Leszek P. Pryszcz

AMaNITA provides an end-to-end workflow for analyzing nanopore native tRNA sequencing data, enabling differential abundance and modification stoichiometry analysis.

The paper introduces Nano3P-seq, a nanopore-based method to analyze RNA polyA tail composition and length at single-molecule resolution, along with software PolyTailor for accurate estimation of transcript abundances and tail dynamics.

SeqTagger demultiplexes direct RNA nanopore sequencing datasets with high precision and recall, supporting multiple chemistries and library types.

This paper introduces m6ABasecaller, a method for de novo basecalling of m6A modifications at single molecule and single nucleotide resolution using nanopore sequencing.

This paper shows that using high-accuracy nanopore RNA basecalling models improves detection of RNA modifications, read mappability, and basecalling accuracy.

This study shows that Adar-mediated A-to-I editing is essential for establishing antero-posterior and dorso-ventral axes in zebrafish embryos.

ModPhred provides a toolkit for analyzing and storing nanopore sequencing DNA and RNA modification data, enabling efficient encoding, visualization, and analysis.

The paper introduces a method to quantify RNA modifications using nanopore sequencing, revealing novel modification sites and dynamics in yeast under environmental stress.

The paper introduces a scalable workflow for analyzing Oxford Nanopore direct RNA sequencing data, enabling RNA modification detection and polyA tail length estimation.

nextPARS is an Illumina-based method for parallel RNA structure probing that matches previous accuracy while improving throughput and sample multiplexing.