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» Algorithms for Challenging Motif Problems
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BMCBI
2007
247views more  BMCBI 2007»
13 years 8 months ago
A survey of DNA motif finding algorithms
Background: Unraveling the mechanisms that regulate gene expression is a major challenge in biology. An important task in this challenge is to identify regulatory elements, especi...
Modan K. Das, Ho-Kwok Dai
MFCS
2007
Springer
14 years 2 months ago
Structural Analysis of Gapped Motifs of a String
Abstract. We investigate the structure of the set of gapped motifs (repeated patterns with don’t cares) of a given string of symbols. A natural equivalence classification is int...
Esko Ukkonen
TCS
2008
13 years 7 months ago
Motif patterns in 2D
Motif patterns consisting of sequences of intermixed solid and don't care characters have been introduced and studied in connection with pattern discovery problems of computa...
Alberto Apostolico, Laxmi Parida, Simona E. Rombo
GECCO
2005
Springer
140views Optimization» more  GECCO 2005»
14 years 1 months ago
MDGA: motif discovery using a genetic algorithm
Computationally identifying transcription factor binding sites in the promoter regions of genes is an important problem in computational biology and has been under intensive resea...
Dongsheng Che, Yinglei Song, Khaled Rasheed
EVOW
2010
Springer
13 years 6 months ago
Finding Gapped Motifs by a Novel Evolutionary Algorithm
Background: Identifying approximately repeated patterns, or motifs, in DNA sequences from a set of co-regulated genes is an important step towards deciphering the complex gene reg...
Chengwei Lei, Jianhua Ruan