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

ABSTRACT: The Long-read RNA-Seq Genome Annotation Assessment Project (LRGASP) Consortium was formed to evaluate the effectiveness of long-read approaches for transcriptome analysis. The consortium generated over 427 million long-read sequences from cDNA and direct RNA datasets, encompassing human, mouse, and manatee species, using different protocols and sequencing platforms. These data were utilized by developers to address challenges in transcript isoform detection and quantification, as well as de novo transcript isoform identification. 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 s

SUBMITTER: Pardo-Palacios FJ 

PROVIDER: S-EPMC10402094 | biostudies-literature | 2023 Jul

REPOSITORIES: biostudies-literature