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» Detecting Motifs from Sequences
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BMCBI
2007
144views more  BMCBI 2007»
13 years 5 months ago
Motif kernel generated by genetic programming improves remote homology and fold detection
Background: Protein remote homology detection is a central problem in computational biology. Most recent methods train support vector machines to discriminate between related and ...
Tony Håndstad, Arne J. H. Hestnes, Pål...
TSP
2008
91views more  TSP 2008»
13 years 5 months ago
A Sequential Monte Carlo Method for Motif Discovery
We propose a sequential Monte Carlo (SMC)-based motif discovery algorithm that can efficiently detect motifs in datasets containing a large number of sequences. The statistical di...
Kuo-ching Liang, Xiaodong Wang, Dimitris Anastassi...
BMCBI
2007
247views more  BMCBI 2007»
13 years 5 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
ISBRA
2009
Springer
14 years 17 days ago
Analysis of Cis-Regulatory Motifs in Cassette Exons by Incorporating Exon Skipping Rates
Identification of cis-regulatory motifs has long been a hotspot in the study of alternative splicing. We propose a two-step approach: we first identify k-mer seed motifs by testing...
Sihui Zhao, Jihye Kim, Steffen Heber
BMCBI
2004
229views more  BMCBI 2004»
13 years 5 months ago
Automatic annotation of protein motif function with Gene Ontology terms
Background: Conserved protein sequence motifs are short stretches of amino acid sequence patterns that potentially encode the function of proteins. Several sequence pattern search...
Xinghua Lu, Chengxiang Zhai, Vanathi Gopalakrishna...