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IPPS
1994
IEEE
15 years 6 months ago
Building Multithreaded Architectures with Off-the-Shelf Microprocessors
Present-day parallel computers often face the problems of large software Overheadsfor process switching and interprocessor communication. These problems are addressed by the Multi...
Herbert H. J. Hum, Kevin B. Theobald, Guang R. Gao
ISHPC
2003
Springer
15 years 7 months ago
Performance Study of a Whole Genome Comparison Tool on a Hyper-Threading Multiprocessor
We developed a multithreaded parallel implementation of a sequence alignment algorithm that is able to align whole genomes with reliable output and reasonable cost. This paper pres...
Juan del Cuvillo, Xinmin Tian, Guang R. Gao, Milin...
BMCBI
2008
244views more  BMCBI 2008»
15 years 2 months ago
RNAalifold: improved consensus structure prediction for RNA alignments
Background: The prediction of a consensus structure for a set of related RNAs is an important first step for subsequent analyses. RNAalifold, which computes the minimum energy str...
Stephan H. F. Bernhart, Ivo L. Hofacker, Sebastian...
APPT
2007
Springer
15 years 4 months ago
A Parallel BSP Algorithm for Irregular Dynamic Programming
Dynamic programming is a widely applied algorithm design technique in many areas such as computational biology and scientific computing. Typical applications using this technique a...
Malcolm Yoke-Hean Low, Weiguo Liu, Bertil Schmidt
BMCBI
2010
142views more  BMCBI 2010»
15 years 2 months ago
Classification of protein sequences by means of irredundant patterns
Background: The classification of protein sequences using string algorithms provides valuable insights for protein function prediction. Several methods, based on a variety of diff...
Matteo Comin, Davide Verzotto