Accurate isoform discovery with IsoQuant using long reads.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 36593406.
- Also identified by DOI 10.1038/s41587-022-01565-y and PMC identifier 10344776.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
Abstract
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.
Medical subject headings
- High-Throughput Nucleotide Sequencing
- RNA