[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 …

Long-read human genome sequencing and its applications

GA Logsdon, MR Vollger, EE Eichler - Nature Reviews Genetics, 2020 - nature.com
Over the past decade, long-read, single-molecule DNA sequencing technologies have
emerged as powerful players in genomics. With the ability to generate reads tens to …

Opportunities and challenges in long-read sequencing data analysis

SL Amarasinghe, S Su, X Dong, L Zappia, ME Ritchie… - Genome biology, 2020 - Springer
Long-read technologies are overcoming early limitations in accuracy and throughput,
broadening their application domains in genomics. Dedicated analysis tools that take into …

Fundamental biological features of spaceflight: advancing the field to enable deep-space exploration

E Afshinnekoo, RT Scott, MJ MacKay, E Pariset… - Cell, 2020 - cell.com
Research on astronaut health and model organisms have revealed six features of
spaceflight biology that guide our current understanding of fundamental molecular changes …

Quantitative profiling of pseudouridylation dynamics in native RNAs with nanopore sequencing

O Begik, MC Lucas, LP Pryszcz, JM Ramirez… - Nature …, 2021 - nature.com
Nanopore RNA sequencing shows promise as a method for discriminating and identifying
different RNA modifications in native RNA. Expanding on the ability of nanopore sequencing …

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 …

DirectRMDB: a database of post-transcriptional RNA modifications unveiled from direct RNA sequencing technology

Y Zhang, J Jiang, J Ma, Z Wei, Y Wang… - Nucleic Acids …, 2023 - academic.oup.com
With advanced technologies to map RNA modifications, our understanding of them has
been revolutionized, and they are seen to be far more widespread and important than …

Accurate detection of m6A RNA modifications in native RNA sequences

H Liu, O Begik, MC Lucas, JM Ramirez… - Nature …, 2019 - nature.com
The epitranscriptomics field has undergone an enormous expansion in the last few years;
however, a major limitation is the lack of generic methods to map RNA modifications …

Shotgun transcriptome, spatial omics, and isothermal profiling of SARS-CoV-2 infection reveals unique host responses, viral diversification, and drug interactions

D Butler, C Mozsary, C Meydan, J Foox… - Nature …, 2021 - nature.com
In less than nine months, the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-
CoV-2) killed over a million people, including> 25,000 in New York City (NYC) alone. The …

The RNA modification landscape in human disease

N Jonkhout, J Tran, MA Smith, N Schonrock, JS Mattick… - Rna, 2017 - rnajournal.cshlp.org
RNA modifications have been historically considered as fine-tuning chemo-structural
features of infrastructural RNAs, such as rRNAs, tRNAs, and snoRNAs. This view has …