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BMCBI
2007
128views more  BMCBI 2007»
13 years 7 months ago
Compression-based classification of biological sequences and structures via the Universal Similarity Metric: experimental assess
Background: Similarity of sequences is a key mathematical notion for Classification and Phylogenetic studies in Biology. It is currently primarily handled using alignments. Howeve...
Paolo Ferragina, Raffaele Giancarlo, Valentina Gre...
BMCBI
2007
126views more  BMCBI 2007»
13 years 7 months ago
Multiple non-collinear TF-map alignments of promoter regions
Background: The analysis of the promoter sequence of genes with similar expression patterns is a basic tool to annotate common regulatory elements. Multiple sequence alignments ar...
Enrique Blanco, Roderic Guigó, Xavier Messe...
CORR
2006
Springer
121views Education» more  CORR 2006»
13 years 7 months ago
Number sequence representation of protein structures based on the second derivative of a folded tetrahedron sequence
A protein is a sequence of amino-acids of length typically less than 1, 000, where there are 20 kinds of amino-acids. In nature, each protein is folded into a well-defined three-d...
Naoto Morikawa
RECOMB
1997
Springer
13 years 11 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...
CISIS
2010
IEEE
14 years 24 days ago
A Parallel Programming Framework for Multi-core DNA Sequence Alignment
—A new parallel programming framework for DNA sequence alignment in homogeneous multi-core processor architectures is proposed. Contrasting with traditional coarse-grained parall...
Tiago Jose Barreiros Martins de Almeida, Nuno Fili...