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» Parallel Multiple Sequence Alignment Using Speculative Compu...
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CF
2009
ACM
15 years 6 months ago
Quantitative analysis of sequence alignment applications on multiprocessor architectures
The exponential growth of databases that contains biological information (such as protein and DNA data) demands great efforts to improve the performance of computational platforms...
Friman Sánchez, Alex Ramírez, Mateo ...
BMCBI
2011
14 years 3 months ago
Protein alignment algorithms with an efficient backtracking routine on multiple GPUs
Background: Pairwise sequence alignment methods are widely used in biological research. The increasing number of sequences is perceived as one of the upcoming challenges for seque...
Jacek Blazewicz, Wojciech Frohmberg, Michal Kierzy...
RECOMB
1997
Springer
15 years 3 months ago
A branch-and-cut algorithm for multiple sequence alignment
Multiple sequence alignment is an important problem in computational biology. We study the Maximum Trace formulation introduced by Kececioglu [?]. We first phrase the problem in ...
Knut Reinert, Hans-Peter Lenhof, Petra Mutzel, Kur...
ICS
1999
Tsinghua U.
15 years 4 months ago
Clustered speculative multithreaded processors
In this paper we present a processor microarchitecture that can simultaneously execute multiple threads and has a clustered design for scalability purposes. A main feature of the ...
Pedro Marcuello, Antonio González
RECOMB
2009
Springer
16 years 9 days ago
Learning Models for Aligning Protein Sequences with Predicted Secondary Structure
Accurately aligning distant protein sequences is notoriously difficult. A recent approach to improving alignment accuracy is to use additional information such as predicted seconda...
Eagu Kim, Travis J. Wheeler, John D. Kececioglu