Results 11 to 20 of about 4,264,667 (244)

A gene-specific RNA enrichment protocol for nanopore direct-RNA sequencing.

PLoS ONE
Oxford Nanopore direct-RNA sequencing, a third-generation sequencing technology, allows for the analysis of native RNA molecules in their natural cellular state.
Maja Bele Dyrendalsli, Cecilie Løkke, Christer Einvik   +2 more
doaj   +4 more sources

Sequencing accuracy and systematic errors of nanopore direct RNA sequencing

BMC Genomics, 2023
Background Direct RNA sequencing (dRNA-seq) on the Oxford Nanopore Technologies (ONT) platforms can produce reads covering up to full-length gene transcripts, while containing decipherable information about RNA base modifications and poly-A tail lengths.
Wang Liu-Wei, Wiep van der Toorn, Patrick Bohn, Martin Hölzer, Redmond P. Smyth, Max von Kleist   +5 more
doaj   +5 more sources

Advances in Detecting RNA Modifications Using Direct RNA Nanopore Sequencing

Advanced Genetics
RNA modifications add a dynamic and versatile regulatory layer to gene expression, influencing RNA stability, splicing, translation, and cellular responses.
Yaran Liu, Yang Li, Qiang Sun
doaj   +4 more sources

Utilization of nanopore direct RNA sequencing to analyze viral RNA modifications

mSystems
Modifications on viral RNAs (vRNAs), either genomic RNAs or RNA transcripts, have complex effects on the viral life cycle and cellular responses to viral infection.
Lu Tan, Zhihao Guo, Xiaoming Wang, Dal Young Kim, Runsheng Li   +4 more
doaj   +3 more sources

Direct RNA sequencing [PDF]

Nature, 2009
Our understanding of human biology and disease is ultimately dependent on a complete understanding of the genome and its functions. The recent application of microarray and sequencing technologies to transcriptomics has changed the simplistic view of transcriptomes to a more complicated view of genome-wide transcription where a large fraction of ...
Fatih, Ozsolak, Adam R, Platt, Dan R, Jones, Jeffrey G, Reifenberger, Lauryn E, Sass, Peter, McInerney, John F, Thompson, Jayson, Bowers, Mirna, Jarosz, Patrice M, Milos   +9 more
openaire   +3 more sources

RNA sequencing by direct tagmentation of RNA/DNA hybrids [PDF]

Proceedings of the National Academy of Sciences, 2019
Transcriptome profiling by RNA sequencing (RNA-seq) has been widely used to characterize cellular status, but it relies on second-strand complementary DNA (cDNA) synthesis to generate initial material for library preparation. Here we use bacterial transposase Tn5, which has been increasingly used in various high-throughput DNA analyses, to construct ...
Lin Di, Yusi Fu, Yue Sun, Jie Li, Lu Liu, Jiacheng Yao, Guanbo Wang, Yalei Wu, Kaiqin Lao, Raymond W. Lee, Genhua Zheng, Jun Xu, Juntaek Oh, Dong Wang, X. Sunney Xie, Yanyi Huang, Jianbin Wang   +16 more
openaire   +4 more sources

Adaptive sampling for nanopore direct RNA-sequencing

RNA, 2023
Nanopore long-read sequencing enables real-time monitoring and controlling of individual nanopores. This allows us to enrich or deplete specific sequences in DNA sequencing in a process called “adaptive sampling.” So far, adaptive sampling (AS) was not applicable to the direct sequencing of RNA.
Naarmann-de Vries, Isabel S., Gjerga, Enio, Gandor, Catharina L.A., Dieterich, Christoph   +3 more
openaire   +2 more sources

The microglial sensome revealed by direct RNA sequencing [PDF]

Nature Neuroscience, 2013
Microglia, the principal neuroimmune sentinels of the brain, continuously sense changes in their environment and respond to invading pathogens, toxins and cellular debris. Microglia exhibit plasticity and can assume neurotoxic or neuroprotective priming states that determine their responses to danger.
Hickman, Suzanne E., Ohsumi, Toshiro, Wang, Li-chong, Kingery, Nathan D., Borowsky, Mark L, Means, Terry K., Khoury, Joseph   +6 more
openaire   +4 more sources

Pervasive effects of RNA degradation on Nanopore direct RNA sequencing

NAR Genomics and Bioinformatics, 2022
Abstract Oxford Nanopore direct RNA sequencing (DRS) is capable of sequencing complete RNA molecules and accurately measuring gene and isoform expression. However, as DRS is designed to profile intact RNA, expression quantification may be more heavily dependent upon RNA integrity than alternative RNA sequencing methodologies.
Yair D J Prawer, Josie Gleeson, Ricardo De Paoli-Iseppi, Michael B Clark   +3 more
openaire   +3 more sources

Novel endoribonucleases as central players in various pathways of eukaryotic RNA metabolism [PDF]

, 2010
For a long time it has been assumed that the decay of RNA in eukaryotes is mainly carried out by exoribonucleases, which is in contrast to bacteria, where endoribonucleases are well documented to initiate RNA degradation.
Tomecki, Rafał, Dziembowski, Andrzej
core   +3 more sources