메뉴 건너뛰기




Volumn , Issue , 2005, Pages 207-212

Blue matter on blue gene/L: Massively parallel computation for biomolecular simulation

Author keywords

Biomolecular Simulation; Molecular Dynamics; N body Simulations; Parallel Programming

Indexed keywords

BIOMOLECULAR SIMULATION; MEMBRANE-PROTEIN SYSTEMS; N-BODY SIMULATIONS; PARALLEL PROGRAMMING;

EID: 27644594123     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: None     Document Type: Conference Paper
Times cited : (22)

References (18)
  • 1
    • 0034958341 scopus 로고    scopus 로고
    • Blue gene: A vision for protein science using a petaflop supercomputer
    • F. Allen et al. Blue Gene: a vision for protein science using a petaflop supercomputer. IBM Systems Journal, 40(2):310-327, 2001. http://www.research. ibm. com/journal/sj/402/allen.pdf.
    • (2001) IBM Systems Journal , vol.40 , Issue.2 , pp. 310-327
    • Allen, F.1
  • 3
    • 21044456455 scopus 로고    scopus 로고
    • Design and implementation of message-passing services for the blue gene/L supercomputer
    • G. Almasi et al. Design and implementation of message-passing services for the Blue Gene/L supercomputer. IBM Journal of Research and Development, 49(2/3):393-406, 2005. http://www.research.ibm. com/journal/rd/492/almasi.pdf.
    • (2005) IBM Journal of Research and Development , vol.49 , Issue.2-3 , pp. 393-406
    • Almasi, G.1
  • 4
    • 0000476256 scopus 로고
    • Computer simulation study of the mean forces between ferrous and ferric ions in water
    • J. Bader and D. Chandler. Computer simulation study of the mean forces between ferrous and ferric ions in water. The Journal of Physical Chemistry, 96(15), 1992.
    • (1992) The Journal of Physical Chemistry , vol.96 , Issue.15
    • Bader, J.1    Chandler, D.2
  • 5
    • 21044454029 scopus 로고    scopus 로고
    • Design and exploitation of a high-performance SIMD floating-point unit for blue gene/L
    • S. Chatterjee et al. Design and exploitation of a high-performance SIMD floating-point unit for Blue Gene/L. IBM Journal of Research and Development, 49(2/3):377-392, 2005. http://www.research.ibm. com/journal/rd/492/chatterjee. pdf.
    • (2005) IBM Journal of Research and Development , vol.49 , Issue.2-3 , pp. 377-392
    • Chatterjee, S.1
  • 6
    • 22244433235 scopus 로고    scopus 로고
    • How to mesh up ewald sums. i. a theoretical and numerical comparison of various particle mesh routines
    • M. Deserno and C. Hohn. How to mesh up ewald sums. i. a theoretical and numerical comparison of various particle mesh routines. J. Chem. Phys., 109(18):7678-7693, 1998.
    • (1998) J. Chem. Phys. , vol.109 , Issue.18 , pp. 7678-7693
    • Deserno, M.1    Hohn, C.2
  • 7
    • 19344378421 scopus 로고    scopus 로고
    • Scalable framework for 3d FFTs on the blue gene/L supercomputer Implementation and early performance measurements
    • M. Eleftheriou, B. Fitch, A. Rayshubskiy, T. Ward, and R. Germain. Scalable framework for 3d FFTs on the Blue Gene/L supercomputer Implementation and early performance measurements. IBM Journal of Research and Development, 49(2/3):457-464, 2005. http://www.research.ibm.ccm/journal/rd/ 492/eleftheriou.pdf.
    • (2005) IBM Journal of Research and Development , vol.49 , Issue.2-3 , pp. 457-464
    • Eleftheriou, M.1    Fitch, B.2    Rayshubskiy, A.3    Ward, T.4    Germain, R.5
  • 8
    • 21044444273 scopus 로고    scopus 로고
    • Custom math functions for molecular dynamics
    • R. Enenkel et al. Custom math functions for molecular dynamics. IBM Journal of Research and Development, 49(2/3):465-474, 2005. http://www.research. ibm. com/journal/rd/492/enenkel.pdf.
    • (2005) IBM Journal of Research and Development , vol.49 , Issue.2-3 , pp. 465-474
    • Enenkel, R.1
  • 10
    • 21044437801 scopus 로고    scopus 로고
    • Overview of the blue gene/L system architecture
    • A. Gara et al. Overview of the Blue Gene/L system architecture. IBM Journal of Research and Development, 49(2/3):195-212, 2005. http://www.research. ibm. com/journal/rd/492/gara.pdf.
    • (2005) IBM Journal of Research and Development , vol.49 , Issue.2-3 , pp. 195-212
    • Gara, A.1
  • 11
    • 21044435018 scopus 로고    scopus 로고
    • Blue gene/L advanced diagnostics environment
    • M. Giampapa et al. Blue Gene/L advanced diagnostics environment. IBM Journal of Research and Development, 49(2/3):319-332, 2005. http://www.research. ibm. com/journal/rd/492/giampapa.pdf.
    • (2005) IBM Journal of Research and Development , vol.49 , Issue.2-3 , pp. 319-332
    • Giampapa, M.1
  • 12
    • 0036725277 scopus 로고    scopus 로고
    • Molecular dynamics simulations of biomolecules
    • September
    • M. Karplus and J. McCammon. Molecular dynamics simulations of biomolecules. Nature Structural Biology, 9(9):646-652, September 2002.
    • (2002) Nature Structural Biology , vol.9 , Issue.9 , pp. 646-652
    • Karplus, M.1    McCammon, J.2
  • 13
    • 19344369109 scopus 로고    scopus 로고
    • Vectorization techniques for the blue gene/L double FPU
    • J. Lorenz, S. Kral, F. Franchetti, and C. Ueberhuber. Vectorization techniques for the Blue Gene/L double FPU. IBM Journal of Research and Development, 49(2/3):437-446, 2005. http://www.research.ibm. com/journal/rd/492/lorenz.pdf.
    • (2005) IBM Journal of Research and Development , vol.49 , Issue.2-3 , pp. 437-446
    • Lorenz, J.1    Kral, S.2    Franchetti, F.3    Ueberhuber, C.4
  • 14
    • 21044455436 scopus 로고    scopus 로고
    • Blue gene/L programming and operating environment
    • J. Moreira et al. Blue Gene/L programming and operating environment. IBM Journal of Research and Development, 49(2/3):367-376, 2005. http://www.research. ibm. com/journal/rd/492/moreira.pdf.
    • (2005) IBM Journal of Research and Development , vol.49 , Issue.2-3 , pp. 367-376
    • Moreira, J.1
  • 16
    • 16844365398 scopus 로고    scopus 로고
    • Role of cholesterol and polyunsaturated chains in lipid-protein interactions: Molecular dynamics simulation of rhodopsin in a realistic membrane environment
    • M. C. Pitman, A. Grossfield, F. Suits, and S. E. Feller. Role of cholesterol and polyunsaturated chains in lipid-protein interactions: Molecular dynamics simulation of rhodopsin in a realistic membrane environment. Journal of the American Chemical Society, 127(13):4576-4577, 2005. http://dx.doi.org/10. 1021/ja042715y.
    • (2005) Journal of the American Chemical Society , vol.127 , Issue.13 , pp. 4576-4577
    • Pitman, M.C.1    Grossfield, A.2    Suits, F.3    Feller, S.E.4
  • 17
    • 0000042162 scopus 로고    scopus 로고
    • A new parallel method for molecular dynamics simulation of macromolecular systems
    • S. Plimpton and B. Hendrickson. A new parallel method for molecular dynamics simulation of macromolecular systems. Journal of Computational Chemistry, 17(3):326-337, 1996.
    • (1996) Journal of Computational Chemistry , vol.17 , Issue.3 , pp. 326-337
    • Plimpton, S.1    Hendrickson, B.2
  • 18
    • 19344362622 scopus 로고    scopus 로고
    • IBM powerPC 440 FPU with complex-arithmetic extensions
    • C. Wait. IBM PowerPC 440 FPU with complex-arithmetic extensions. IBM Journal of Research and Development, 49(2/3):249-254, 2005. http://www.research. ibm. com/journal/rd/492/wait.pdf.
    • (2005) IBM Journal of Research and Development , vol.49 , Issue.2-3 , pp. 249-254
    • Wait, C.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.