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Although sequence divergence between humans and other primates has been correlated with cis-regulatory regions known to bind transcription factors, these studies did not identify or quantify the binding of specific transcription factors [89] [92].
A relevant issue is how this is causally correlated to the binding of specific transcription factors (TFs) in regulatory regions.
Such a significant overrepresentation of these two motifs is likely due to a direct binding of specific transcription factors that are activated by the signal from cry1 through HFR1.
Methylation of the cytosine residues regulates transcription directly by inhibiting the binding of specific transcription factors, and indirectly by recruiting methyl-CpG-binding proteins and their associated repressive chromatin-remodeling activities [14].
However, it cannot be excluded that the presence of this SNP plays a role in the regulation of SGK1 expression, for example through modulation of the binding of specific transcription factors in the region.
The binding of specific transcription factors (TFs) controls the initialization or the expression level of genes.
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This identification process can be divided into two parts: determining the binding specificity of specific transcription factors, and then identifying TFBSs in a sequence using the binding specificity information.
Such a mechanism could potentially occur in rice, fine-tuning the expression of specific genes involved in Pi homeostasis by regulating the binding capacity of specific transcription factors to PSI genes.
These data demonstrate that A-type lamin-interacting gene promoters preferentially localize in genomic clusters, lack unique consensus lamin A-binding sequences, and are enriched for a small set of specific transcription factor binding motifs.
In addition, the positively associated CpGs were enriched for being part of specific transcription factor binding sites, of which MYC/MAX/EBOX-related, USF, and CREBBP1 binding sites were among the most prominent.
Using an in vitro differentiation system, we defined gene expression signatures of distinct progenitor populations and identified direct gene-regulatory inputs corresponding to locations of specific transcription factor binding.
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