L-GIREMI uncovers RNA editing sites in long-read RNA-seq.
Genome Biol
; 24(1): 171, 2023 07 20.
Article
em En
| MEDLINE
| ID: mdl-37474948
ABSTRACT
Although long-read RNA-seq is increasingly applied to characterize full-length transcripts it can also enable detection of nucleotide variants, such as genetic mutations or RNA editing sites, which is significantly under-explored. Here, we present an in-depth study to detect and analyze RNA editing sites in long-read RNA-seq. Our new method, L-GIREMI, effectively handles sequencing errors and read biases. Applied to PacBio RNA-seq data, L-GIREMI affords a high accuracy in RNA editing identification. Additionally, our analysis uncovered novel insights about RNA editing occurrences in single molecules and double-stranded RNA structures. L-GIREMI provides a valuable means to study nucleotide variants in long-read RNA-seq.
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MEDLINE
Assunto principal:
Edição de RNA
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Idioma:
En
Ano de publicação:
2023
Tipo de documento:
Article