Publications, Conference proceedings/presentations

  1. Shi, F and Sivagnanam, S and Folkerts, M and Gautier, Q and Jia, X and Majumdar, A and Jiang, S, "A Gateway for GPU Computations in Radiotherapy", Medical Physics, 40, 260-260 (2013), http://dx.doi.org/10.1118/1.4814677
  2. C. Garcia-Blanquel, A. Majumdar, R. Luna-Garcia, "Parallel Adaptive Method for Selecting Points of Interest in Structures; Cranial Deformation," Computacion y Sistemas Special Issue: Supercomputing: Applications and Technologies, Vol. 17 No. 3, ISSN 1405-5546, pp 317-327, 2013.
  3. H. Karimabadi, P. O'leary, M. Tatineni, B. Loring, A. Majumdar, B. Geveci, "In-situ Visualization for Global Hybrid Simulations," Proceedings XSEDE13 Gateway to Discovery, San Diego, CA, July 22-25, 2013.
  4. S. Sivagnanam, K. Yoshimoto, A. Majumdar, N. T. Carnevale, V. Astakhov, M. Martone, A. Bandrowski, "A Neuroscience Gateway: Software and Implementation," Proceedings XSEDE13 Gateway to Discovery, San Diego, CA, July 22-25, 2013.
  5. S. Sivagnanam, A. Majumdar, K. Yoshimoto, N. T. Carnevale, V. Astakhov, A. Bandrowski, M. Martone, "Introducing The Neuroscience Gateway," Proceedings International Workshop on Science Gateways , Zurich, Switzerland, 3-5 June, 2013.
  6. M. Tatineni, A. Majumdar, "Optimizing Hadoop Deployment on Gordon Data Intensive Supercomputer," Second Workshop on Big Data Benchmarking, Dec. 17-18, Pune, India, 2012.
  7. Y. Bazilevs, A.L. Marsden, F. Lanza di Scalea, A. Majumdar, and M. Tatineni, "Toward a Computational Steering Framework for Large-Scale Composite Structures Based on Continually and Dynamically Injected Sensor Data," International Conference on Computational Science, Omaha, Nebraska, June 4-6, 2012, Procedia Computer Science, Volume 9, 2012, pages 1149-1158.
  8. K.K. Yoshimoto, D.J. Choi, R.L. Moore, A. Majumdar, E. Hocks, "Implementations of Urgent Computing on Production HPC Systems," International Conference on Computational Science, Omaha, Nebraska, June 4-6, 2012, Procedia Computer Science, Volume 9, 2012, pages 1687-1693.
  9. Homa Karimabadi, Hoanh Vu, Burlen Loring, Yuri Omelchenko, Tamara Sipes, Vadim Roytershteyn, William Daughton, Mahidhar Tatineni, Amit Majumdar, Umit Catalyurek and Alper Yilmaz, "Petascale Kinetic Simulation of the Magnetosphere," TeraGrid 2011, Salt Lake City, Utah, July 18 - 21, 2011.
  10. D. S. Katz, D. Hart, C. Jordan, A. Majumdar, J.P. Navarro, W. Smith, J. Towns, V. Welch, N. Wilkins-Diehr, "Cyberinfrastructure Usage Modalities on the TeraGrid," 2011 High-Performance Grid and Cloud Computing Workshop, Proceedings of 2011 IPDPS Workshops (May 16, 2011, Anchorage, Alaska), pp. 927-934, 2011.
  11. H. Karimabadi, H. X. Vu, B. Loring, Y. Omelchenko, M. Tatineni, A. Majumdar, and J. Dorelli, "3D Global Hybrid Simulations of the Magnetosphere and I/O Strategies for Massively Parallel Kinetic Simulations, " TG10, Pittsburgh, August 2-5, 2010
  12. S Jiang, X Gu, C Men, X Jia, O Fluck, D Choi, A Majumdar, "Real-time Re-planning for Online Adaptive Radiotherapy," 52nd Annual Meeting American Association of Physicists in Medicine , Philadelphia, PA, July 18 - 22, 2010.
  13. H. Karimabadi, H.X. Vu, B. Loring, Y. Omelchenko, M. Tatineni, A. Majumdar, J. Dorelli, J. Raeder and K. Ma,"Peta-scale global hybrid simulations and visualization strategies for analysis of very large data sets," ASTRONUM - 2010, 5th International Conference on Numeircal Modeling of Space Plasma Flows, June 13-18, 2010, San Diego, CA.
  14. X Jia, X Gu, J Sempau, D Choi, A Majumdar, and SB Jiang, "Development of a GPU-based Monte Carlo dose calculation code for couplped electron-photon transport," Phys Med Biol. 55 (11): 3077-3086, 2010.
  15. S. Jiang, X. Jia, X. Gu, C. Men, O. Fluck, D. Choi, A. Majumdar, "GPU-based Computational Tools for Online Adaptive Cancer Radiotherapy", PARA 2010, Reykjavik, June 6-9, 2010.
  16. H. Karimabadi, H. X. Vu, B. Loring, Y. Omelchenko, M. Tatineni, A. Majumdar, and J. Dorelli, "Enabling Breakthrough Kinetic Simulations of the Magnetosphere Using Petascale Computing," Asia Oceania Geosciences Society (AOGS) Hyderabad, India, July 5-9, 2010.
  17. S. Potluri, P. Lai, K. Tomko, S. Sur, Y. Cui, M. Tatineni, K. Schulz, W. Barth, A. Majumdar, D. Panda, " Quantifying Performance Benefits of Overlap Using MPI-2 in a Seismic Modeling Applicaiton, " 24th International Conference on Supercomputing (ICS' 10), Epochal Tsukuba, Tsukuba, Japan, June 1-4, 2010.
  18. X Gu, H Pan, Y Liang, R Castillo, D Yang, DJ Choi, E Castillo, A Majumdar, T Guerrero, and SB Jiang, " Implementation and evaluation of various demons doformable image registration algorithms on a GPU," Phys Med Biol. 55(1):207-219,2010.
  19. H. Karimabadi, H.X. Vu, Y. Omelchenko, M. Tatineni, A. Majumdar, U.V. Catalyurek, and E. Saule, "Enabling Global Kinetic Simulations of the Magnetosphere via Petascale Computing," 51st Annual Meeting of the APS Division of Plasma Physics, November 2-6, 2009, Atlanta, GA.
  20. C Men, X Gu, DJ Choi, A Majumdar, Z Zheng, K Mueller, and SB Jiang, "GPU-based ultrafast IMRT plan optimization", Phys Med Biol. 54(21):6565-6573, 2009.
  21. H. Karimabadi, H.X. Vu, Y. Omelchenko, M. Tatineni, A. Majumdar, D. Krauss-Varban, "Enabling Breakthrough Kinetic Simulations of the Magnetosphere Using Petascale Computing, " AGU Fall Meeting, San Francisco, Dec. 14-18, 2009.
  22. C. Men, DJ Choi, X Gu, SB Jiang, A. Majumdar, "A New On-line Re-Optimization Model for IMRT Treatment Planning", INFORMS Annual Meeting, San Diego, Oct. 11-14, 2009.
  23. Gu X, Choi DJ, Men C, Pan H, Majumdar A, Jiang SB," GPU-based Ultra Fast Dose Calculation Using a Finite-Size Pencil Beam Model", Phys. Med. Biol. 54 (20):6287-6297, 2009.
  24. H. Karimabadi, H.X. Vu, Y. Omelchnko, B. Loring, M. Tatineni, A. Majumdar, U. V. Catalyurek, E. Saule, “Enabling Breakthrough Kinetic Simulations of the Magnetoshpere via Multi-zone Petascale Computing, “ TeraGrid 09 Conference, Washington D.C., June 22-26, 2009.
  25. Lennox Hoyte, Margot S. Damaser, Simon K. Warfield, Giridhar Chukkapalli, Amitava Majumdar, Dong Ju Choi, Abhishek Trivedi, and Petr Krysl, "Quantity and Distribution of Levator Ani Stretch during Vaginal Childbirth," American Journal of Obstetrics and Gynecology, Volume 199, Issue 2, August 2008.
  26. Lennox Hoyte, Margot S. Damaser, Simon K. Warfield, Giridhar Chukkapalli, Amitava Majumdar, Dong Ju Choi, Abhishek Trivedi, and Petr Krysl, "Quantity and Distribution of Levator Ani Stretch during Vaginal Childbirth," South Atlantic Association of Obstetricians and Gynecologists 70th Conference, January 20-23, 2008, Sarasota, Florida.
  27. Steve B. Jiang, H. Edwin Romeijn, Chunhua Men, Neelam Tyagi, Lily Tang, Dong Ju Choi, Amitava Majumdar, Todd Pawlicki, Catheryn Yashar, Arno J. Mundt, "Towards On-line Adaptive Radiotherapy for Cervical Cancer," Mathematical Methods in Biomedical Imaging and Intensity-Modulated Radiation Therapy (IMRT), Publications of the Scuola Normale Superiore, CRM Series, Vol 7. Censor, Yar, Jiang, Ming, Louis, Alfred K. (Eds). 2008, XX. 526 p.
  28. Y. Cui, R. Moore, K. Olsen, A. Chourasia, P. Maechling, B. Minster, S. Day, Y. Hu, J. Zhu, A. Majumdar T. Jordan, "Enabling Very-Large Earthquake Simulations on Parallel Machines," International Conference on Computational Science , Beijing, China, May 27-30, 2007; Lecture Notes in Computer Science, Part 1, series 4487, pp 46-53, Springer, 2007.
  29. S.P. DiMaio, N. Archip, N. Hata, I.F. Talos, S.K. Warfield, A. Majumdar, N. McDannold,K. Hynynen, P.R. Morrison, W.M. Wells III, D.F.Kacher, R. E. Ellis, A.J.Golby, P.M.Black, F.A. Jolesz, and R. Kikinis, ``Image-Guided Neurosurg ery at Brigham and Women's Hospital: The integration of imaging, navigation and interventional devices,'' IEEE Engineering in Medicine and Biology , Vol. 25, Issue 5, pp 67-73, 2006.
  30. T. Devadithya, A. Birnbaum, A. Majumdar, D. Choi, R. Wolski, K. Baldridge, N. Archip, and S. K. Warfield, "On-demand High Performance Computing: Image Guided neuro-Surgery Feasibilty Study", 12th International Conference on Parallel and Distributed Systems, Minneapolis, MN, July 12-15, 2006.
  31. L. Hoyte, P. Krysl, G. Chukkapalli, A. Majumdar, D. Choi, A. Trivedi, S. K. Warfield, M. Damaser, ``Computational Model of Levator Ani Muscle Stretch During Vaginal Delivery," 5th World Congress of Biomechanics , Munich, Germany, July, 2006.
  32. A. Majumdar, S.K. Warfield, P. Krysl, D. Choi, N. Archip, K. Baldridge, ``Dynamic Data Driven Finite Element Modelling of Brain Shape Deformation During Neurosurgery", 12th SIAM Conference on Parallel Processing for Scientific Computation, Feb. 22-24, 2006, San Francisco.
  33. A. Majumdar, A. Birnbaum, D. Choi, A. Trivedi, S. K. Warfield, K. Baldridge, and P. Krysl, ``A Dynamic Data Driven Grid System for Intra-operative Image Guided Neurosurgery,'' International Conf. On Computational Science, May 2005, Atlanta, GA, V. S. Sunderam et al (Eds), Springer-Verlag Berlin Heidelberg : ICCS 2005, LNCS 3515, pp. 672-679, 2005.
  34. Y. Dewaraja, M. Ljungberg, A. Majumdar, A. Bose, and K. F. Koral,``A Parallel Monte Carlo Code for Planar and SPECT Imaging: Implementation, Verification and Applications in I-131 SPECT,'' Journal of Computer Methods and Programs in Biomedicine, Volume 67, Issue 2 (2002), pp. 115 - 124
  35. Y. Dewaraja, M. Ljungberg, A. Majumdar, A. Bose, and K. F. Koral, "A Parallel Monte Carlo Code for Planar and SPECT Imaging: Implementation, Verification and Applications in I-131 SPECT,'' IEEE Nuclear Science Symposium and Medical Imaging Conference, Lyon, France, October 15-20, 2000.
  36. A. Majumdar, and W. R. Martin, "Per formance Measurement of Monte Carlo Photon Transport on Parallel Machines,''Proceeding s International Topical Meeting on Advances in Reactor Physics and Mathematics and Computation into the Next Millennium, Philadelphia, May 7-11, 2000.
  37. A. Majumdar, "Parallel Performance Study of Monte Carlo Photon Transport Code on Shared-, Distributed, and Distributed-Shared-Memory Architectures,'' Proceedings International Parallel & Distributed Processing Symposium 2000, Cancun, Mexico, May 1-5, 2000.
  38. A. Snavely, L. Carter, J. Boisseau, A. Majumdar, K. S. Gatlin, N. Mitchell, J. Feo, and B. Koblenz, ``Multi-processor Performance on the Tera MTA,''Proceedings Supercomputing 98, Orlando, Florida.
  39. J. Boisseau, L. Carter, K.S. Gatlin, A. Majumdar and A. Snavely, ``NAS Benchmarks on the Tera MTA,'' Workshop on Multi-Threaded Execution, Architecture and Compilation (M-TEAC 98), February 1998.
  40. A. Majumdar and W. R. Martin (invited paper) ``Development of a Multiple Perturbation Monte Carlo Methods for Criticality Problems and Implementation on Parallel Processors,'' Joint Nuclear Conferences X ENFIR/III ENAN, Auguas de Lindola, Brazil, August 7 - 11, 1995.
  41. A. Majumdar and W. R. Martin ` `Multiple Reactivity Calculation Using Single Correlated Sampling Monte Carlo Simulation,'' Proceedings International Conference on Mathematics and Computations, Reactor Physics and Environmental Analyses, Portland, Oregon, April 30 - May 4, 1995, Vol. 1, p. 85 (1995).
  42. A. Majumdar and W.R. Martin, ``Calculation of Reactivity Perturbations Using Correlated Sampling Monte Carlo,'' Transaction American Nuclear Society, 71, 203 (1994).
  43. A. Majumdar and D. Majumdar, ``Possible Locations of Monitored Retrievable Storage from a Spent-Fuel Transportation Perspective,'' Transaction American Nuclear Society, 70, 61 (1994).
  44. W.R. Martin, A. Majumdar, J.A. Rathkopf and M. Litvin, ``Experiences with Different Parallel Programming Paradigms for Monte Carlo Particle Transport Leads to a Portable Toolkit for Parallel Monte Carlo,'' Proceedings International Joint Conference on Mathematical Methods and Supercomputing in Nuclear Applications, Karlsruhe, Germany, April 19-23, 1993, Vol. II, p. 418 (1993).
  45. A. Majumdar and W.R. Martin, ``Parallel Preconditioned Conjugate Gradient Algorithm Applied to Neutron Diffusion Problem,'' Transaction American Nuclear Society, 65, 209 (1992).
  46. A. Majumdar and H. Makowitz, ``Study of Algorithms to Enhance Vector Performance of Thermal-Hydraulic Codes Based on a Hopscotch Scheme,'' Transaction American Nuclear Society, 55, 331 (1987).

Talks/Posters/Workshops

  1. N.T. Carnevale, A. Majumdar, S. Sivagnanam, K. Yoshimoto, V. Astakhov, A. Bandrowski, M. Martone, "The Neuroscience Gateway Portal: facilitating access to high performance computing resources," Poster, Society for Neuroscience Annual Meeting, San Diego, Nov. 9-13, 2013.
  2. A. Majumdar, M. Tatineni, and D. Choi, "Performance Analysis of Scientific Applications on GPUS Using MVAPICH2," MVAPICH User Group Meeting (MUG), Columbus, Ohio, USA, August 26-27, 2013.
  3. N.T. Carnevale, S. Sivagnanam, K. K. Yoshimoto, V. Astakhov, A. E. Bandrowski, M. E. Martone, A. Majumdar, "A Neuroscience Gateway for High Performance Computing," Poster,Society for Neuroscience Annual Meeting, New Orleans, October 13-17, 2012.
  4. A. E. Bandrowski, S. Sivagnanam, K. Yoshimoto, V. Astakhov, A. Majumdar, "Performance of parallel neuronal models on the Triton cluster," Poster, Society for Neuroscience Annual Meeting, Washington D.C., Nov 12-16, 2011.
  5. H. Karimabadi, B. Loring, A. Majumdar, M. Tatineni, "I/O Strategies for Massively Parallel Kinetic Simulations", SC2010, New Orleans, Nov. 13-19, 2010 (poster).
  6. D. Choi, O. Fluck, M. Folkerts, X. Gu, X. Jia, S. Jiang, A. Majumdar, Z. Tian, F. Vidal, D. Unat, "Short Course on GPU Programming for Medical Physics and Medical Imaging Research," San Diego Supercomputer Center (organized by Center for Advanced Radiotherapy Technologies (CART), Dept of Radiation Oncology, UCSD), Oct 29-30, 2010
  7. A. Majumdar, "On-Demand Dynamic Data Driven Real-Time Computing for Scientific Applications", The 2nd Workshop on "Frontiers of Multicore Computing", University of Maryland, Baltimore County (UMBC), Sept 21-23, 2010.
  8. NSF and AFOSR workshop on Dynamic Data Driven Appplication Systems (DDDAS), Washington D.C., August 29-31, 2010.
  9. NSF OCI Campus Bridging Task Force Workshop, Denver, CO, August 25-27, 2010.
  10. A. Majumdar, D. Choi, Workshop: Introduction to Parallel Computing, GPU programming, one-sided MPI , Instituto Polite'cnico Nacional, Mexico City, August 16 - 20, 2010.
  11. A. Majumdar (invited talk), "Application of High Performance Computing to Situation Awareness Simulations," Interactive Situation Awareness Simulation (ISAS) Workshop, UCSD, May 25, 2010.
  12. A. Majumdar (invited talk), "Teraflop to Petaflop - Computational Science," 1st International Supercomputing Conference in Mexico , Guadalajara, Jalisco, Mexico, March 2-5, 2010.
  13. A. Majumdar (invited talk), "High Performance Computational Science - Teraflop to Petaflop," High Performance Computing and Simulation Symposium (HPC 2009), 2009 Spring Simulation Multiconference (SpringSim'09), March 22-27, 2009, San Diego, CA.
  14. A. Majumdar, "HPCC and Applications Benchmark on Windows HPC Cluster," MIcrosoft HPC User Forum, SC2008, Austin, TX, Nov. 15-21, 2008.
  15. A. Majumdar (panel), "Dynamic Data Driven Application Systems - New Drivers for Networking and Communications," IEEE GLOBECOM 2007, Nov. 26 - 30, 2007, Washington, DC.
  16. A. Majumdar (panel), "HPC at Major Universities," HPC User Forum, Sept. 25-27, 2007, Santa Fe, New Mexico.
  17. A. Majumdar (invited talk), "Computational Science : TeraFlop to PetaFlop," Kobe University, Japan, Sept 5, 2007.
  18. A. Majumdar, A. Birnbaum, T. Devadithya, J. Andrews, K. Bladridge, D. Choi, S. Warfield, N. Archip, "Grid Enabled Image Guided Neurosurgery Using High Performance Computing," Fifth Virtual Conference on Genomics and Bioinformatics, Oct. 25-28, 2005.
  19. A. Majumdar, Simon K. Warfield, Florin Talos, Ron Kikinis, Ferenc A. Jolesz, Adam Birnbaum, Dong Ju Choi, and Kim Baldrideg, Grid Enabled High Performance Computing for Image Guided Therapy, 5th Interventional MRI Symposium, Boston, MA, Oct 15-16, 2004.
  20. Berkeley, IBM SP SciComp6, August 19-23, 2002: ``Parallel Medical and Genomics Applications on Power3 and Power4 Machines''.
  21. San Diego, American Chemical Society National Meeting, April 1-5, 2001:``Mapping of Parallel Monte Carlo and Fast Multipole Algorithms on Parallel Machines''.
  22. Hitachi Research Lab, Hitachi, Japan, December 28, 1999:``Parallelization and Performance Issues of a Monte Carlo Photon Transport Code''.
  23. IBM T. J. Watson Research Center, New York, October 7, 1999 :``Parallelization and Performance Issues of a Monte Carlo Photon Transport Code on Nighthawk and other machines ''
  24. University of Michigan, Nuclear Engineering Department, April, 1995: ``Calculation of Reactivity Perturbations Using Monte Carlo Methods.''
  25. Argonne National Laboratory, Reactor Engineering and Reactor Analysis Department Joint Seminar, December, 1995: ``Monte Carlo Perturbation Methods and Implementation on Parallel Computers.''
  26. Texas A&M University, Nuclear Engineering Department, April, 1996: ``Development of a Multiple Perturbation Monte Carlo Method for Eigenvalue Problems and Impelmentaion on Parallel Processors.''(with W. R. Martin)
  27. University of Houston, Center for Parallel Computing, April, 1996: ``Development of a Multiple Perturbation Monte Carlo Method for Eigenvalue Problems and Impelmentaion on Parallel Processors.''(with W. R. Martin)
  28. Bettis Atomic Power Lab., Pittsburg, April, 1995: ``Development of a Multiple Perturbation Monte Carlo Method for Criticality Problems and Impelmentaion on Parallel Processors.'' (with W. R. Martin)
  29. Center d'Etudes, Saclay, France, April 1993: ``Experiences with Different Parallel Programming Paradigms for Monte Carlo Particle Transport Leqads to a Portable Toolkit for Parallel Monte Carlo.'' (with W. R. Martin, J. A. Rathkopf and M. Litvin)

Reports

  1. A. Birnbaum, A. Majumdar, T. Devadithya, D. Choi, R. Wolski, K. Baldridge,``On-demand High Performance Computing : Image Guided Neuro Surgery Feasibility Study," SDSC Technical Report, SDSC-TR-2006-2, 2006.
  2. `` Evaluation of a Multithreaded Architecture for Defense Applications'', W. Pfeiffer, L. Carter, A. Snavely, R. Leary, A. Majumdar, (SDSC, UC San Diego), S. Brunett (Cal. Tech), J. Feo, B. Koblenz, L. G. Stern (Tera Computer), J. W. Manke (Boeing), T. P. Boggess (Sanders/Lockheed Martin), Final Report to DARPA, September 1999, SDSC TR-1999-1.
  3. ``The Slightly-Enriched Spectral Shift Control Reactor,'' Final report to Department of Energy for the Project September 30, 1988 - September 30, 1991, DOE/ER/12809-4.