Circular RNAs Could Encode Unique Proteins and Affect Cancer Pathways

Francesca Crudele

doi:10.3390/biology12040493

Circular RNAs Could Encode Unique Proteins and Affect Cancer Pathways

2023-03-24

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Dimitrios Papaioannou

DOI：10.3390/biology12040493

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Simple Summary In this study, we investigated human genes encoding circular RNAs (circRNAs) in order to shed light on their functional role, which is still under debate. We identified 183 genes encoding circRNAs differentially expressed in cancer tissues with a novel coding potential. Our data suggest that circRNAs might directly affect cellular and systemic processes in cancer by generating novel members of the human proteome. circRNAs constitute a novel class of RNA, generally considered as non-coding RNAs; nonetheless, their coding potential has been under scrutiny. In this work, we systematically explored the predicted proteins of more than 160,000 circRNAs detected by exome capture RNA-sequencing and collected in the MiOncoCirc pan-cancer compendium, including normal and cancer samples from different types of tissues. For the functional evaluation, we compared their primary structure and domain composition with those derived from the same linear mRNAs. Among the 4362 circRNAs potentially encoding proteins with a unique primary structure and 1179 encoding proteins with a novel domain composition, 183 were differentially expressed in cancer. In particular, eight were associated with prognosis in acute myeloid leukemia. The functional classification of the dysregulated circRNA-encoded polypeptides showed an enrichment in the heme and cancer signaling, DNA-binding, and phosphorylation processes, and disclosed the roles of some circRNA-based effectors in cancer.

Keywords:

CircRNA

RNA-Seq

translation

tumor

AML

Circular RNAs Could Encode Unique Proteins and Affect Cancer Pathways

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