Systematic assessment of long-read RNA-seq methods for transcript identification and quantification.

ABSTRACT: The Long-read RNA-Seq Genome Annotation Assessment Project Consortium was formed to evaluate the effectiveness of long-read approaches for transcriptome analysis. Using different protocols and sequencing platforms, the consortium generated over 427 million long-read sequences from complementary DNA and direct RNA datasets, encompassing human, mouse and manatee species. Developers utilized these data to address challenges in transcript isoform detection, quantification and de novo transcript detection. The study revealed that libraries with longer, more accurate sequences produce more accurate transcripts than those with increased read depth, whereas greater read depth improved quantification accuracy. In well-annotated genomes, tools based on reference sequences demonstrated the best perfo

SUBMITTER: Pardo-Palacios FJ 

PROVIDER: S-EPMC11543605 | biostudies-literature | 2024 Jul

REPOSITORIES: biostudies-literature