Figure 5.

Identification of Direct GCN5 Target Genes at the Early Stage of Differentiation

(A) Comparing profiles of H3K9ac peaks and associated genes in Gcn5^fx/fx and Gcn5^−/− EBs at day 5. Loss of Gcn5 resulted in decreased H3K9ac peaks mostly in the promoter region. Most of the genes (238 of 269) with altered H3K9ac peaks exhibited a decreased level of this mark.

(B) Putative target genes directly regulated by GCN5. Venn diagram showing overlap between H3K9ac decreased genes and GCN5 induced genes. Overlapping genes are listed in the table with a general description of the reported functions.

(C) Examples of H3K9ac peak profiles (n = 4) and RNA transcripts (n = 3) for top targets of GCN5 in day 5 EBs. RNA transcript levels are presented as means ± SD.

(D) Representative immunoblots showing reduced levels of cMYC isolated from nuclei of day 5 Gcn5^−/− EBs. NE, nuclear extracts.

(E) ChIPs for MYC reveal decreased MYC binding at the promoters of GCN5 target genes in day 5 Gcn5^−/−EBs. Enrichment of MYC relative to input at each locus is presented as the mean ± SD from three independent experiments.

See also Table S4.