Energy efficient biomolecular simulations with FPGA-based reconfigurable computing

CF 2010 - Proceedings of the 2010 Computing Frontiers Conference

Volumn , Issue , 2010, Pages 83-84

  Nallamuthu, Ananth ^a   Smith, Melissa C ^a   Hampton, Scott ^b   Agarwal, Pratul K ^b   Alam, Sadaf R ^c  

^a CLEMSON UNIVERSITY   (United States)

^b OAK RIDGE NATIONAL LABORATORY   (United States)

^c Centro Svizzero Di Calcolo Scientifico   (Switzerland)

Author keywords

biomolecular simulations; fpga; lammps; molecular dynamics; reconfigurable computing

Indexed keywords

ALTERNATIVE ALGORITHMS; ATTRACTIVE SOLUTIONS; BIOMOLECULAR PROCESS; BIOMOLECULAR SIMULATION; BIOMOLECULAR SIMULATIONS; CO-PROCESSORS; ENERGY EFFICIENT; FINE GRAIN PARALLELISM; HARDWARE SOLUTIONS; HETEROGENEOUS COMPUTING; LOW-POWER CONSUMPTION; MD SIMULATION; PARTICLE MESH EWALD METHODS; POWER-PERFORMANCE EFFICIENCY; RECONFIGURABLE COMPUTING; SIMULATION CAPABILITY; SPEED-UPS; TIME-SCALES; TIME-TO-SOLUTION; WIDE GAP;

HARDWARE; MOLECULAR DYNAMICS;

RECONFIGURABLE HARDWARE;

EID: 77954531947     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1145/1787275.1787294     Document Type: Conference Paper

References (5)

1. LAMMPS home page, http://lammps.sandia.gov.
2. SRC-7 Carte v3.2 C Programming Environment Guide, 2009.
3. Introduction to the SRC-7 MAPstation, http://www.srccomputers.com.
4. Kindratenko, V. and D. Pointer, "A case study in porting a production scientific supercomputing application to a reconfigurable computer," in Proceedings of the 14th Annual IEEE Symposium on Field-Programmable Custom Computing Machines, Washington, DC, 2006.
5. Alam, S. R., P.K. Agarwal, M.C. Smith, J.S. Vetter, and D. Caliga, "Using FPGA Devices to Accelerate Biomolecular Simulations," Computer, 40(3), pp. 66-73, 2007.