RNA modifications detection by comparative Nanopore direct RNA sequencing [PDF]
Nature Communications, 2021 Nanopore direct RNA Sequencing data contain information about the presence of RNA modifications, but their detection poses substantial challenges. Here the authors introduce Nanocompore, a new methodology for modification detection from Nanopore data.
Adrien Leger +18 more
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Whole-Genome Sequencing of Human Enteroviruses from Clinical Samples by Nanopore Direct RNA Sequencing [PDF]
Viruses, 2020 Enteroviruses are small RNA viruses that affect millions of people each year by causing an important burden of disease with a broad spectrum of symptoms.
Carole Grädel +7 more
doaj +5 more sources
Detecting RNA modification using direct RNA sequencing: A systematic review [PDF]
Computational and Structural Biotechnology Journal, 2022 Post-transcriptional RNA modifications are involved in a range of important cellular processes, including the regulation of gene expression and fine-tuning of the functions of RNA molecules.
Xichen Zhao +4 more
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RNA Editing Detection by Direct Sequencing
Bio-Protocol, 2015 RNA editing is a widespread post-transcriptional phenomenon through which primary RNA sequences are altered by nucleotide insertion/deletion or base conversion.
Mehdi Jabnoune +5 more
doaj +2 more sources
Direct detection of RNA modifications and structure using single-molecule nanopore sequencing
Cell Genomics, 2022 Summary: Modifications are present on many classes of RNA, including tRNA, rRNA, and mRNA. These modifications modulate diverse biological processes such as genetic recoding and mRNA export and folding. In addition, modifications can be introduced to RNA
William Stephenson +5 more
doaj +3 more sources
MasterOfPores: A Workflow for the Analysis of Oxford Nanopore Direct RNA Sequencing Datasets
Frontiers in Genetics, 2020 The direct RNA sequencing platform offered by Oxford Nanopore Technologies allows for direct measurement of RNA molecules without the need of conversion to complementary DNA, fragmentation or amplification.
Luca Cozzuto +12 more
doaj +3 more sources
Unraveling C-to-U RNA editing events from direct RNA sequencing
RNA BiologyIn mammals, RNA editing events involve the conversion of adenosine (A) in inosine (I) by ADAR enzymes or the hydrolytic deamination of cytosine (C) in uracil (U) by the APOBEC family of enzymes, mostly APOBEC1.
Adriano Fonzino +7 more
doaj +3 more sources
Native RNA or cDNA Sequencing for Transcriptomic Analysis: A Case Study on Saccharomyces cerevisiae
Frontiers in Bioengineering and Biotechnology, 2022 Direct sequencing of single molecules through nanopores allows for accurate quantification and full-length characterization of native RNA or complementary DNA (cDNA) without amplification.
Thidathip Wongsurawat +3 more
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Viruses, 2020 The MinION sequencer is increasingly being used for the detection and outbreak surveillance of pathogens due to its rapid throughput. For RNA viruses, MinION’s new direct RNA sequencing is the next significant development.
Deborah M. Leigh +2 more
doaj +1 more source
Epidermal Growth Factor Receptor Mutation and Anaplastic Lymphoma Kinase Gene Fusion: Detection in Malignant Pleural Effusion by RNA or PNA Analysis. [PDF]
PLoS ONE, 2016 Analyzing EGFR mutations and detecting ALK gene fusion are indispensable when planning to treat pulmonary adenocarcinoma. Malignant pleural effusion (MPE) is a devastating complication of lung cancer and sometimes the only source for mutation analysis ...
Yi-Lin Chen +10 more
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