Fig. 6: Non-coding source gene expression in healthy tissues. | Nature Communications

Fig. 6: Non-coding source gene expression in healthy tissues.

From: Integrated proteogenomic deep sequencing and analytics accurately identify non-canonical peptides in tumor immunopeptidomes

Fig. 6

A comparison of presumed non-coding source gene expression in the investigated melanoma samples to that in healthy tissues (GTEx) reveals that a substantial proportion of source non-coding genes are tumor-specific. Heatmap of lncRNA source genes showing the 90th percentile gene expression levels across 30 healthy tissues on the left and the gene expression levels across our investigated melanoma samples on the right. Tissue gene expression was classified as not expressed (90th percentile TPM ≤ 1) in any, 1–3, or >3 tissues other than testis to assess tumor specificity. Specifically for sample 0D5P, a total of 21.4% of the lncRNA source genes were considered as tumor-specific compared to <1% of the randomly selected protein-coding source genes with similar expression levels (p-value = 1.04 e-33). The number of HLAIp identified per gene is depicted as well as the gene (GENCODE) and sample type. Source data are provided as a Source Data file.

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