peter H. Stoltz, John J. Barnard, "Evolution of the energy distribution of ions moving in aluminum targets", Nuclear Instruments and Methods in Physics Research, Section A, v. 577 (2007), 207-210, doi:10.1016/j.nima.2007.02.089.

• S. A. Veitzer and P. H. Stoltz, "Simulations of electron generation and dynamics in a hollow cathode with applied magnetic field", Nucl. Instrum. and Meth. in Physics Research Section B, v. 261, (2007), 204-208, doi:10.1016/j.nimb.2007.04.291.

• Nanbor Wang, Roopa Pundaleeka, Johan Carlson. "Distributed Component Support for Integrating Large-scale parallel HPC Applications," CompFrame 2007 (2007).

• G. R. Werner and J. R. Cary, “A Stable FDTD Algorithm for Non-diagonal, Anisotropic Dielectrics,” J. Comp. Phys. 226, 1085-1101 (2007), doi:10.1016/j.jcp.2007.05.008.

2006

• Alexander, David A., Balamurali Ananthan, Tony Johnson, Victor Serbo, "Framework for Interactive Parallel Dataset Analysis on the Grid," ICPP Workshops 2006: pg 419-425

• Dimirov, D. A., J. Heflin, and A. Qasem and N. Wang, "Information Integration Via an End-to-End Distributed Semantic Web System", 5th International Semantic Web Conference (ISWC2006), 4273 (2006)

• Hakim, J. Loverich, and U. Shumlak, "High Resolution Wave Propagation Scheme for Ideal Two-Fluid Plasma Equations," Journal of Computational Physics 219 (1), 418-442 (2006).

• Messmer, P. and R. Bodenner, "Accelerating Scientific Applications Using FPGAs", Xcell (57), 70, 2006.

• Messmer, P., D. Smithe, P. Schoessow, R. Bodenner, "FPGA accelerated Finite-Difference Time-Domain Simulation on the Cray XD1 using Impulse C," Proceeedings of the Cray Users Group Meeting, CUG 2006, 2006

• Xiang, Nong, John R. Cary, Daniel C. Barnes, and Johan Carlsson, "Low-noise electromagnetic deltaf particle-in-cell simulation of electron Bernstein waves", Phys. Plasmas 13, 062111 (2006).

• A.V. Fedotov, D.L. Bruhwiler, A.O. Sidorin, D.T. Abell, I. Ben-Zvi, R. Busby, J.R. Cary and V.N. Litvinenko, "Numerical study of the magnetized friction force", Phys. Rev. ST/AB 9, 074401 (2006).

• Sides, S. W., B. J. Kim, E. J. Kramer and G. H. Fredrickson. "Hybrid Particle-Field Simulations of Polymer Nanocomposites." Phys. Rev. Lett. 96, 250601 (2006).

• Stoltz, P. H., J. P. Verboncoeur, R. H. Cohen, A. W. Molvik, J.-L. Vay, and S. A. Veitzer. "Modeling ion-induced electrons in the High Current Experiment", Phys. Plasmas 13, 056702 (2006)

• Abell, Dan T. "Numerical Computation of High-Order Transfer Maps for RF Cavities", Phys. Rev. ST Accel. Beams 9, 052001 (2006)

• Messmer, Peter and David L. Bruhwiler. "Simulating laser pulse propagation and low-frequency wave emission in capillary plasma channel systems with a ponderomotive guiding center model", Phys. Rev. ST Accel. Beams 9, 031302 (2006)

2005

• Shasharina, Svetlana G., Ovsei Volberg, Peter Stoltz and Seth Veitzer, "GRIDL: High-Performance and Distributed Interactive Data Language," (from poster at The 14th IEEE International Symposium on High Performance Distributed Computing -- HPDC-14, 2005).

• Paesold, G., E.G. Blackman and P. Messmer, 'On particle acceleration and trapping by Poynting flux dominated flows', Plasma Physics and Controlled Fusion, Vol. 47, No. 11, 1925-1947, 2005.

• P. Messmer, 'Electromagnetic Simulations of Dusty Plasmas', Lecture Notes in Computer Science, LNCS 3732, 583, 2005.

• Shasharina, Svetlana G. and Chuang Li. "FSML: Fusion Simulation Markup Language for Interoperability of Data and Analysis tools", Proceedings of Challenges of Large Applications in Distributed Environments, pp.115-121, Research Triangle Park, North Carolina, July 24, 2005. (Presentation slides relating to this paper are also available.)

• Kruger, S.E., D.D. Schnack, and C. R. Sovinec. "Dynamics of a Major Disruption of a DIII-D Plasma," (from invited talk at the 2004 Annual Meeting of the American Physical Society Division of Plasma Physics, Savannah, GA 12 (056113) May 2005.

• Chandra, D., A. Sen, P. Kaw, M.P. Bora, and S.E. Kruger. "Effect of Sheared Flows on Classical and Neoclassical Tearing Modes," Nuclear Fusion, 45 (524) 2005.

• Kruger, S.E., C. R. Sovinec, D.D. Schnack, and E. D. Held. "Free-boundary Simulations of DIII-D Plasmas with the NIMROD Code," Computer Physics Communications, 164 (34) 2004.

• Stoltz, P. H.; Veitzer, S. A.; Cohen, R. H.; Molvik, A. W.; Vay, J. L. "Energy Loss, Range, and Electron Yield Comparisons of the CRANGE Ion-Material Interaction Code". Nuclear Instruments and Methods in Physics Research Section A, v. 544 (2005), p. 502-505.

• C. G. R. Geddes, Cs. Toth, J. van Tilborg, E. Esarey, C. B. Schroeder, J. Cary, and W. P. Leemans, "Guiding of relativistic laser pulses by preformed plasma channels," Phys. Rev. Lett. (2005) in review.

• K. Sonnad and J. R. Cary, "Control of beam halo formation through nonlinear damping and collimation," Phys. Rev. ST/AB 8, 064202 (2005).

• C. G. R. Geddes, Cs. Toth, J. van Tilborg, E. Esarey, C. B. Schroeder, D. Bruhwiler, C. Nieter, J. Cary, and W. P. Leemans, "Production of high-quality electron bunches by dephasing and beam loading in channeled and unchanneled laser plasma accelerators," Phys. Plasmas 12 (5), 056709 (2005).

• J. R. Cary, R. Giacone, C. Nieter, D. L. Bruhwiler, "Clean beams from optical injection with a cleanup pulse," Phys. Plasmas 12 (5), 056704 (2005).

• J. Lee and J. R. Cary, "Longitudinal Cooling of Non neutral Plasma by Energy Exchange," Phys. Rev E 71, 036406 (2005).

• D. E. Post, D. B. Batchelor, R. B. Bramley, J. R. Cary, R. H. Cohen, P. Colella, S. C. Jardin, "Report of the Fusion Simulation Project Steering Committee," J. Fusion Energy 23 (1), 1 (2004 journal date, but published and copyright 2005).

• Sides, Scott W., "Hybrid Monte-Carlo/Field-theoretic simulations: Effect of Nematically Ordered Nanoparticles on Block-Copolymer Mesophases", Liquid-Crystal Gordon Conference 2005 (poster session), New London, NH.

2004

• C. Nieter and J. R. Cary, "VORPAL: a versatile plasma simulation code", J. Comp. Phys. 196, 448-472 (2004).

• Dimitre A. Dimitrov, Richard Busby, John Exby, David L. Bruhwiler and John R. Cary, "Secure Web-based invocation of Large-Scale Plasma Simulation Codes," Computer Physics Communications 164 (2004), p. 464-467.

• S. Shasharina, R. Eger, and J. Cary, "Farsight: application for remote visualization", Computer Physics Communications 164 (2004), p. 402-407.

• Ireneuz Szczesniak and John R. Cary, "dxhdf5: a software package for importing HDF5 physics data into OpenDX", Computer Physics Communications 164 (2004), p. 365-369.

• S. Shasharina, R. Eger, and J. Cary, "Data grid for fusion simulations and experiments", Computer Physics Communications 164 (2004), p. 134-137.

• P. Messmer and D.L. Bruhwiler, "An electrostatic solver for the VORPAL code", Computer Physics Communications 164 (2004), p. 118.

• C.R. Sovinec, A.H. Glasser, T.A. Gianakon, D.C. Barnes, R.A. Nevel, S.E. Kruger, S.J. Plimpton, A. Tarditi, M.S. Chu, and the NIMROD Team, "Nonlinear magnetohydrodynamics with high-order finite elements", Journal of Computational Physics 195 (2004) p. 355.

• R. H. Cohen, A. Friedman, S. M. Lund, A. W. Molvik, E. P. Lee, T.Azevedo, J.-L. Vay, P. Stoltz, and S. Veitzer, "Electron-cloud simulation and theory for high-current heavy-ion beams", Physical Review Special Topics - Accelerators and Beams 7 (2004), p.123201.

• P. H. Stoltz, S. A. Veitzer, R. H. Cohen, A. W. Molvik, and J.-L. Vay, "Simulation of heavy ion induced electron yield at grazing incidence", Physical Review Special Topics - Accelerators and Beams 7 (2004), p. 103201.

• T. Hellsten, T. Johnson, J. Carlsson, L.-G. Eriksson, J. Hedin, M. Lax�back, and M. Mantsinen, "Effects of finite drift orbit width and RF-induced spatial transport on plasma heated by ICRH", Nuclear Fusion 44 (2004), p. 892.

• Cameron G.R. Geddes, Csaba Toth, Jeroen van Tilborg, Eric Esarey, Carl B. Schroeder, David L. Bruhwiler, Chet Nieter, John R. Cary, and Wim Leemans, "High-quality electron beams from a laser wakefield accelerator using plasma-channel guiding", Nature 431 (2004), p. 538-541.

• K. Sonnad and J. R. Cary, "Finding a nonlinear lattice with improved integrability using Lie transform perturbation theory," Phys. Rev. ST/AB (2004) in review.

• Arvind S. Krishna, Nanbor Wang, Balachandran Natarajan, Anniruddha Gokhale, Douglas C. Schmidt, and Gautam Thaker", CCMPerf: a benchmarking tool for CORBA component model implementations", In Proceedings of the 10th Real-time Technology and Application Symposium (RTAS'04) Toronto, CA May 2004, IEEE.

• Nanbor Wang, Chris Gill, Douglas C. Schmidt, and Venkita Subramonian, "Configuring real-time aspects in component middleware", In Proceedings of the International Symposium on Distributed Objects and Applications (DOA'04) Agia Napa, Cyprus Oct 2004.

• Nanbor Wang and Christopher Gill, "Improving real-time system configuration via a QoS-aware CORBA component model", In Hawaii International Conference on System Sciences, Software Technology Track, Distributed Object and Component-based Software Systems Minitrack, HICSS 2004 Honolulu, HW Jan 2004, HICSS.

• Venkita Subramonian, Liang-Jui Shen, Christopher Gill, and Nanbor Wang, "The design and performance of dynamic and static configuration mechanisms in component middleware for distributed real-time and embedded systems", In The 25th IEEE Real-Time Systems Symposium (RTSS) Lisbon, Portugal Dec 2004.

• A.S. Johnson, V. Serbo, M. Turri, B. Anathan, and D.A. Alexander, "Interactive data analysis on the grid using globus 3 and jas3", In Proceeding of the 2004 Conference for Computing in High-Energy and Nuclear Physics (CHEP 04) Interlaken, Switzerland 2004.

• Alexei V. Fedotov, Ilan Ben-Zvi, David L. Bruhwiler, Yu. Eidelman, Vladimir N. Litvinenko, N. Malitsky, A. Sidorin I. Meshkov, A. Smirnov, and G. Trubnikov, "Electron cooling dynamics for RHIC", In Proc. 33rd ICFA Advanced Beam Dynamics Workshop 2004.

• David L. Bruhwiler, Richard Busby, Alexei V. Fedotov, Ilan Ben-Zvi, John R. Cary, Peter Stoltz, Alexey Burov, Vladimir N. Litvinenko, Peter Messmer, Dan T. Abell, and Chet Nieter, "Direct simulation of friction forces for heavy ions interacting with a warm magnetized electron distribution", In Proc. 33rd ICFA Advanced Beam Dynamics Workshop 2004.

• P. Messmer, "Electromagnetic modeling of dusty plasmas", In Proc. PARA04 Workshop on State-of-the-Art in Scientific Computing. LNCS 2004.

• Cameron G.R. Geddes, Csaba Toth, Jeroen van Tilborg, Eric Esarey, Carl B. Schroeder, David L. Bruhwiler, John R. Cary, and Wim Leemans, "Laser guiding at relativistic intensities and wakefield particle acceleration in plasma channels", In Proceedings of the 11th Advanced Accelerator Concepts Workshop Stony Brook, NY 2004.

• P. Messmer, D.L. Bruhwiler, J.R. Cary, and D.A. Dimitrov, "Ion acceleration and wave generation by overdense laser-plasma interaction", In Proceedings of the 11th Advanced Accelerator Concepts Workshop Stony Brook, NY 2004.

• Dimitre A. Dimitrov, David L. Bruhwiler, John R. Cary, Peter Messmer, Cameron G.R. Geddes, Wim Leemans, and Eric Esarey, "Particle-in-cell simulations of intense laser pulses coupling into plasma channels", In Proceedings of the 11th Advanced Accelerator Concepts Workshop Stony Brook, NY 2004.

• Svetlana G. Shasharina, Nanbor Wang, John R. Cary, "Grid Service for Visualization and Analysis of Remote Fusion Data", In Proceedings of the International Workshop on Challenges of Large Applications in Distributed Environments" (CLADE 2004) pages 34-43 Honolulu, Hawaii 2004.

• S.E. Kruger, D.D. Schnack, E.D. Held, D.D. Whyte, and C.R. Sovinec, "Simulations of a DIII-D plasma disruption with the NIMROD code", In Proceedings of Invited Papers, 20th International Atomic Energy Agency Conference, Vilamora, Portugal volume CD-ROM pages FILE TH/P2-25 Vilamoura, Portugal 2004, International Atomic Energy Agency, Vienna.

2003

• David L. Bruhwiler, Dimitre A. Dimitrov, John R. Cary, Eric Esarey, Wim Leemans and Rodolfo E. Giacone, "Particle-in-cell simulations of tunneling ionization effects in plasma-based accelerators," Phys. Plasmas 10 (2003), p. 2022. (Invited)

• P.H. Stoltz, et al, "Numerical Simulation of Secondary Electron Emission in the High Current Experiment", Phys. Rev. ST Accel. Beams 6, 054701, 2003.

2002

• P. H. Stoltz, J. R. Cary, G. Penn, and J. Wurtele, "Efficiency of a Boris-like integration scheme with spatial stepping," Phys. Rev. ST/AB 5, 094001,1-9 (2002).

• P.H. Stoltz, et al, "Efficiency of a Boris-like Integration Scheme with Spatial Stepping", Phys. Rev. ST Accel. Beams 5, 094001, 2002.

2001

• David L. Bruhwiler, Rodolfo E. Giacone, John R. Cary, John P. Verboncoeur, Peter Mardahl, Eric Esarey, Wim Leemans and Brad Shadwick, "Particle-in-cell simulations of plasma accelerators and electron-neutral collisions," Phys. Rev. ST Accel. Beams 4, 101302 (2001).

• P.H. Stoltz and B.V. Oliver, "Growth rates of the m=0 mode for Bennett equilibria with varying radial density and temperature profiles", Physics of Plasmas 8 (6), 2001.

2000

• S.G. Shasharina, D.L. Bruhwiler and J.R. Cary, "Nonlinear Optimization in the C++ Beam Optics Code" European Particle Accelerator Conference (Vienna, 2000).

1999

• D.L. Bruhwiler, J.R. Cary and S.G. Shasharina, "Object Oriented C++ Software Components for Accelerator Design", Particle Accelerator Conference (New York, 1999).

• J.R. Cary and S.G. Shasharina, "Efficient Differential Algebra Computations," Particle Accelerator Conference (New York, 1999).

1998

• D.L. Bruhwiler, J.R. Cary and S.G. Shasharina, "Symplectic Propagation of the Map, Tangent Map and Tangent Map Derivative through Quadrupole and Combined-Function Dipole Magnets without Truncation," Particle Accelerator Conference (1998).

1995

• David L. Bruhwiler and Tasso J. Kaper, "Wavenumber Transport: Scattering of Small-Scale Internal Waves by Large-Scale Wavepackets," Journal of Fluid Mechanics 289 (1995), p. 379.

1994

• David L. Bruhwiler and John R. Cary, “Dynamics of Particles Trapping and Detrapping in Coherent Wave Packets,” Physical Review E 50 (1994), p. 3949.

• Etienne Forest, Michael F. Reusch, David L. Bruhwiler and Ali Amiry, "The Correct Local Description for Tracking in Rings," Particle Accelerators 45 (1994) p. 65.

• David L. Bruhwiler and John R. Cary, "Adiabatic Particle Motion in Spatially-Varying Wave Structures," Particle Accelerators 43 (1994), p. 195.

1992

• Ellen G. Zweibel and David L. Bruhwiler, "The Effect of Line-Tying on Parker's Instability," The Astrophysical Journal 399 (1992), p. 318.

• David L. Bruhwiler and Ellen G. Zweibel, "Energy Spectrum of Particles Accelerated in Sheared Reconnecting Magnetic Fields," Journal of Geophysical Research 97 (1992), p. 10,825.

• David L. Bruhwiler and John R. Cary, "Particle Dynamics in a Large-Amplitude Wavepacket," Physical Review Letters 68 (1992), p. 255.

1991

• David L. Bruhwiler and John R. Cary, "Diffusion of Trajectories in a Simple Hamiltonian System with Slow Periodic Forcing," Computer Physics Communications 65 (1991), p. 52.

1989

• David L. Bruhwiler and John R. Cary, "Diffusion of Particles in a Slowly Modulated Wave," Physica D 40 (1989), p. 265.