[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 …

[HTML][HTML] 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 …

[HTML][HTML] 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 …

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 …

[HTML][HTML] Beyond sequencing: machine learning algorithms extract biology hidden in Nanopore signal data

YK Wan, C Hendra, PN Pratanwanich, J Göke - Trends in Genetics, 2022 - cell.com
Nanopore sequencing provides signal data corresponding to the nucleotide motifs
sequenced. Through machine learning-based methods, these signals are translated into …

Accurate expression quantification from nanopore direct RNA sequencing with NanoCount

J Gleeson, A Leger, YDJ Prawer, TA Lane… - Nucleic acids …, 2022 - academic.oup.com
Accurately quantifying gene and isoform expression changes is essential to understanding
cell functions, differentiation and disease. Sequencing full-length native RNAs using long …

[HTML][HTML] 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 …

[HTML][HTML] 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 …

Navigating the pitfalls of mapping 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 mapping of these modifications is …

Exploring the epitranscriptome by native RNA sequencing

O Begik, JS Mattick, EM Novoa - RNA, 2022 - rnajournal.cshlp.org
Chemical RNA modifications, collectively referred to as the “epitranscriptome,” are essential
players in fine-tuning gene expression. Our ability to analyze RNA modifications has …