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
Immune response stability to the SARS-CoV-2 mRNA vaccine booster is influenced by differential splicing of HLA genes
Sign Up to like & getrecommendations! Published in 2024 at "Scientific Reports"
DOI: 10.1038/s41598-024-59259-1
Abstract: Many molecular mechanisms that lead to the host antibody response to COVID-19 vaccines remain largely unknown. In this study, we used serum antibody detection combined with whole blood RNA-based transcriptome analysis to investigate variability in… read more here.
Keywords: sars cov; differential splicing; antibody; response ... 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
Incorporating exon–exon junction reads enhances differential splicing detection
Sign Up to like & getrecommendations! Published in 2025 at "BMC Bioinformatics"
DOI: 10.1186/s12859-025-06210-4
Abstract: Motivation RNA sequencing (RNA-seq) is a gold standard technology for studying gene and transcript expression. Different transcripts from the same gene are usually determined by varying combinations of exons within the gene, formed by splicing… read more here.
Keywords: exon exon; differential splicing; exon junction; incorporating exon ... See more keywords