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• W2107768450 abstract "The human genome encodes the transcriptional control of its genes in clusters of cis‐elements that constitute enhancers, silencers and promoter signals. The sequence motifs of individual cis‐ elements are usually too short and degenerate for confident detection. In most cases, the requirements for organization of cis‐elements within these clusters are poorly understood. Therefore, we have developed a general method to detect local concentrations of cis‐element motifs, using predetermined matrix representations of the cis‐elements, and calculate the statistical significance of these motif clusters. The statistical significance calculation is highly accurate not only for idealized, pseudorandom DNA, but also for real human DNA. We use our method ‘cluster of motifs E‐value tool’ (COMET) to make novel predictions concerning the regulation of genes by transcription factors associated with muscle. COMET performs comparably with two alternative state‐of‐the‐art techniques, which are more complex and lack E‐value calculations. Our statistical method enables us to clarify the major bottleneck in the hard problem of detecting cis‐regulatory regions, which is that many known enhancers do not contain very significant clusters of the motif types that we search for. Thus, discovery of additional signals that belong to these regulatory regions will be the key to future progress." @default.
• W2107768450 created "2016-06-24" @default.
• W2107768450 creator A5039386346 @default.
• W2107768450 creator A5049117336 @default.
• W2107768450 creator A5055829507 @default.
• W2107768450 creator A5084369008 @default.
• W2107768450 date "2002-07-15" @default.
• W2107768450 modified "2023-09-30" @default.
• W2107768450 title "Statistical significance of clusters of motifs represented by position specific scoring matrices in nucleotide sequences" @default.
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• W2107768450 doi "https://doi.org/10.1093/nar/gkf438" @default.
• W2107768450 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/135758" @default.
• W2107768450 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/12136103" @default.
• W2107768450 hasPublicationYear "2002" @default.
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