Sentence examples for binding sites and found from inspiring English sources

To identify the molecular link between ROS and TGFβ, we scanned the Tgfβ2 promoter for transcription factor binding sites and found two potential AP-1-cJun binding sites (Fig. S6A).

We analyzed the promoters of 361 transcriptionally induced genes with respect to c-Myc binding sites and found 110 putative binding sites in 94 promoters.

Furthermore, we analyzed the flanking sequences (+/- 100 bp) around the 110 c-Myc binding sites and found Ap2, Zf5, Zic3, and E2f binding sites to be overrepresented in these regions.

We clustered the nucleosome signals around distal activator and repressor binding sites and found that higher proportions of distal repressors sites showed strong nucleosome positioning on both sides (Additional file 7).

We analyzed the distribution of both motifs relative to the center of the TR4 binding sites and found that the DR1 as well as the ETS motif are located under the peak center.

We then mapped the promoter region of integrin β3 to identify potential transcription factor binding sites and found three potential estrogen response element (ERE) consensus sites in the -1000 to -500 region.

Here, we test if there are differences between conservation-based methods and PWM scanning on weak and strong binding sites and find the difference in performance to be greater on the stronger binding sites.

By analyzing gene expression profiles on HeLa cells either silenced for TFAP2A by RNA interference or not [ 39] we were previously able to identify a subset of new TFAP2A regulated genes on which it was possible to position high score TFAP2A binding sites and find an enrichment of sites compared with genome-wide [ 5, 6].

AP-1 is a stress responsive transcription factor; we tested its activation with a luciferase reporter bearing an AP-1 binding site and found that luciferase expression was induced by IKKβ ablation, but repressed by IKKβ expression and NAC treatment (Fig. 6A).

Furthermore, in most TFs we could efficiently narrow down candidates for the TF binding site, and found that the number of known promoter sites detected below each of the thresholds hardly changed.

We next looked for primary DNA sequence features that might underlie ATRX-binding sites and found that ATRX primarily localizes to subsets of tandem repeats (n = 880) and endogenous retroviral (ERVK) repeats (n = 247) in mouse ESCs.