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» Alignment of Non-Overlapping Sequences
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RECOMB
2006
Springer
14 years 10 months ago
Phylogenetic Profiling of Insertions and Deletions in Vertebrate Genomes
Micro-indels are small insertion or deletion events (indels) that occur during genome evolution. The study of micro-indels is important, both in order to better understand the unde...
Sagi Snir, Lior Pachter
ICASSP
2007
IEEE
14 years 4 months ago
Toward Turbo Decoding of RNA Secondary Structure
We propose an iterative probabilistic algorithm for estimation of RNA secondary structure using sequence data from two homologous sequences. The method is intended to exploit inte...
Arif Ozgun Harmanci, Gaurav Sharma, David H. Mathe...
CORR
2006
Springer
121views Education» more  CORR 2006»
13 years 10 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
ACL
2008
13 years 11 months ago
A Tree Sequence Alignment-based Tree-to-Tree Translation Model
This paper presents a translation model that is based on tree sequence alignment, where a tree sequence refers to a single sequence of subtrees that covers a phrase. The model lev...
Min Zhang, Hongfei Jiang, AiTi Aw, Haizhou Li, Che...
WABI
2005
Springer
110views Bioinformatics» more  WABI 2005»
14 years 3 months ago
Alignment of Tandem Repeats with Excision, Duplication, Substitution and Indels (EDSI)
Abstract. Traditional sequence comparison by alignment applies a mutation model comprising two events, substitutions and indels (insertions or deletions) of single positions (SI). ...
Michael Sammeth, Thomas Weniger, Dag Harmsen, Jens...