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FCCM
2007
IEEE
169views VLSI» more  FCCM 2007»
14 years 2 months ago
FPGA-Based Multigrid Computation for Molecular Dynamics Simulations
Abstract: FPGA-based acceleration of molecular dynamics (MD) has been the subject of several recent studies. Implementing long-range forces, however, has only recently been address...
Yongfeng Gu, Martin C. Herbordt
IPPS
1998
IEEE
13 years 12 months ago
HIPIQS: A High-Performance Switch Architecture Using Input Queuing
Switch-based interconnects are used in a number of application domains including parallel system interconnects, local area networks, and wide area networks. However, very few swit...
Rajeev Sivaram, Craig B. Stunkel, Dhabaleswar K. P...
ARC
2007
Springer
140views Hardware» more  ARC 2007»
13 years 11 months ago
Reconfigurable Computing for Accelerating Protein Folding Simulations
Abstract. This paper presents a methodology for the design of a reconfigurable computing system applied to a complex problem in molecular Biology: the protein folding problem. An e...
Nilton B. Armstrong, Heitor S. Lopes, Carlos R. Er...
FPL
2006
Springer
123views Hardware» more  FPL 2006»
13 years 11 months ago
Improved Interpolation and System Integration for FPGA-Based Molecular Dynamics Simulations
: FPGA-based acceleration of molecular dynamics (MD) has been the subject of several recent studies. Here we describe a new non-bonded force computation pipeline implemented on a 2...
Yongfeng Gu, Tom Van Court, Martin C. Herbordt
WOB
2004
120views Bioinformatics» more  WOB 2004»
13 years 9 months ago
Reconfigurable Systems for Sequence Alignment and for General Dynamic Programming
ABSTRACT. Reconfigurable systolic arrays can be adapted to efficiently resolve a wide spectrum of computational problems; parallelism is naturally explored in systolic arrays and r...
Ricardo P. Jacobi, Mauricio Ayala-Rincón, L...