DRUMMER-rapid detection of RNA modifications through comparative nanopore sequencing.

ABSTRACT:

Motivation

The chemical modification of ribonucleotides regulates the structure, stability and interactions of RNAs. Profiling of these modifications using short-read (Illumina) sequencing techniques provides high sensitivity but low-to-medium resolution i.e. modifications cannot be assigned to specific transcript isoforms in regions of sequence overlap. An alternative strategy uses current fluctuations in nanopore-based long read direct RNA sequencing (DRS) to infer the location and identity of nucleotides that differ between two experimental conditions. While highly sensitive, these signal-level analyses require high-quality transcriptome annotations and thus are best suited to the study of model organisms. By contrast, the detection of RNA modifications in microbial organisms wh

SUBMITTER: Abebe JS 

PROVIDER: S-EPMC9154255 | biostudies-literature | 2022 May

REPOSITORIES: biostudies-literature