Indeed, we have shown that the pre-existence of 20 mM sodium phosphate exactly as previously used not only reduces the binding affinities of the anion-binding, but also alters the binding patterns, which is not observed in the pre-existence of 150 mM NaCl.
TFBSs recognized by the same TF usually show a conserved pattern, which is often called a TF binding motif (Gupta and Liu, 2005).
The 3D pattern has holes shaped in a kind of a diamond pattern which are compatible with most bindings but offer more limited options in terms of stance.
Regulatory binding sites exhibit characteristic sequence patterns, which are commonly represented as sequence logos or position weight matrices (PWMs) and describe the specificity of a DNA-binding protein (80, 81).
The remaining 20 NES regions contain 22 sequences that match class 1-R patterns, which were tested for CRM1 binding in pull-down assays.
Htz1 also shows a similar binding pattern near TSSs, which is consistent with previous studies [ 44, 45].
It is also unclear whether Zfp335 displays cell type-specific binding patterns, which may allow Zfp335 to fulfill various developmental roles by regulating different gene expression programs.
ChIP sequences in RUNX1/ETO-positive cells were enriched for just 11 of the 63 possible different binding patterns, which included six significantly enriched combinatorial patterns containing RUNX1/ETO and five patterns that did not.
Loss of RUNX1/ETO resulted in the formation of a transcriptional network dominated by C/EBPα-containing binding patterns, all of which were predominantly associated with upregulated genes in RUNX1/ETO-depleted Kasumi-1 and patient cells.
Finally, mtDNA variation patterns in predicted binding motifs, which are located within CNRs in the coding region, were compared with the CPRs.
