Figure 2: SWI/SNF binds most cis-regulatory elements in wild-type but typical enhancers are most sensitive to loss of SWI/SNF subunits.
From: The SWI/SNF chromatin remodelling complex is required for maintenance of lineage specific enhancers
(a) Histogram of average SMARCA4 and SMARCC1 (SWI/SNF) ChIP-seq enrichment over input at promoters and enhancers in wild-type MEFs. (b) Boxplots for SWI/SNF ChIP-seq enrichment over input at promoters and enhancers in wild-type and Smarcb1-deficient MEFs. The boxes indicate first, second and third quartiles, and whiskers show 1.5 × interquartile range below and above the first and third quartile, respectively. Two sided t-test P values are shown. (c). Fold changes of H3K27ac versus SWI/SNF ChIP-seq signal at promoters and enhancers in Smarcb1-deficient relative to wild-type MEFs. (d) Representative screenshot depicting clusters of enhancers with different sensitivities to Smarcb1 or Smarca4 loss (red highlights high sensitivity, blue highlights low sensitivity). (e). Boxplots for SWI/SNF and H3K27ac signal fold changes upon Smarcb1 loss at promoters, enhancers, and enhancers classified based on super-enhancers (SE) and transcription (PolII enrichment). The boxes indicate first, second and third quartiles, and whiskers show 1.5 × interquartile range below and above the first and third quartile respectively. Two sided t-test P values are shown.
