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Precise gene expression patterns are established by transcription factor (TFs) binding to regulatory sequences.
HPr-S46 phosphorylation also facilitates the interaction of HPr with CcpA, enabling binding to regulatory sequences.
It has become increasingly evident that in addition to gene regulation by TF binding to regulatory sequences, eukaryotic gene expression is also regulated at a higher level, and several studies have demonstrated the dependency of gene expression on the location of the gene within the genome [ 5- 7].
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In order to assess whether binding to regulatory DNA sequences may be involved in the transcriptional effect of EBNA-1, putative promoter regions located −3000 to +500 bp relative to the transcription start of regulated genes were searched for the presence of putative EBNA-1 binding sites using an HMM profile generated from known EBNA-1 binding sequences.
RBPs that regulate AS are believed to predominantly act through direct binding to regulatory RNA sequence motifs in the exons and/or flanking intronic sequences of alternatively spliced exons (Fu and Ares, 2014).
This triggers translocation of NF-κB into the nucleus, where it initiates transcription by binding to regulatory DNA-sequences [ 1].
To examine whether DNA regions with significantly enriched motif binding sites correspond to regulatory sequences, we focused on regions that have binding sites significantly more than average (Z score ≥ 3.09, P ≤ 10−3).
We saw binding of ZNF703 to regulatory sequences of TGFBR2 (Fig 5D), with consequent repression of transcription.
However binding of a TF to regulatory sequences does not necessarily imply regulation of gene expression.
Since the patterns of gene expression can be studied across the entire genome, it is known that binding of transcription factor complexes to regulatory sequences of genes is not the only mechanism controlling gene expression.
The side effects are due in part to stress caused by the formation of active metabolites of the Ahr ligand, while the primary response is related to Ahr binding to gene regulatory sequences.
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