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» Parallel Computation in Biological Sequence Analysis
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ISMB
2000
13 years 9 months ago
Towards a Systematics for Protein Subcellular Location: Quantitative Description of Protein Localization Patterns and Automated
Determination of the functions of all expressed proteins represents one of the major upcoming challenges in computational molecular biology. Since subcellular location plays a cru...
Robert F. Murphy, Michael V. Boland, Meel Velliste
IPPS
2008
IEEE
14 years 2 months ago
SWAMP: Smith-Waterman using associative massive parallelism
One of the most commonly used tools by computational biologists is some form of sequence alignment. Heuristic alignment algorithms developed for speed and their multiple results s...
Shannon Steinfadt, Johnnie W. Baker
JPDC
2007
167views more  JPDC 2007»
13 years 7 months ago
On the design of high-performance algorithms for aligning multiple protein sequences on mesh-based multiprocessor architectures
In this paper, we address the problem of multiple sequence alignment (MSA) for handling very large number of proteins sequences on mesh-based multiprocessor architectures. As the ...
Diana H. P. Low, Bharadwaj Veeravalli, David A. Ba...
NJC
2006
125views more  NJC 2006»
13 years 7 months ago
PRO: A Model for the Design and Analysis of Efficient and Scalable Parallel Algorithms
Abstract. We present a new parallel computation model called the Parallel ResourceOptimal computation model. PRO is a framework being proposed to enable the design of efficient and...
Assefaw Hadish Gebremedhin, Mohamed Essaïdi, ...
RECOMB
2010
Springer
14 years 2 months ago
A Novel Abundance-Based Algorithm for Binning Metagenomic Sequences Using l-Tuples
Abstract. Metagenomics is the study of microbial communities sampled directly from their natural environment, without prior culturing. Among the computational tools recently develo...
Yu-Wei Wu, Yuzhen Ye