Integration of Short- and Long-Read RNA Sequencing Enables the Discovery of Circular RNAs.

ABSTRACT: Circular RNAs (circRNAs) are associated with crucial hallmarks of tumorigenesis. Select circRNAs contain circular open reading frames (cORFs) and impact tumorigenesis through encoded small peptides. However, current circRNA detection approaches bias towards using short-read RNA-seq for detecting circRNA backsplice junctions (BSJs) without reliably reconstructing complete circRNA sequences, inhibiting accurate cORF prediction. To address these challenges, we performed long-read sequencing to enrich for full-length circRNAs that could serve as a guide for short-read alignment. This approach "rescued" circRNAs eluding existing tools focused on circRNA detection from short reads and enabled the development of an open-source bioinformatics workflow that characterizes and rescues circRNAs by int

SUBMITTER: Swift SZ 

PROVIDER: S-EPMC12776659 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature