Fig. 6: Adriamycin treatment leads to suppression of TE (transposable elements) expression.
From: Chemical-induced phase transition and global conformational reorganization of chromatin
a Volcano plots show differentially regulated TE transcripts after etoposide and adriamycin treatment. TE transcripts with abs(log2(foldchange)) >1, Padj <0.05 were highlighted by cyan color. b Heatmap showing relative expression of differentially regulated TE transcripts in each treatment groups. c Normalized expression of top 50 adriamycin induced downregulated TE transcripts in each treatment groups. The boxplot shows the normalized gene expression (read counts) in control, etoposide-, and adriamycin-treated conditions. Boxes, middle 50% of normalized gene expression. Center bars, medians of normalized gene expression. Whiskers, 1.5× of inter-quartile range. p values were calculated by two-sided Wilcoxon test. n = 2 technical replicates for each condition. d Pie chart showing species classification of top 50 adriamycin induced downregulated TE transcripts. e Relative expression of selective 12 TE transcripts downregulated upon adriamycin treatment. The boxplots show the normalized expression (read counts) of TEs in control, etoposide-, and adriamycin-treated conditions. Boxes, middle 50% of normalized gene expression. Center bars, medians of normalized gene expression. Whiskers, 1.5× of inter-quartile range. f, g Examples of TE-containing non-coding RNAs (f) and TEs (g) demonstrate the correlation between compartment A to B transition and expression repression induced by adriamycin. Ctrl control, adria adriamycin.
