Figure 3

Cfp1 is crucial for H3K9 acetylation at regulated promoters. (A) ChIP-qPCR analysis of H3K9,K14ac enrichment at the Cdkn1a locus for untreated (untr) or doxorubicin-treated (Doxo) WT and Cfp1^-/- ES cells. Results are expressed as fold enrichment relative to input DNA and a control intergenic region on chromosome 15. Control corresponds to an intergenic region on chromosome 5. Data are represented as mean ± standard deviation (SD), n = 3. P-values were calculated using two-tailed Student’s t-tests: *P < 0.05, **P < 0.01; P > 0.05 is not significant (ns). (B) Same as (A) for H3K27ac enrichment. Data are represented as mean ± SD, untr n = 2, Doxo n = 4. (C) Heatmap representation showing H3K9,K14ac normalized read count 3 kb upstream and downstream of TSSs of genes upregulated by doxorubicin treatment in WT ES cells (n = 755). (D) Same as (C) for downregulated genes (n = 489). (E) Genome browser screenshots representing H3K9,K14ac ChIP-Seq signal (as normalized read count) in WT (untreated in blue, treated in black) and Cfp1^-/- (untreated in pink, treated in red) ES cells at the Cdkn1a locus. (F) Same as (E) for the Nanog locus. (G) Same as (A) for Gcn5 enrichment at the Cdkn1a locus. Data are represented as mean ± SD, n = 3. P-values were calculated using two-tailed Student’s t-tests: *P < 0.05, **P < 0.01, P > 0.05 (ns). (H) Same as (G) for Hdac1 enrichment at the Cdkn1a locus. Data are represented as mean ± SD, n = 3. P-values were calculated using two-tailed Student’s t-tests: *P < 0.05, **P < 0.01, P > 0.05 (ns).