Ribosome profiling at isoform level reveals evolutionary conserved impacts of differential splicing on the proteome
Sign Up to like & getrecommendations! Published in 2020 at "Nature Communications"
DOI: 10.1038/s41467-020-15634-w
Abstract: The differential production of transcript isoforms from gene loci is a key cellular mechanism. Yet, its impact in protein production remains an open question. Here, we describe ORQAS (ORF quantification pipeline for alternative splicing), a… read more here.
Keywords: ribosome profiling; differential splicing; human mouse; level ... See more keywords
A comprehensive benchmarking of differential splicing tools for RNA-seq analysis at the event level.
Sign Up to like & getrecommendations! Published in 2023 at "Briefings in bioinformatics"
DOI: 10.1093/bib/bbad121
Abstract: RNA alternative splicing, a post-transcriptional stage in eukaryotes, is crucial in cellular homeostasis and disease processes. Due to the rapid development of the next-generation sequencing (NGS) technology and the flood of NGS data, the detection… read more here.
Keywords: differential splicing; rna seq; event; analysis ... See more keywords
Systematic evaluation of differential splicing tools for RNA-seq studies
Sign Up to like & getrecommendations! Published in 2020 at "Briefings in Bioinformatics"
DOI: 10.1093/bib/bbz126
Abstract: Abstract Differential splicing (DS) is a post-transcriptional biological process with critical, wide-ranging effects on a plethora of cellular activities and disease processes. To date, a number of computational approaches have been developed to identify and… read more here.
Keywords: event based; differential splicing; rna seq; systematic evaluation ... See more keywords
Outlier detection for improved differential splicing quantification from RNA-Seq experiments with replicates
Sign Up to like & getrecommendations! Published in 2018 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btx790
Abstract: Motivation A key component in many RNA-Seq-based studies is contrasting multiple replicates from different experimental conditions. In this setup, replicates play a key role as they allow to capture underlying biological variability inherent to the… read more here.
Keywords: improved differential; detection; differential splicing; outlier detection ... See more keywords