Results 251 to 260 of about 721,346 (281)

Utilising Nanopore direct RNA sequencing of blood from patients with sepsis for discovery of co- and post-transcriptional disease biomarkers

He J, Ganesamoorthy D, Chang JJ, Zhang J, Trevor SL, Gibbons KS, McPherson SJ, Kling JC, Schlapbach LJ, Blumenthal A, the RAPIDS Study Group, Coin LJ.   +11 more
europepmc   +1 more source

Highly parallel direct RNA sequencing on an array of nanopores [PDF]

Nature Methods, 2018
Sequencing the RNA in a biological sample can unlock a wealth of information, including the identity of bacteria and viruses, the nuances of alternative splicing or the transcriptional state of organisms. However, current methods have limitations due to short read lengths and reverse transcription or amplification biases.
Anthony Warland, Jonah Ciccone, E Jayne Wallace   +2 more
exaly   +3 more sources

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Direct Sequencing of RNA and RNA Modification Identification Using Nanopore

2022
Direct RNA sequencing (dRNA-seq) simultaneously enables the detection of RNA modifications and characterization of full-length transcripts. In principle, full-length native RNA molecule is translocated through the nanopore by a motor protein while a sensor measures ionic current shifts. Then, the current shifts are interpreted by an algorithm that turn
Thidathip, Wongsurawat, Piroon, Jenjaroenpun, Intawat, Nookaew   +2 more
openaire   +2 more sources

Nanopore Direct RNA Sequencing of Monosome- and Polysome-Bound RNA

2023
Polysome fractionation makes use of density gradients and ultracentrifugation to separate transcripts based on their specific number of bound ribosomes, and can be combined with downstream analysis such as cDNA-seq (commonly known as RNA-seq), microarray analysis, RT-qPCR, or Northern blotting.
Lan Anh Catherine, Nguyen, Toshifumi, Inada, Josephine, Galipon   +2 more
openaire   +2 more sources

Identification of differential RNA modifications from nanopore direct RNA sequencing with xPore

Nature Biotechnology, 2021
RNA modifications, such as N6-methyladenosine (m6A), modulate functions of cellular RNA species. However, quantifying differences in RNA modifications has been challenging. Here we develop a computational method, xPore, to identify differential RNA modifications from nanopore direct RNA sequencing (RNA-seq) data. We evaluate our method on transcriptome-
Ploy N Pratanwanich, Ying Chen, Wee Joo Chng   +2 more
exaly   +3 more sources

RNA Modification Detection Using Nanopore Direct RNA Sequencing and nanoDoc2

2023
RNA modifications regulate multiple aspects of cellular function including RNA splicing, translation, export, decay, stability, and phase separation. One of the comprehensive ways to detect such modifications is by the recent advancement of direct RNA sequencing from Oxford Nanopore Technologies (ONT).
Hiroki, Ueda, Bhaskar, Dasgupta, Bo-Yi, Yu   +2 more
openaire   +2 more sources

TARDIS, a targeted RNA directional sequencing method for rare RNA discovery

Nature Protocols, 2015
High-throughput transcriptional analysis has unveiled a myriad of novel RNAs. However, technical constraints in RNA sequencing library preparation and platform performance hamper the identification of rare transcripts contained within the RNA repertoire.
Maximiliano M Portal, Valeria Pavet, Cathie Erb, Hinrich Gronemeyer   +3 more
openaire   +2 more sources

Direct Chemical Sequencing of End-Labeled RNA

Cold Spring Harbor Protocols, 2015
Chemical sequencing of RNA relies on the fact that each of the four bases in RNA is susceptible to chemical modification in a different way. In this protocol, end-labeled RNAs are subjected to base-specific chemical modification reactions that make the RNA strand adjacent to the modified base susceptible to cleavage.
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Analysis of Pteridium ribosomal RNA sequences by rapid direct sequencing

Plant Molecular Biology, 1991
A total of 864 bases from 5 regions interspersed in the 18S and 26S rRNA molecules from various clones of Pteridium covering the general geographical distribution of the genus was analysed using a rapid rRNA sequencing technique. No base difference has been detected amongst the three major lineages, two of which apparently separated before the breakup ...
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Directed Deletion of a Yeast Transfer RNA Intervening Sequence

Science, 1980
Many eukaryotic genes contain intervening sequences, segments of DNA that interrupt the continuity of the gene. They are removed from RNA transcripts of the gene by a process known as splicing. The intervening sequence in a yeast tyrosine transfer RNA (tRNA Tyr ) suppressor gene was deleted in order to test its role
R B, Wallace, P F, Johnson, S, Tanaka, M, Schöld, K, Itakura, J, Abelson   +5 more
openaire   +2 more sources