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. Author manuscript; available in PMC: 2022 Mar 31.
Published in final edited form as: Mol Cell. 2018 Dec 6;73(1):22–35.e6. doi: 10.1016/j.molcel.2018.10.034

Figure 4. RB Partially Regulates NF-κB Transcription Target Genes in Cells.

Figure 4.

(A) RNA-seq analysis indicates the genes commonly upregulated by RB1 knockdown and palbociclib treatment in PC-3 cells.

(B) Ingenuity pathway analysis (IPA) of common targets shown in (A) (ranked by p-values).

(C) Heatmap showing a subset of RB knockdown and palbociclib-coregulated genes involved in T cell regulation and TNF-α-NF-κB pathways.

(D) Gene set enrichment analysis (GSEA) of the common targets shown in (A).

(E) UCSC Genome Browser screen shot of RNA-seq tracks for T cell/NF-κB pathway genes (PD-L1, GADD45B, NR4A2, and CD83) commonly upregulated by RB knockdown and palbociclib treatment.

(F and G) PC-3 cells treated with or without palbociclib (5 μM) for 24 hr (left) or infected with lentivirus expressing control or RB-specific shRNAs (right) were harvested for RT-qPCR (F) and ChIP-qPCR (G) analysis of p65 binding at the promotor of PD-L1, GADD45B, NR4A2, and CD83 genes. All data are shown as mean values ± SD (n = 3). *p < 0.05, **p < 0.01, ***p < 0.001.