Isabel S. Naarmann‐de Vries

The paper introduces an improved protocol and software for sequence-specific direct RNA sequencing of non-polyadenylated RNAs, validated on human rRNA and other RNA species.

QutRNA2 improves tRNA modification detection using Nanopore sequencing with GPU acceleration, achieving faster performance and identifying modifications in human and mouse tRNAs.

This study shows that eukaryotic tRNA ligases repair RNA breaks in ribosomes and other RNPs, restoring translational activity and maintaining transcriptome integrity.

ViREn is a two-step method that purifies dengue virus RNA with high purity, revealing a 5-methylcytosine modification mediated by NSUN6 that affects RNA turnover.

WarpDemuX-tRNA improves barcode multiplexing for nanopore tRNA sequencing with higher precision and efficiency.

The paper develops a method to detect m6A modifications at single-molecular resolution using direct-RNA sequencing by creating synthetic data and a bespoke algorithm.

This study applies adaptive sampling to direct RNA sequencing, showing efficient depletion of mitochondrial transcripts in human and mouse samples.

The paper introduces JACUSA2, a software framework for analyzing RNA modification data from multiple sequencing platforms and experimental conditions, demonstrating its use on m6A detection datasets.

The paper develops a targeted Nanopore direct rRNA sequencing approach to assess disease-associated rRNA modifications in human cells and tissues.

This paper provides optimal design guidelines for metabolic RNA labeling experiments using asymptotic theory, showing optimal labeling times and when biochemical separation is preferable.