Back-Splicing Transcript Isoforms (Circular RNAs) Affect Biologically Relevant Pathways and Offer an Additional Layer of Information to Stratify NMIBC Patients

Frontiers in Oncology
Anshita GoelRoland Arnold

Abstract

Circularized transcript isoforms due to back-splicing are increasingly being reported in different tissues types and pathological states including cancer. Since these circular RNAs (circRNAs) are more stable than linear messenger RNA their identification and profiling in tumor tissue could aid in stratifying patients and may serve as biomarkers. In this study, we have investigated the relationship between circRNA expression and tumor grade in a cohort of 58, mostly non-muscle-invasive bladder cancer patients. From 4571 circRNAs detected, we identified 157 that were significantly differentially expressed between tumor grades relative to the linear transcript. We demonstrated that such grade-related differences can be identified in an independent cohort, and that a large fraction of circRNAs can be, in principle, detected in urine. The differentially expressed circRNAs cluster into subgroups according to their co-expression, subgroups which are enriched for DNA repair, cell cycle and intracellular signaling genes. Since one proposed function of circRNAs is to interfere with gene-regulation by acting as microRNA "sponges," candidates which were differentially expressed between tumor grades were investigated for potential miRNA tar...Continue Reading

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Citations

Mar 16, 2021·Frontiers in Oncology·Alexander C DowellRichard T Bryan

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Datasets Mentioned

BETA
EGAS00001004358

Methods Mentioned

BETA
RNA-seq
exome capture

Software Mentioned

limma BioConductor
Ensembl
CircExplorer
FastQC
UROMOL
R
ggplot2
STAR aligner
CircExplorer2
Enrichr

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