Extended Data Figure 5: Comparison of JQ1-response genes in sensitive and resistant cancer cell lines. | Nature

Extended Data Figure 5: Comparison of JQ1-response genes in sensitive and resistant cancer cell lines.

From: Transcriptional plasticity promotes primary and acquired resistance to BET inhibition

Extended Data Figure 5

a, JQ1 sensitivity profiling in 246 human cancer cell lines of different tissue contexts. Shown are GI50 values determined using Alamar blue staining after 72 h. b, Principal component analysis of steady-state transcriptomes (based on RPKM) and c, transcription changes (based on fold change, FC) following 2 h of JQ1 treatment (200 nM) in indicated sensitive and resistant cancer cell lines of different tissue context. Steady-state profiles cluster based on tissue context, while neither baseline nor dynamic expression analysis can accurately distinguish sensitive and resistant contexts. d, MYC mRNA levels (RPKM) at different time points after JQ1 treatment (200 nM) in indicated cell lines, relative to levels in DMSO-treated cells. Individual cell line pairs are grouped for their tissue context and coloured according to their sensitivities (green, sensitive; red, resistant). e, Number of genes twofold up- or downregulated upon JQ1 treatment (200 nM) after 2 h and 24 h (minimum expression >3 RPKM). f, Pairwise overlap of commonly up- or downregulated genes after 2 h of JQ1 treatment (200 nM) relative to DMSO control. Each cell colour corresponds to the relative number of commonly up- or downregulated genes in the cell lines listed in the respective row and column. The total number of genes regulated per cell line is indicated in black next to each cell line. Only little overlap is observed between cell lines of the same tissue context as well as between JQ1-sensitive or -resistant cell lines.

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