Accurate isoform discovery with IsoQuant using long reads.

TitleAccurate isoform discovery with IsoQuant using long reads.
Publication TypeJournal Article
Year of Publication2023
AuthorsPrjibelski AD, Mikheenko A, Joglekar A, Smetanin A, Jarroux J, Lapidus AL, Tilgner HU
JournalNat Biotechnol
Date Published2023 Jan 02

Annotating newly sequenced genomes and determining alternative isoforms from long-read RNA data are complex and incompletely solved problems. Here we present IsoQuant-a computational tool using intron graphs that accurately reconstructs transcripts both with and without reference genome annotation. For novel transcript discovery, IsoQuant reduces the false-positive rate fivefold and 2.5-fold for Oxford Nanopore reference-based or reference-free mode, respectively. IsoQuant also improves performance for Pacific Biosciences data.

Alternate JournalNat Biotechnol
PubMed ID36593406