[HTML][HTML] Nanopore sequencing technology, bioinformatics and applications

Y Wang, Y Zhao, A Bollas, Y Wang, KF Au - Nature biotechnology, 2021 - nature.com
Rapid advances in nanopore technologies for sequencing single long DNA and RNA
molecules have led to substantial improvements in accuracy, read length and throughput …

Genomics in the long-read sequencing era

EL van Dijk, D Naquin, K Gorrichon, Y Jaszczyszyn… - Trends in Genetics, 2023 - cell.com
Long-read sequencing (LRS) technologies have provided extremely powerful tools to
explore genomes. While in the early years these methods suffered technical limitations, they …

Quantitative analysis of tRNA abundance and modifications by nanopore RNA sequencing

MC Lucas, LP Pryszcz, R Medina, I Milenkovic… - Nature …, 2024 - nature.com
Transfer RNAs (tRNAs) play a central role in protein translation. Studying them has been
difficult in part because a simple method to simultaneously quantify their abundance and …

Co-transcriptional gene regulation in eukaryotes and prokaryotes

M Shine, J Gordon, L Schärfen, D Zigackova… - … Reviews Molecular Cell …, 2024 - nature.com
Many steps of RNA processing occur during transcription by RNA polymerases. Co-
transcriptional activities are deemed commonplace in prokaryotes, in which the lack of …

Advances and opportunities in RNA structure experimental determination and computational modeling

J Zhang, Y Fei, L Sun, QC Zhang - Nature methods, 2022 - nature.com
Beyond transferring genetic information, RNAs are molecules with diverse functions that
include catalyzing biochemical reactions and regulating gene expression. Most of these …

Single-molecule epitranscriptomic analysis of full-length HIV-1 RNAs reveals functional roles of site-specific m6As

A Baek, GE Lee, S Golconda, A Rayhan… - Nature …, 2024 - nature.com
Although the significance of chemical modifications on RNA is acknowledged, the
evolutionary benefits and specific roles in human immunodeficiency virus (HIV-1) replication …

An introduction to nanopore sequencing: past, present, and future considerations

M MacKenzie, C Argyropoulos - Micromachines, 2023 - mdpi.com
There has been significant progress made in the field of nanopore biosensor development
and sequencing applications, which address previous limitations that restricted widespread …

Transfer learning enables identification of multiple types of RNA modifications using nanopore direct RNA sequencing

Y Wu, W Shao, M Yan, Y Wang, P Xu, G Huang… - Nature …, 2024 - nature.com
Nanopore direct RNA sequencing (DRS) has emerged as a powerful tool for RNA
modification identification. However, concurrently detecting multiple types of modifications in …

2′-O-methylation at internal sites on mRNA promotes mRNA stability

Y Li, Y Yi, X Gao, X Wang, D Zhao, R Wang, LS Zhang… - Molecular cell, 2024 - cell.com
O-methylation (Nm) is a prominent RNA modification well known in noncoding RNAs and
more recently also found at many mRNA internal sites. However, their function and base …

Navigating the pitfalls of map** DNA and RNA modifications

Y Kong, EA Mead, G Fang - Nature Reviews Genetics, 2023 - nature.com
Chemical modifications to nucleic acids occur across the kingdoms of life and carry
important regulatory information. Reliable high-resolution map** of these modifications is …