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a, Violin plots showing the distance between each indicated enhancer and its cognate promoter in cells in which nascent transcripts were detected or absent.
This indicates enhancer-like chromatin epigenetic changes preceding post-mitotic DNA demethylation for this gene.
We first evaluated the GR binding and enhancer properties of sites belonging to each mode of nucleosome remodeling.
Both RNA-seq and in vitro reporter assays indicated that enhancer hypermethylation is globally associated with down-regulation of its host genes.
The analysis of sequence divergence of these enhancers indicated that the enhancers activated in different tissues evolve under negative selection but at a different degree of evolutionary constraint.
The statistical analysis for enhancer distribution (Additional file 1: Figure S3B) indicated that enhancers tend to be distal [ 3].
Mutational analysis of the most conserved placode-specific enhancer, Six1-21, indicathatthet thenhancerer integrates a variety of inputs from Sox, Pax, Fox, Six, Wnt/Lef1 and basic helix-loop-helix proteins.
The application of these approaches indicates that enhancers have unique properties that differentiate them from other CREs.
The colored bar on the bottom right indicates which enhancer was removed.
These predictions show enhancer-like properties according to positional distribution, correlation with gene expression and production of enhancer RNAs.
These results indicated that specific enhancer regions had a faster rate of sequence evolution.
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