Figure 1.

Identification of lncRNAs transcriptionally induced/repressed by oestrogen signalling in ER+ breast cancer cells.

A-B. Volcano plots showing the differential expression of lncRNAs upon E₂ stimulation in MCF7 cells detected by RNA-seq (A) or GRO-seq (B). C-D. The differential expression oflncRNAs detected by GRO-seq were re-mapped for their expression changes using RNA-seq data (C) or vice versa (D). In all panels, each dot represents one gene. The green dots are lncRNAs that are significantly downregulated by E₂. The red dots are lncRNAs upregulated by E₂. E. Venn diagram showing the overlap of the lncRNAs withdifferential E₂ responsiveness detected by either RNA-seq or GRO-seq. F. Heatmap of all the E₂-actived orE₂-repressed lncRNAs that could be detected by both RNA-seq and GRO-seq. From all the analyses in C-F, 33 E₂-actived lncRNAs and 14 E₂-repressed lncRNAs were identified and their gene names were listed in F.