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» Evaluating Parallel Computing Systems in Bioinformatics
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95
Voted
IPPS
2010
IEEE
14 years 7 months ago
Restructuring parallel loops to curb false sharing on multicore architectures
The memory hierarchy of most multicore systems contains one or more levels of cache that is shared among multiple cores. The shared-cache architecture presents many opportunities f...
Santosh Sarangkar, Apan Qasem
95
Voted
IPPS
2007
IEEE
15 years 4 months ago
Reconfigurable Architecture for Biological Sequence Comparison in Reduced Memory Space
DNA sequence alignment is a very important problem in bioinformatics. The algorithm proposed by Smith-Waterman (SW) is an exact method that obtains optimal local alignments in qua...
Azzedine Boukerche, Jan Mendonca Correa, Alba Cris...
IPPS
2006
IEEE
15 years 3 months ago
Implementation of a programmable array processor architecture for approximate string matching algorithms on FPGAs
Approximate string matching problem is a common and often repeated task in information retrieval and bioinformatics. This paper proposes a generic design of a programmable array p...
Panagiotis D. Michailidis, Konstantinos G. Margari...
HPCA
2007
IEEE
15 years 10 months ago
Exploiting Postdominance for Speculative Parallelization
Task-selection policies are critical to the performance of any architecture that uses speculation to extract parallel tasks from a sequential thread. This paper demonstrates that ...
Mayank Agarwal, Kshitiz Malik, Kevin M. Woley, Sam...
CLUSTER
2004
IEEE
15 years 1 months ago
An evaluation of the close-to-files processor and data co-allocation policy in multiclusters
In multicluster systems, and more generally, in grids, jobs may require co-allocation, i.e., the simultaneous allocation of resources such as processors and input files in multipl...
Hashim H. Mohamed, Dick H. J. Epema