Fig. 3: PRDM10 binding is associated with transcriptional activation of target genes.
From: Global translation during early development depends on the essential transcription factor PRDM10
a Volcano plots of RNA-seq data from Prdm10Δ/Δ vs. Prdm10F/F mESCs at indicated time-points post-deletion, with Padj < 0.05, fold-change (FC) > 2 used as the cut off to define genes with significant changes in expression. Red: genes directly bound by PRDM10; green: genes not bound by PRDM10 (left panels). Of these genes, PRDM10 targets are predominantly downregulated (right). b Volcano plot of RNA-seq data from Prdm10Δ/Δ (KO) vs. Prdm10+/+ and Prdm10Δ/+ (CTL) 8-cell stage embryos (left). 28 genes bound by PRDM10 showed significant expression changes (Padj < 0.05, fold-change > 2); of these, all were downregulated in Prdm10-null embryos (right). c Venn diagram depicting the overlap of bound and downregulated genes in RNA-seq datasets for embryos (8-cell) and mESCs (Day 2 and/or Day 4 post-induction), with a total of 18 genes identified as top candidates. d Heatmap showing all 18 bound and downregulated genes from Fig. 3c, categorized by their respective gene knockout phenotypes. Asterisks indicate genes directly involved in translation, Eif3b and Eef1d. Color scale: Z-score for row-normalized expression values, scaled separately for Day 2 p.i mESCs, Day 4 p.i mESCs, and embryos. Pre-implant: preimplantation lethality; post-implant: postimplantation lethality; undefined: developmental timing of embryonic lethality unknown.
