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. 2011 Apr 20;6(4):e18966. doi: 10.1371/journal.pone.0018966

Figure 4. The distal enhancers are juxtaposed to the MYC promoter through large chromatin loops.

Figure 4

(A) Diagram of regions interrogated for chromatin looping using quantitative chromatin conformation capture analysis (q3C). The directed q3C analysis tested whether a Hind III fragment upstream of the MYC promoter (the “bait”) interacted with Hind III fragments that are adjacent to each of the upstream enhancers (A, B, C, D, or E). (B) Real-time PCR analysis was conducted with primers specific to the regions indicated on the X-axis following 3C reactions. The data is expressed as relative 3C DNA levels using the 2ΔCt method where the reference Ct is obtained from genomic DNA that is spiked with a plasmid harboring the 3C product indicated and the sample Ct is generated from 3C assays conducted in HCT116 (B), HEK293 cells (C), or TIG-1 fibroblasts (D). Ctrl. is a region of the tubulin gene that flanks two distal Hind III sites, but does not form a chromatin loop. Error bars represent SEM.