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CF
2007
ACM
10 years 2 months ago
Parallel genomic sequence-search on a massively parallel system
In the life sciences, genomic databases for sequence search have been growing exponentially in size. As a result, faster sequencesearch algorithms to search these databases contin...
Oystein Thorsen, Brian E. Smith, Carlos P. Sosa, K...
EUROPAR
2003
Springer
10 years 3 months ago
An Overview of the Blue Gene/L System Software Organization
Abstract. The Blue Gene/L supercomputer will use system-on-a-chip integration and a highly scalable cellular architecture. With 65,536 compute nodes, Blue Gene/L represents a new l...
George Almási, Ralph Bellofatto, José...
EUROPAR
2005
Springer
10 years 3 months ago
Early Experience with Scientific Applications on the Blue Gene/L Supercomputer
Abstract. Blue Gene/L uses a large number of low power processors, together with multiple integrated interconnection networks, to build a supercomputer with low cost, space and pow...
George S. Almasi, Gyan Bhanot, Dong Chen, Maria El...
SPAA
2006
ACM
10 years 4 months ago
Astronomical real-time streaming signal processing on a Blue Gene/L supercomputer
LOFAR is the first of a new generation of radio telescopes, that combines the signals from many thousands of simple, fixed antennas, rather than from expensive dishes. Its revol...
John W. Romein, P. Chris Broekema, Ellen van Meije...
PPOPP
2006
ACM
10 years 4 months ago
Performance characterization of molecular dynamics techniques for biomolecular simulations
Large-scale simulations and computational modeling using molecular dynamics (MD) continues to make significant impacts in the field of biology. It is well known that simulations...
Sadaf R. Alam, Jeffrey S. Vetter, Pratul K. Agarwa...
IPPS
2006
IEEE
10 years 4 months ago
Parallel implementation of the replica exchange molecular dynamics algorithm on Blue Gene/L
The Replica Exchange method is a popular approach for studying the folding thermodynamics of small to modest size proteins in explicit solvent, since it is easily parallelized. Ho...
Maria Eleftheriou, Aleksandr Rayshubskiy, Jed W. P...
IPPS
2006
IEEE
10 years 4 months ago
Achieving strong scaling with NAMD on Blue Gene/L
NAMD is a scalable molecular dynamics application, which has demonstrated its performance on several parallel computer architectures. Strong scaling is necessary for molecular dyn...
Sameer Kumar, Chao Huang, George Almási, La...
IPPS
2007
IEEE
10 years 4 months ago
An Adaptive Semantic Filter for Blue Gene/L Failure Log Analysis
— Frequent failure occurrences are becoming a serious concern to the community of high-end computing, especially when the applications and the underlying systems rapidly grow in ...
Yinglung Liang, Yanyong Zhang, Hui Xiong, Ramendra...
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