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Fig. 5 | Breast Cancer Research

Fig. 5

From: ELF5 isoform expression is tissue-specific and significantly altered in cancer

Fig. 5

Expression of other E26 transforming sequence (ETS) family members is also altered in breast cancer, with the basal subtype having a distinct ETS expression profile. The Cancer Genome Atlas RNA-sequencing (RNA-Seq) Limma voom differential expression analysis data for ETS family members. a Venn diagram showing number of ETS family members significantly altered in breast cancer subtypes compared with normal (false discovery rate [FDR] < 0.05). All subtypes were compared with a common set of 65 normal samples (unpaired analysis). Genes altered in all four subtypes are listed (red = upregulation, green = downregulation, purple = differentially regulated in basal subtype compared with other subtypes). b Venn diagram showing number of ETS family members significantly altered in breast cancer subtypes compared with normal (FDR < 0.05), using paired normal and tumor samples from the same patient. Genes altered in at least three of four subtypes are listed, with color-coding as above. c Clustered heat map of ETS factor Limma voom t statistic, comparing tumor samples to the common set of 65 normal samples. Legend is shown next to (d). Rows are sorted by luminal B values (smallest to largest), and columns are sorted according to clustering. Numbers in parentheses are samples per group. d Clustered heat map of Limma voom t statistic, comparing paired normal and tumor samples, with sorting as above. Numbers in parentheses are sample pairs per group. e Expression of ERG, ETV7, and SPDEF for normal breast (green background) and breast cancer subtypes (pink background). Plotted values are for individual samples (normalized counts), and error bars represent the mean with 95 % confidence interval. Fold change (FC) and FDR from unpaired Limma voom differential expression analysis are shown, with green indicating a significant downregulation and red a significant upregulation compared with normal (FDR < 0.05). f ERG, ETV7, and SPDEF levels for a 65 patients with matched normal and cancer samples. FC and FDR from paired Limma voom differential expression analysis are shown, with color-coding as above (FDR < 0.05). Numbers in parentheses are sample pairs per group

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