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. 2014 Oct 15;28(20):2219–2232. doi: 10.1101/gad.247163.114

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© 2014 Rhee et al.; Published by Cold Spring Harbor Laboratory Press

This article, published in Genes & Development, is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

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Figure 2. — Expression profiles of Arid3a-overexpressing ES cells are highly similar to those of TS-like cells. (A) An unsupervised hierarchical clustering. A cutoff threshold of 1.5-fold from expression profile of Arid3a OE-High cells was applied. Expression profiles of Arid3a knockdown (KD) and Oct4 knockdown ES cells were plotted next to the clusters. (B) Significantly enriched terms (biological functions) of up-regulated genes upon OE of Arid3a shown in A by GO analysis. (C,D) GSEA using ordered gene expression levels from Arid3a-overexpressing cells over control ES cells (X-axis) with gene sets indicated. (C) Top 1% of up-regulated genes upon Oct4 knockdown (204 genes), Cdx2 OE (368 genes), and Gata3 OE (384 genes) in ES cells. (D) GSEA using TS cell-specific (313 genes), XEN cell-specific (227 genes), and ES cell-specific (218 genes) gene sets. (C,D) Normalized enrichment score (NES) and false discovery rate (FDR) are shown.