IsONform: reference-free transcriptome reconstruction from Oxford Nanopore data.

ABSTRACT:

Motivation

With advances in long-read transcriptome sequencing, we can now fully sequence transcripts, which greatly improves our ability to study transcription processes. A popular long-read transcriptome sequencing technique is Oxford Nanopore Technologies (ONT), which through its cost-effective sequencing and high throughput, has the potential to characterize the transcriptome in a cell. However, due to transcript variability and sequencing errors, long cDNA reads need substantial bioinformatic processing to produce a set of isoform predictions from the reads. Several genome and annotation-based methods exist to produce transcript predictions. However, such methods require high-quality genomes and annotations and are limited by the accuracy of long-read splice aligners. In addit

SUBMITTER: Petri AJ 

PROVIDER: S-EPMC10311309 | biostudies-literature | 2023 Jun

REPOSITORIES: biostudies-literature