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NRS 12, e002 | Figure 1

Wu DY, Ou CY, Chodankar R, Siegmund KD and Stallcup MR (2014) Distinct, genome-wide, gene-specific selectivity patterns of four glucocorticoid receptor coregulators Nucl Recept Signal 12, e003. doi:10.1621/nrs.12002


Figure 1. (a) Experimental design. For each coregulator, A549 cells were transfected with coregulator-specific (siCoR) or control non-specific (siNS) siRNA, and cells were subsequently treated with dex or ethanol for 6 hours. Genome-wide microarray analyses of RNA with multiple independent biological replicates of each condition were conducted. The 3 comparisons of interest are: comparison 1, cells transfected with siNS and then treated with dex or ethanol (NS- vs NS+); comparison 2, cells transfected with siCoR and then treated with dex or ethanol (si- vs si+); comparison 3, cells transfected with siNS or siCoR and then treated with dex (NS+ vs si+). (b) Venn diagrams are used to show the overlap between significant genes from the three comparisons. Overlapping compartments are labeled for convenient reference. For each comparison, the theoretical data bars representing relevant expression values being compared are shown in black beside the Venn diagram, while the bars representing expression values that are not part of the comparison are shown in gray. (c-f) As explained in (a) and (b), venn diagrams were created from the overlapping statistically significant effects of hormone and coregulator depletion to visualize the number of genes affected by depletion of CCAR1 (c), CoCoA (d), CCAR2 (e), and ZNF282 (f). The size of each ellipse and overlap compartment in the Venn diagram is proportional to the number of genes affected. We called a difference in gene expression significant if there was greater than 1.5-fold change and a false discovery q-value < 0.05.