Penguin: A tool for predicting pseudouridine sites in direct RNA nanopore sequencing data.

ABSTRACT: Pseudouridine is one of the most abundant RNA modifications, occurring when uridines are catalyzed by Pseudouridine synthase proteins. It plays an important role in many biological processes and has been reported to have application in drug development. Recently, the single-molecule sequencing techniques such as the direct RNA sequencing platform offered by Oxford Nanopore technologies have enabled direct detection of RNA modifications on the molecule being sequenced. In this study, we introduce a tool called Penguin that integrates several machine learning (ML) models to identify RNA Pseudouridine sites on Nanopore direct RNA sequencing reads. Pseudouridine sites were identified on single molecule sequencing data collected from direct RNA sequencing resulting in 723 K reads in Hek293 and

SUBMITTER: Hassan D 

PROVIDER: S-EPMC9232934 | biostudies-literature | 2022 Jul

REPOSITORIES: biostudies-literature