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. 2021 Sep 15;7(38):eabi4360. doi: 10.1126/sciadv.abi4360

Fig. 3. Enhancer-like promoters act as functional enhancers.

Fig. 3.

(A to C) Three examples of promoters that function as enhancers. CRISPRi silencing of the promoter region of SOCS5, FOXN2, and TMEM230 results in significant downregulation of MSH6, MSH2, and PCNA, respectively. shRNA knockdown of SOCS5, FOXN2, and TMEM230 can only down-regulate SOCS5, FOXN2, and TMEM230 expression. Three independent replicates per condition and two independent sgRNAs or shRNAs per replicate were used for each experiment. P values are from two-tailed two-sample t test. (D) Average signal enrichment of ATAC-seq, gene transcription, H3K4me3, H3K27ac, and CTCF binding for enhancer-like promoters (n = 38) and control promoters (n = 47). P values are from Wilcoxon test. Box plots indicate the median, IQR, Q1 − 1.5 × IQR, and Q3 + 1.5 × IQR. (E) Number of H3K4me3-mediated chromatin interactions and cumulative interaction score for enhancer-like promoters (n = 31) and control promoters (n = 43). Box plots indicate median, IQR, Q1 − 1.5 × IQR, and Q3 + 1.5 × IQR. P values are calculated from Wilcoxon test.