Biochemical-free enrichment or depletion of RNA classes in real-time during direct RNA sequencing with RISER.

ABSTRACT: The heterogeneous composition of cellular transcriptomes poses a major challenge for detecting weakly expressed RNA classes, as they can be obscured by abundant RNAs. Although biochemical protocols can enrich or deplete specified RNAs, they are time-consuming, expensive and can compromise RNA integrity. Here we introduce RISER, a biochemical-free technology for the real-time enrichment or depletion of RNA classes. RISER performs selective rejection of molecules during direct RNA sequencing by identifying RNA classes directly from nanopore signals with deep learning and communicating with the sequencing hardware in real time. By targeting the dominant messenger and mitochondrial RNA classes for depletion, RISER reduces their respective read counts by more than 85%, resulting in an increase

SUBMITTER: Sneddon A 

PROVIDER: S-EPMC11126589 | biostudies-literature | 2024 May

REPOSITORIES: biostudies-literature