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ISMB
1997
13 years 10 months ago
Automated Alignment of RNA Sequences to Pseudoknotted Structures
Seq7 is a newprogramfor generating multiple structure-based alignments of RNAsequences. Byusing a variant of Dijkstra’s algorithm to find the shortest path through a specially c...
Jack E. Tabaska, Gary D. Stormo
BMCBI
2008
111views more  BMCBI 2008»
13 years 9 months ago
CBESW: Sequence Alignment on the Playstation 3
Background: The exponential growth of available biological data has caused bioinformatics to be rapidly moving towards a data-intensive, computational science. As a result, the co...
Adrianto Wirawan, Chee Keong Kwoh, Nim Tri Hieu, B...
CIAC
2010
Springer
194views Algorithms» more  CIAC 2010»
14 years 1 months ago
An Algorithmic Framework for Motif Discovery Problems in Weighted Sequences
A weighted sequence is a string in which a set of characters may appear at each position with respective probabilities of occurrence. A common task is to locate a given motif in a ...
Hui Zhang, Qing Guo, Costas S. Iliopoulos
BIBM
2009
IEEE
113views Bioinformatics» more  BIBM 2009»
14 years 6 days ago
Fast Motif Selection for Biological Sequences
—We consider the problem of identifying motifs, recurring or conserved patterns, in the sets of biological sequences. To solve this task, we present new deterministic and exact a...
Pavel P. Kuksa, Vladimir Pavlovic
BMCBI
2011
13 years 3 months ago
Ultra-fast sequence clustering from similarity networks with SiLiX
Background: The number of gene sequences that are available for comparative genomics approaches is increasing extremely quickly. A current challenge is to be able to handle this h...
Vincent Miele, Simon Penel, Laurent Duret