*3.3. Identification of Differentially Expressed Genes (DEGs)*

In order to determine DEGs in treated samples versus controls, the standard Bioconductor RNA-seq workflow (DESeq2) was employed. In total, 3892 DEGs (padj < 0.01) including 244 upregulated (padj < 0.01, log2 FC > 2) and 198 downregulated (padj < 0.01, log2 FC < −2) genes were obtained in this study (Supplementary Materials). As Figure 3A shows, all genes were categorized in non-significant (dark gray) and significant (light blue) DEGs as well as top down/upregulated genes (red). To further illustrate top-modulated genes, a heatmap with a color range of blue (down) to red (up) was employed for nonnormalized (Figure 3B) and normalized genes (Figure 3C). The heatmap demonstrates the differential expression of genes in Gemini-Cur-treated cells in comparison with non-treated samples. Subsequently, a list of top ten up and downregulated DEGs (padj < 0.01) was obtained with padj < 0.01, log2 FC > 2 and padj < 0.01, log2 FC < −2, respectively (Table 2).
