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Fig. 4 | Stem Cell Research & Therapy

Fig. 4

From: Histone chaperone HIRA complex regulates retrotransposons in embryonic stem cells

Fig. 4

Hira and Ubn2 cooperatively regulate downstream genes in ESCs. a, b The volcano plot of gene expression in Hira (a) or Ubn2 (b)-depleted ESCs versus control ESCs. Significantly upregulated genes were labeled in red and significantly downregulated genes were labeled in blue. Horizontal blue dash line marked adjusted P value (Wald test) 0.05 and vertical lines marked expression fold change 1.5. Triangles of (a) represent TEs with -log10 (adjusted P value) > 50. Triangles of (b) represent TEs with -log10 (adjusted P value) > 70. c, d Venn diagrams illustrated the numbers of upregulated (c) and downregulated (d) differentially expressed genes either shared or unique at all in Hira, Ubn1, and Ubn2-depleted ESCs. e, f Gene ontology analysis of biological processes related to co-upregulated genes (e) and co-downregulated genes (f) in Hira or Ubn2-depleted ESCs versus control ESCs. GO analysis was done with DAVID. g, h Gene ontology analysis of uniquely upregulated genes after the depletion of Hira (g) or Ubn2 (h). i, j Gene ontology analysis of uniquely downregulated genes after the depletion of Hira (i) or Ubn2 (j)

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