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GenomicsCo-regulation of transcription factor binding and nucleosome occupancy through DNA features of mammalian enhancers
In mammalian cells transcription factors (TFs) preferentially bind sites contained in regions of high nucleosomal occupancy, as determined by nucleotide-dependent computational analysis. This observation suggests that nucleosomes may act as gatekeepers of TF binding sites. We hypothesized that in mam...
ORGANISM(S): Mus musculus 
2014-05-08 | E-GEOD-50762 | biostudies-arrayexpress
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ProteomicsGenomic regions flanking E-box sites influence DNA binding specificity of bHLH transcription factors through DNA shape (different concentrations)
DNA sequence is a major determinant of the binding specificity of transcription factors (TFs) for their genomic targets. However, eukaryotic cells often express, at the same time, TFs with highly similar DNA binding motifs but distinct in vivo targets. Currently, it is not well understood how TFs wit...
ORGANISM(S): Saccharomyces cerevisiae 
2013-03-29 | E-GEOD-44436 | biostudies-arrayexpress
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ProteomicsGenomic regions flanking E-box sites influence DNA binding specificity of bHLH transcription factors through DNA shape (validation)
DNA sequence is a major determinant of the binding specificity of transcription factors (TFs) for their genomic targets. However, eukaryotic cells often express, at the same time, TFs with highly similar DNA binding motifs but distinct in vivo targets. Currently, it is not well understood how TFs wit...
ORGANISM(S): Saccharomyces cerevisiae 
2013-03-29 | E-GEOD-44437 | biostudies-arrayexpress
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TranscriptomicsUnraveling determinants of transcription factor binding outside the core binding site
Binding of transcription factors (TFs) to regulatory sequences is a pivotal step in the control of gene expression. Despite many advances in the characterization of sequence motifs recognized by TFs, our ability to quantitatively predict TF binding to different regulatory sequences is still limited. ...
ORGANISM(S): synthetic construct 
2015-03-04 | E-GEOD-66143 | biostudies-arrayexpress
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