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Volumn , Issue , 2007, Pages 151-158

Discrete event simulation of molecular dynamics with configurable logic

Author keywords

[No Author keywords available]

Indexed keywords

CONFIGURABLE LOGICS; DISCRETE EVENTS; DISCRETIZED MODELS; MICROARCHITECTURE; MOLECULAR DYNAMICS SIMULATIONS; ORDERS OF MAGNITUDES; REORDER BUFFERS; SMALL MULTIPLES; SPEED-UP; TIME STEPS;

EID: 48149093869     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/FPL.2007.4380640     Document Type: Conference Paper
Times cited : (11)

References (26)
  • 1
    • 34147177681 scopus 로고    scopus 로고
    • Using FPGA devices to accelerate biomolecular simulations
    • Alam, S., Agarwal, P., Smith, M., Vetter, J., and Caliga, D. Using FPGA devices to accelerate biomolecular simulations. Computer 40, 3 (2007), 66-73.
    • (2007) Computer , vol.40 , Issue.3 , pp. 66-73
    • Alam, S.1    Agarwal, P.2    Smith, M.3    Vetter, J.4    Caliga, D.5
  • 2
    • 48149091109 scopus 로고    scopus 로고
    • Annapolis Micro Systems, Inc, Annapolis, MD
    • Annapolis Micro Systems, Inc. WILDSTAR II PRO for PCI. Annapolis, MD, 2006.
    • (2006) WILDSTAR II PRO for PCI
  • 4
    • 0036577236 scopus 로고    scopus 로고
    • An architecture for a nondeterministic distributed simulator
    • Bumble, M., and Coraor, L. An architecture for a nondeterministic distributed simulator. IEEE Transactions on Vehicular Technology 51, 3 (2002), 453-471.
    • (2002) IEEE Transactions on Vehicular Technology , vol.51 , Issue.3 , pp. 453-471
    • Bumble, M.1    Coraor, L.2
  • 5
    • 23944480351 scopus 로고    scopus 로고
    • Simple but predictive protein models
    • Ding, F., and Dokholyan, N. Simple but predictive protein models. Trends in Biotechnology 3, 9 (2005), 450-455.
    • (2005) Trends in Biotechnology , vol.3 , Issue.9 , pp. 450-455
    • Ding, F.1    Dokholyan, N.2
  • 6
    • 32344442405 scopus 로고    scopus 로고
    • Studies of folding and misfolding using simplified models
    • Dokholyan, N. Studies of folding and misfolding using simplified models. Current Opinion in Structural Biology 16 (2006), 79-85.
    • (2006) Current Opinion in Structural Biology , vol.16 , pp. 79-85
    • Dokholyan, N.1
  • 7
    • 10244220980 scopus 로고    scopus 로고
    • Neighbor list collision-driven molecular dynamics simulation for nonspherical particle (parts 1 and 2)
    • Donev, A., Stillinger, F., and Torquato, S. Neighbor list collision-driven molecular dynamics simulation for nonspherical particle (parts 1 and 2). Journal of Computational Physics 202, 2 (2005), 737-793.
    • (2005) Journal of Computational Physics , vol.202 , Issue.2 , pp. 737-793
    • Donev, A.1    Stillinger, F.2    Torquato, S.3
  • 8
    • 84976676590 scopus 로고
    • Parallel discrete event simulation
    • Fujimoto, R. Parallel discrete event simulation. Communications of the ACM 33, 10 (1990), 30-53.
    • (1990) Communications of the ACM , vol.33 , Issue.10 , pp. 30-53
    • Fujimoto, R.1
  • 12
    • 33846844133 scopus 로고    scopus 로고
    • A case study in porting a production scientific supercomputing applicationto a reconfigurable computer
    • Kindratenko, V., and Pointer, D. A case study in porting a production scientific supercomputing applicationto a reconfigurable computer. In Proc. Field Prog. Custom Computing Machines (2006).
    • (2006) Proc. Field Prog. Custom Computing Machines
    • Kindratenko, V.1    Pointer, D.2
  • 14
    • 0010570901 scopus 로고
    • Simulating billiards: Serially and in parallel
    • Lubachevsky, B. Simulating billiards: Serially and in parallel. Int. J. Comp. in Sim. 2 (1992), 373-411.
    • (1992) Int. J. Comp. in Sim , vol.2 , pp. 373-411
    • Lubachevsky, B.1
  • 16
    • 0344981326 scopus 로고    scopus 로고
    • Event-driven molecular dynamics in parallel
    • Miller, S., and Luding, S. Event-driven molecular dynamics in parallel. Journal of Computational Physics 193, 1 (2004), 306-316.
    • (2004) Journal of Computational Physics , vol.193 , Issue.1 , pp. 306-316
    • Miller, S.1    Luding, S.2
  • 17
    • 0034316208 scopus 로고    scopus 로고
    • Scalable hardware priority queue architectures for high-speed packet switches
    • Moon, S.-W., Rexford, J., and Shin, K. Scalable hardware priority queue architectures for high-speed packet switches. IEEE Transactions on Computers TC-49, 11(2001), 1215-1227.
    • (2001) IEEE Transactions on Computers , vol.TC-49 , Issue.11 , pp. 1215-1227
    • Moon, S.-W.1    Rexford, J.2    Shin, K.3
  • 18
    • 33846366012 scopus 로고    scopus 로고
    • A complexity O(1) priority queue for event driven molecular dynamics simulations
    • Paul, G. A complexity O(1) priority queue for event driven molecular dynamics simulations. Journal of Computational Physics 221 (2006), 615-625.
    • (2006) Journal of Computational Physics , vol.221 , pp. 615-625
    • Paul, G.1
  • 19
    • 0000439253 scopus 로고
    • Molecular dynamics study of a polymer chain in solution
    • Rapaport, D. Molecular dynamics study of a polymer chain in solution. J. Chemical Physics 71, 8 (1979).
    • (1979) J. Chemical Physics , vol.71 , pp. 8
    • Rapaport, D.1
  • 21
    • 34548223233 scopus 로고    scopus 로고
    • Preliminary investigation of advanced electrostatics in molecular dynamics on reconfigurable computers
    • Scrofano, R., and Prasanna, V. Preliminary investigation of advanced electrostatics in molecular dynamics on reconfigurable computers. In Supercomputing (2006).
    • (2006) Supercomputing
    • Scrofano, R.1    Prasanna, V.2
  • 22
    • 33847770470 scopus 로고    scopus 로고
    • Multiscale modeling of nucleosome dynamics
    • Sharma, S., Ding, F., and Dokholyan, N. Multiscale modeling of nucleosome dynamics. Biophysical Journal 92 (2007), 1457-1470.
    • (2007) Biophysical Journal , vol.92 , pp. 1457-1470
    • Sharma, S.1    Ding, F.2    Dokholyan, N.3
  • 25
    • 33749601705 scopus 로고    scopus 로고
    • Ab initio discrete molecular dynamics approach to protein folding and aggregation
    • Urbanc, B., Borreguero, J., Cruz, L., and Stanley, H. Ab initio discrete molecular dynamics approach to protein folding and aggregation. Methods in Enzymology 412 (2006), 314-338.
    • (2006) Methods in Enzymology , vol.412 , pp. 314-338
    • Urbanc, B.1    Borreguero, J.2    Cruz, L.3    Stanley, H.4
  • 26
    • 46249127881 scopus 로고    scopus 로고
    • Application-dependent memory interleaving enables high performance in FPGA-based grid computations
    • VanCourt, T., and Herbordt, M. Application-dependent memory interleaving enables high performance in FPGA-based grid computations. In Proc. Field Prog. Logic and Applications (2006), pp. 395-401.
    • (2006) Proc. Field Prog. Logic and Applications , pp. 395-401
    • VanCourt, T.1    Herbordt, M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.