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IWANN
2009
Springer
14 years 4 months ago
Efficient Exact Pattern-Matching in Proteomic Sequences
Abstract. This paper proposes a novel algorithm for complete exact patternmatching focusing the specificities of protein sequences (alphabet of 20 symbols) but, also highly efficie...
Sérgio A. D. Deusdado, Paulo M. M. Carvalho
BMCBI
2008
122views more  BMCBI 2008»
13 years 10 months ago
Grammar-based distance in progressive multiple sequence alignment
Background: We propose a multiple sequence alignment (MSA) algorithm and compare the alignment-quality and execution-time of the proposed algorithm with that of existing algorithm...
David J. Russell, Hasan H. Otu, Khalid Sayood
CIBCB
2007
IEEE
14 years 4 months ago
Overestimation for Multiple Sequence Alignment
Abstract— Multiple sequence alignment is an important problem in computational biology. A-star is an algorithm that can be used to find exact alignments. We present a simple mod...
Tristan Cazenave
BMCBI
2008
106views more  BMCBI 2008»
13 years 10 months ago
Searching for evolutionary distant RNA homologs within genomic sequences using partition function posterior probabilities
Background: Identification of RNA homologs within genomic stretches is difficult when pairwise sequence identity is low or unalignable flanking residues are present. In both cases...
Usman Roshan, Satish Chikkagoudar, Dennis R. Lives...
CSB
2005
IEEE
167views Bioinformatics» more  CSB 2005»
14 years 3 months ago
SinicView: An Interactive Visualization Tool for Comparison of Multiple Sequence Alignment Results
In the initial stage of sequence analysis, a biologist is first faced with the questions about how to choose the best tool to align sequences of interest and how to analyze and v...
Arthur Chun-Chieh Shih, D. T. Lee, Laurent Lin, Ch...