Figure 4.
CBP and KLF3 Regulate a Similar Gene Expression Program
(A) Histogram summarizing the gene expression changes in CBP knockdown (CBPi) keratinocytes when compared with controls (CTLi) after three days of differentiation. RNA Seq was performed in replicates. Number of increased genes is displayed in red, whereas decreased genes are shown in blue. Differentially expressed genes were selected with FDR ≤0.05 and fold change ≥2 versus CTLi.
(B) Histogram summarizing the gene expression changes identified by RNA sequencing in P300 knockdown (P300i) keratinocytes when compared with controls (CTLi) after 3 days of differentiation. RNA Seq was performed in replicates.
(C) Gene ontology (GO) term enrichment for the 1,138 genes significantly decreased in expression upon CBP knockdown.
(D) Gene ontology term enrichment for the 963 genes significantly decreased in expression upon P300 knockdown.
(E) Gene ontology term enrichment for the 1,585 genes significantly increased in expression upon CBP depletion.
(F) Gene ontology term enrichment for the 2,075 genes significantly increased in expression upon P300 depletion.
(G) Heatmap plot of Pearson correlation coefficients comparing replicate KLF3i, CBPi, and P300i RNA sequencing datasets (RPKM normalized).
(H) Unsupervised hierarchical clustering was performed on the RPKM normalized RNA-Sequencing datasets for CTLi, KLF3i, CBPi, and P300i keratinocytes differentiated for 3 days (log2 scale). Heatmap is focused on the KLF3-regulated genes. Increased genes are displayed in red, whereas decreased genes are shown in blue.