Sentence examples for binding site are over-represented from inspiring English sources
If the genes that do have a particular binding site are over-represented in the group, this is viewed [31] as indicative of functionality of the corresponding BSs.
We also identified miRNAs whose binding sites are over-represented in eIF4E upregulated mRNAs (Table 6).
However, comparisons among genomic regions can't determine whether σ70 binding sites are over-represented in regulatory regions and/or under-represented in nonregulatory regions beyond their expected values.
It has been found that ARF binding sites are over-represented in auxin-related miRNA families like miR160 and miR167, thus forming a regulatory loop [ 40].
We found that putative MrpC binding sites are over-represented near developmentally up-regulated genes with high statistical confidence (Table 5).
The pattern of binding site over-representation suggests that SP1 may have an auto regulatory role, as its binding sites are over-represented in cluster profiles 6-11 and under-represented in cluster profiles 1-4 and 12.
Aside from these curated interactions, we have also investigated which transcription factor binding sites are over-represented in the promoter regions of human genes in the InnateDB curated interactome (Additional file 4).
By comparing the expression pattern of the differentially expressed genes coding for transcription factors (which cluster they belong to) with the time profile of the clusters where their binding sites are over-represented (target cluster) some general picture emerges.
Interestingly, a similar observation was also made for the putative motifs over-represented under cold conditions in both species, where GC-rich motifs, characteristic of AP2 TF binding sites were over-represented in the cold responsive transcripts [ 53].
KLF2 and KLF4 were co-localisation with OCT4 in ES cell nuclei and KLF transcription factor binding sites were over-represented within the promoters of the putative ES cell gene list (p < 0.01).
We found that certain zinc finger protein binding sites, including Sp1 and CTCF sites, are over-represented in the boundary sequences of U-CGIs, and the core region of such boundaries appears to extend ∼400 bp upstream or downstream from the island.
