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• W2000233467 abstract "DNA sequences bound by a transcription factor (TF) are presumed to contain sequence elements that reflect its DNA binding preferences and its downstream-regulatory effects. Experimentally identified TF binding sites (TFBSs) are usually similar enough to be summarized by a 'consensus' motif, representative of the TF DNA binding specificity. Studies have shown that groups of nucleotide TFBS variants (subtypes) can contribute to distinct modes of downstream regulation by the TF via differential recruitment of cofactors. A TF(A) may bind to TFBS subtypes a(1) or a(2) depending on whether it associates with cofactors TF(B) or TF(C), respectively. While some approaches can discover motif pairs (dyads), none address the problem of identifying 'variants' of dyads. TFs are key components of multiple regulatory pathways targeting different sets of genes perhaps with different binding preferences. Identifying the discriminating TF-DNA associations that lead to the differential downstream regulation is thus essential. We present DiSCo (Discovery of Subtypes and Cofactors), a novel approach for identifying variants of dyad motifs (and their respective target sequence sets) that are instrumental for differential downstream regulation. Using both simulated and experimental datasets, we demonstrate how current motif discovery can be successfully leveraged to address this question." @default.
• W2000233467 created "2016-06-24" @default.
• W2000233467 creator A5042618575 @default.
• W2000233467 creator A5071186147 @default.
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• W2000233467 date "2011-04-12" @default.
• W2000233467 modified "2023-09-25" @default.
• W2000233467 title "Finding subtypes of transcription factor motif pairs with distinct regulatory roles" @default.
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• W2000233467 doi "https://doi.org/10.1093/nar/gkr205" @default.
• W2000233467 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/3113591" @default.
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• W2000233467 hasPublicationYear "2011" @default.
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