Fig. 2

Anti-osteoclastogenic genes inactivated by VprBP. A Principal component analysis (PCA) results of RNA-seq datasets generated in OCP-induced cells expressing a control shRNA or VprBP shRNA. VprBP knockdown (VprBP shRNA) group is shown in red, and control (control shRNA) group is shown in blue. Three replicates are generated per group. B A volcano plot of RNA-seq datasets is shown. − log10 (FDR step up) is shown on the Y-axis, and fold change of gene expression between VprBP knockdown and control groups is shown on the X-axis. Genes modulated after VprBP depletion are colored in blue (downregulated) and red (upregulated). Three replicates are generated per group. C Venn diagram showing genes that are upregulated or downregulated (> 2.5 fold; FDR < 0.05) in VprBP-depleted OCP-induced cells compared to control OCP-induced cells. D Gene ontology analysis of the activated genes after knockdown of VprBP using Ingenuity Pathway Analysis (IPA version 52,912,811) tool developed by Qiagen. E Heatmap of 18 genes encoding cell proliferation and differentiation regulators significantly activated upon VprBP depletion. Normalized gene expression levels (Z-scores) are plotted. High and low expressions are shown in red and blue, respectively. Three replicates are generated per group