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    BIBE
    2005
    IEEE
    88views Bioinformatics» more  BIBE 2005»
    Improved Phylogenetic Motif Detection Using Parsimony
    13 years 10 months ago
    Improved Phylogenetic Motif Detection Using Parsimony
    Download  www.phylo.org
    We have recently demonstrated (La et al, Proteins, 58:2005) that sequence fragments approximating the overall familial phylogeny, called phylogenetic motifs (PMs), represent a pro...
    Usman Roshan, Dennis R. Livesay, David La
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    BMCBI
    2006
    144views more  BMCBI 2006»
    More robust detection of motifs in coexpressed genes by using phylogenetic information
    13 years 4 months ago
    More robust detection of motifs in coexpressed genes by using phylogenetic information
    Download  www.biomedcentral.com
    Background: Several motif detection algorithms have been developed to discover overrepresented motifs in sets of coexpressed genes. However, in a noisy gene list, the number of ge...
    Pieter Monsieurs, Gert Thijs, Abeer A. Fadda, Sigr...
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    BMCBI
    2008
    118views more  BMCBI 2008»
    Evaluation of phylogenetic footprint discovery for predicting bacterial cis-regulatory elements and revealing their evolution
    13 years 4 months ago
    Evaluation of phylogenetic footprint discovery for predicting bacterial cis-regulatory elements and revealing their evolution
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    Background: The detection of conserved motifs in promoters of orthologous genes (phylogenetic footprints) has become a common strategy to predict cis-acting regulatory elements. S...
    Rekin's Janky, Jacques van Helden
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    BMCBI
    2008
    126views more  BMCBI 2008»
    c-REDUCE: Incorporating sequence conservation to detect motifs that correlate with expression
    13 years 4 months ago
    c-REDUCE: Incorporating sequence conservation to detect motifs that correlate with expression
    Download  www.biomedcentral.com
    Background: Computational methods for characterizing novel transcription factor binding sites search for sequence patterns or "motifs" that appear repeatedly in genomic ...
    Katerina Kechris, Hao Li
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    TSP
    2008
    91views more  TSP 2008»
    A Sequential Monte Carlo Method for Motif Discovery
    13 years 4 months ago
    A Sequential Monte Carlo Method for Motif Discovery
    Download  www.eurasip.org
    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...
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