A comprehensive benchmarking of differential splicing tools for RNA-seq analysis at the event level

M Jiang, S Zhang, H Yin, Z Zhuo… - Briefings in …, 2023 - academic.oup.com
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 …

Bioinformatics of alternative splicing and its regulation

L Florea - Briefings in Bioinformatics, 2006 - academic.oup.com
The sequencing of the human genome and ensuing wave of data generation have brought
new light upon the extent and importance of alternative splicing as an RNA regulatory …

Tissue-specific splicing factor gene expression signatures

AR Grosso, AQ Gomes, NL Barbosa-Morais… - Nucleic acids …, 2008 - academic.oup.com
The alternative splicing code that controls and coordinates the transcriptome in complex
multicellular organisms remains poorly understood. It has long been argued that regulation …

Alternative splicing, RNA-seq and drug discovery

S Zhao - Drug discovery today, 2019 - Elsevier
Highlights•RNA-seq is emerging as a powerful technology to study alternative splicing.•RNA
mis-splicing can cause cancers and a variety of other human diseases.•To target alternative …

Regulation of alternative splicing at the single‐cell level

L Faigenbloom, ND Rubinstein, Y Kloog… - Molecular Systems …, 2015 - embopress.org
Alternative splicing is a key cellular mechanism for generating distinct isoforms, whose
relative abundances regulate critical cellular processes. It is therefore essential that …

CASH: a constructing comprehensive splice site method for detecting alternative splicing events

W Wu, J Zong, N Wei, J Cheng, X Zhou… - Briefings in …, 2018 - academic.oup.com
Abstract RNA-sequencing (RNA-seq) can generate millions of reads to provide clues for
analyzing novel or abnormal alternative splicing (AS) events in cells. However, current …

Piecing together the significance of splicing

R Sorek, M Amitai - nature biotechnology, 2001 - nature.com
Alternative splicing increases protein diversity by allowing multiple, sometimes functionally
distinct, proteins to be encoded by the same gene. It can be specific to tissues, stress …

Perfect timing: splicing and transcription rates in living cells

T Alpert, L Herzel… - Wiley Interdisciplinary …, 2017 - Wiley Online Library
An important step toward understanding gene regulation is the elucidation of the time
necessary for the completion of individual steps. Measurement of reaction rates can reveal …

Lessons from non-canonical splicing

CR Sibley, L Blazquez, J Ule - Nature Reviews Genetics, 2016 - nature.com
Recent improvements in experimental and computational techniques that are used to study
the transcriptome have enabled an unprecedented view of RNA processing, revealing many …

[HTML][HTML] Alternative RNA splicing in stem cells and cancer stem cells: importance of transcript-based expression analysis

E Ebrahimie, S Rahimirad, M Tahsili… - World Journal of Stem …, 2021 - ncbi.nlm.nih.gov
Alternative ribonucleic acid (RNA) splicing can lead to the assembly of different protein
isoforms with distinctive functions. The outcome of alternative splicing (AS) can result in a …