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SNPs located in miRNA-mRNA binding sites could affect the expression of their host genes; therefore, we only considered eQTLs that had a cis-effect on the host genes.
Correspondingly, recent literatures have identified the content that variations located in microRNA binding sites could affect miRNA-target recognition efficiency and gene expression and thus potentially to be associated with cancers [ 43].
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We favor the view that conformational differences imposed by the CH1 domain on the Ag-binding site could affect binding affinity and specificity.
Interestingly, CpG site 1 encompasses a binding site for the transcription factor cAMP response element-binding (CREB) protein, 47 while CpG site 8 encompasses a putative Sp1 transcription factor-binding site as mentioned earlier, suggesting that aberrant methylation at these sites could affect Bdnf expression by disrupting transcription factor binding (Fig. 2f).
It is therefore possible that phosphorylation of either of these sites could affect a net charge value and have impact on binding of a given cargo.
Also, intronic mutations distant from splice sites could affect splicing.
The potential at the binding pocket was reduced with acetylation of only Lys23, suggesting that acetylation specifically at this site could affect ADP binding affinity.
In some cases one binding site could be affecting the expression of two TSPs (both of the same gene or of two divergent ones), and in others the putative binding site could be ascribed to two genes (with no apparent relation with any TSP).
It seems possible that the deletion of iron acquisition genes and their Fur binding sites could, in theory, lead to pleiotropic effects by affecting the activation state of Fur or its titration on remaining binding sites.
Such interactions between elements around the binding sites could easily modulate affinity resulting in autoinhibition.
Aldose reductase (ALDR_HUMAN) provided another example of how the binding site plasticity could affect VLS results.
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