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Fig. 1 | Genome Medicine

Fig. 1

From: Retroelement co-option disrupts the cancer transcriptional programme

Fig. 1

Widespread shifts in the balance of RNA isoform expression in cancer. A Heatmap of expression of 87,861 and 54,202 discordant transcripts that are upregulated and downregulated (≥ 1.5 fold-change, p ≤ 0.05, q ≤ 0.05), respectively, in TCGA KIRC samples, compared with normal kidney tissue, and overlap with loci producing transcripts in both categories. B Total number of differentially expressed transcripts (≥ 1.5 fold-change, p ≤ 0.05, q ≤ 0.05) (top), differentially expressed discordant transcripts (middle), and loci producing discordant transcripts (bottom) between the indicated cancer types and their respective normal tissue (KIRC n = 538, normal kidney n = 71; COAD n = 239, normal colon n = 39; LUAD n = 419, normal lung n = 24; LUSC n = 362, normal lung n = 24; EAC n = 78, normal oesophagus n = 9). C Fold-change of individual discordant transcripts (symbols) overlapping with the indicated loci in KIRC samples. D Fold-enrichment for the indicated RTE subgroups in discordant transcripts, compared with the entire transcriptome. All indicated RTE subgroups were significantly enriched (p ≤ 0.05)

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