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Volumn , Issue , 2006, Pages 21-28

Improved interpolation and system integration for FPGA-based molecular dynamics simulations

Author keywords

[No Author keywords available]

Indexed keywords

COMMUNICATION OVERHEADS; DATA CONVERSION; ENZYME INHIBITORS; FIELD PROGRAMMABLE LOGIC (FPL); FLOATING POINT (FP); FPGA BOARDS; INTERNATIONAL CONFERENCES; MOLECULAR DYNAMICS (MD); MOLECULAR DYNAMICS SIMULATIONS (MDS); SPEED UPS; SYSTEM INTEGRATION (SI); XILINX VIRTEXII;

EID: 44049101194     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/FPL.2006.311190     Document Type: Conference Paper
Times cited : (24)

References (15)
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    • (2001) IBM Systems Journal , vol.40 , Issue.2 , pp. 310-327
    • Allen, F.1    and et, al.2
  • 2
    • 84986471218 scopus 로고
    • Error evaluation in the design of a special-purpose processor that calculates nonbonded forces In molecular dynamics simulations
    • Amisaki, T., Fujiwara, T., Kusumi, A., Miyagawa, H., and Kitamura, K. Error evaluation in the design of a special-purpose processor that calculates nonbonded forces In molecular dynamics simulations. Journal of Computational Chemistry 16, 9 (1995), 1120-1130.
    • (1995) Journal of Computational Chemistry , vol.16 , Issue.9 , pp. 1120-1130
    • Amisaki, T.1    Fujiwara, T.2    Kusumi, A.3    Miyagawa, H.4    Kitamura, K.5
  • 4
    • 0000219318 scopus 로고    scopus 로고
    • Overcoming stability limitations in biomolecular dynamics. I. combiningforce Splitting via extrapolation with Langevin dynamics in LN
    • Barth, E., and Schlick, T. Overcoming stability limitations in biomolecular dynamics. I. combiningforce Splitting via extrapolation with Langevin dynamics in LN. Journal of Chemical Physics 109, 5 (1998), 1617-1632.
    • (1998) Journal of Chemical Physics , vol.109 , Issue.5 , pp. 1617-1632
    • Barth, E.1    Schlick, T.2
  • 5
    • 33646412103 scopus 로고    scopus 로고
    • Blue Matter: Strong scaling of molecular dynamics on Blue Gene/L
    • Tech. Rep. RG23688 (W0508-035) Computer Science, IBM Research Division
    • Fitch, B., and et al. Blue Matter: Strong scaling of molecular dynamics on Blue Gene/L. Tech. Rep. RG23688 (W0508-035) Computer Science, IBM Research Division, 2005.
    • (2005)
    • Fitch, B.1    and et, al.2
  • 7
    • 33745141427 scopus 로고    scopus 로고
    • High-End Computing Revitalization Task Force
    • High-End Computing Revitalization Task Force. Federal plan for high-end computing, 2004.
    • (2004) Federal plan for high-end computing
  • 8
    • 33846844133 scopus 로고    scopus 로고
    • A case study in porting a production scientific supercomputing application to a reconfigurable computer
    • Kindratenko, V., and Pointer, D. A case study in porting a production scientific supercomputing application to a reconfigurable computer. In Field-Programmable Custom Computing Machines (2006).
    • (2006) Field-Programmable Custom Computing Machines
    • Kindratenko, V.1    Pointer, D.2
  • 9
    • 0001489848 scopus 로고    scopus 로고
    • Fast and accurate molecular dynamics simulation of a protein using a special-purpose computer
    • Komeiji, Y., Uebayasi, M., Takata, R., Shimizu, A., Itsukashi, K., and Taiji, M. Fast and accurate molecular dynamics simulation of a protein using a special-purpose computer. J. Comp. Chem. 18, 12 (1997), 1546-1563.
    • (1997) J. Comp. Chem , vol.18 , Issue.12 , pp. 1546-1563
    • Komeiji, Y.1    Uebayasi, M.2    Takata, R.3    Shimizu, A.4    Itsukashi, K.5    Taiji, M.6
  • 10
    • 8344261362 scopus 로고    scopus 로고
    • Matthey, T. ProtoMol, an object-oriented framework for prototyping novel algorithms for molecular dynamics. ACM Irans. Mathematical Software 30, 3 (2004), 237-265.
    • Matthey, T. ProtoMol, an object-oriented framework for prototyping novel algorithms for molecular dynamics. ACM Irans. Mathematical Software 30, 3 (2004), 237-265.
  • 13
    • 0001388416 scopus 로고    scopus 로고
    • Stuart, S., Zhou, R.., and Berne, B. Molecular dynamics with multiple time scales: The selection of efficient reference system propagators. Journal of Chemical Physics 105, 4 (1996), 1426-1436.
    • Stuart, S., Zhou, R.., and Berne, B. Molecular dynamics with multiple time scales: The selection of efficient reference system propagators. Journal of Chemical Physics 105, 4 (1996), 1426-1436.


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.