MISCORE: a new scoring function for characterizing DNA regulatory motifs in promoter sequences
نویسندگان
چکیده
منابع مشابه
Supervised detection of regulatory motifs in DNA sequences.
Identification of transcription factor binding sites (regulatory motifs) is a major interest in contemporary biology. We propose a new likelihood based method, COMODE, for identifying structural motifs in DNA sequences. Commonly used methods (e.g. MEME, Gibbs motif sampler) model binding sites as families of sequences described by a position weight matrix (PWM) and identify PWMs that maximize t...
متن کاملA niched Pareto genetic algorithm for finding variable length regulatory motifs in DNA sequences
The transcription factor binding sites also called as motifs are short, recurring patterns in DNA sequences that are presumed to have a biological function. Identification of the motifs from the promoter region of the genes is an important and unsolved problem specifically in the eukaryotic genomes. In this paper, we present a niched Pareto genetic algorithm to identify the regulatory motifs. T...
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متن کاملDetection of Tissue Specific Genes by Putative Regulatory Motifs in Human Promoter Sequences
Gene expression of multi-cellular organisms is regulated by transcription factors (TFs) that interact with regulatory cis-elements on DNA sequences. To find the functional regulatory elements, computer searching can predict TF binding sites (TFBS) using position weight matrices (PWMs) that represent positional base frequencies of collected experimentally determined TFBS. However, it is still di...
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Regulatory motifs can be found by local multiple alignment of upstream regions from coregulated sets of genes, or regulons. We searched for regulatory motifs using the program AlignACE together with a set of filters that helped us choose the motifs most likely to be biologically relevant in 17 complete microbial genomes. We searched the upstream regions of potentially coregulated genes grouped ...
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ژورنال
عنوان ژورنال: BMC Systems Biology
سال: 2012
ISSN: 1752-0509
DOI: 10.1186/1752-0509-6-s2-s4