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. 2018 Sep 4;9(69):33110–33123. doi: 10.18632/oncotarget.26011

Figure 3. Effects of JIB-04 treatment on Ewing Sarcoma transcriptome.

Figure 3

(A) Gene Ontology (GO) terms significantly enriched (FDR<0.1) among genes upregulated (top panel) or downregulated (bottom panel) in expression 2-fold or more by treatment of A673 cells with JIB-04 (2 μM for 36 hours, relative to vehicle), as determined using DAVID. (B) Changes in RNA levels of candidate mediators of JIB-04 growth inhibitory effects, based on known gene function in cancer, and, for some genes, Ewing Sarcoma (see text for discussion; A673 RNA-seq data). Downregulation of HOXB and HOXD cluster genes by JIB-04 treatment (right panel, A673 RNA-seq data). Q-value <0.05 for all fold-changes shown, determined by ANOVA. (C) Quantification of selected upregulated and downregulated genes from A673 RNA-seq data in the indicated cell lines, using qRT-PCR (TC32: 0.3 μM JIB-04; SK-ES-1 and SK-N-MC: 1 μM; A673: 2 μM; RNA collected at 36 hours following treatment). Data are plotted as ratio of expression in JIB-04-treated cells to vehicle controls (mean and standard deviation from triplicate samples; dotted lines represent a ratio of 1 (no change in expression)).