Fig. 2
Identification of differentially expressed genes during ER stress. Comparison of ER stress induced by DTT and TM. Exponentially growing cells were treated with DTT or TM for 15 (a), 30 (b) and 60 min (c). Induction by ER stress was calculated by dividing the average abundance of a gene in cells treated with DTT or TM by that in cells without treatment. At the indicated time point, fold change (Log2) of a certain gene upon DTT treatment was plotted against that upon TM treatment in the chart. Points representing ESRTs were red. Points corresponding to several known UPR target genes were blue. Points representing other genes were green. The size of the point reflected the mean of FPKM value of a certain gene after treatment of DTT and TM. d, f, h Venn diagrams of upregulated and downregulated genes after TM and DTT treatment. Genes significantly upregulated (Fc > 2, q value < 0.1) or downregulated (Fc < 0.5, q value < 0.1) upon drug treatment were counted. The number of upregulated or downregulated genes in indicated conditions is shown in the parenthesis. e, g, i GO enrichment analysis of differentially expressed genes during ER stress. The enrichment analysis was based on the biological process (BP). Top-ranked terms containing 10 ~ 50 genes and with an adjusted P-value < 0.05 are listed in e, g. Top-ranked terms containing 10 ~ 100 genes and with an adjusted P-value < 0.05 are listed in i. The size of a point represented the adjusted P-value. A full list of enriched GO terms is shown in Additional file 3: Table S3