Intron retention as a component of regulated gene expression programs

AG Jacob, CWJ Smith - Human genetics, 2017 - Springer
Intron retention has long been an exemplar of regulated splicing with case studies of
individual events serving as models that provided key mechanistic insights into the process …

EMT and stemness: flexible processes tuned by alternative splicing in development and cancer progression

D Pradella, C Naro, C Sette, C Ghigna - Molecular cancer, 2017 - Springer
Epithelial-to-mesenchymal transition (EMT) is associated with metastasis formation as well
as with generation and maintenance of cancer stem cells. In this way, EMT contributes to …

Alternative splicing and protein diversity: plants versus animals

S Chaudhary, W Khokhar, I Jabre, ASN Reddy… - Frontiers in plant …, 2019 - frontiersin.org
Plants, unlike animals, exhibit a very high degree of plasticity in their growth and
development and employ diverse strategies to cope with the variations during diurnal cycles …

IRFinder: assessing the impact of intron retention on mammalian gene expression

R Middleton, D Gao, A Thomas, B Singh, A Au… - Genome biology, 2017 - Springer
Intron retention (IR) occurs when an intron is transcribed into pre-mRNA and remains in the
final mRNA. We have developed a program and database called IRFinder to accurately …

The changing paradigm of intron retention: regulation, ramifications and recipes

G Monteuuis, JJL Wong, CG Bailey… - Nucleic acids …, 2019 - academic.oup.com
Intron retention (IR) is a form of alternative splicing that has long been neglected in
mammalian systems although it has been studied for decades in non-mammalian species …

Comprehensive proteomic analysis of human erythropoiesis

EF Gautier, S Ducamp, M Leduc, V Salnot… - Cell reports, 2016 - cell.com
Mass spectrometry-based proteomics now enables the absolute quantification of thousands
of proteins in individual cell types. We used this technology to analyze the dynamic …

FUS ALS-causative mutations impair FUS autoregulation and splicing factor networks through intron retention

J Humphrey, N Birsa, C Milioto… - Nucleic acids …, 2020 - academic.oup.com
Mutations in the RNA-binding protein FUS cause amyotrophic lateral sclerosis (ALS), a
devastating neurodegenerative disease. FUS plays a role in numerous aspects of RNA …

An orchestrated intron retention program in meiosis controls timely usage of transcripts during germ cell differentiation

C Naro, A Jolly, S Di Persio, P Bielli, N Setterblad… - Developmental cell, 2017 - cell.com
Global transcriptome reprogramming during spermatogenesis ensures timely expression of
factors in each phase of male germ cell differentiation. Spermatocytes and spermatids …

Intron retention is regulated by altered MeCP2-mediated splicing factor recruitment

JJL Wong, D Gao, TV Nguyen, CT Kwok… - Nature …, 2017 - nature.com
While intron retention (IR) is considered a widely conserved and distinct mechanism of gene
expression control, its regulation is poorly understood. Here we show that DNA methylation …

Intron retention and its impact on gene expression and protein diversity: A review and a practical guide

DF Grabski, L Broseus, B Kumari… - Wiley …, 2021 - Wiley Online Library
Intron retention (IR) occurs when a complete and unspliced intron remains in mature mRNA.
An increasing body of literature has demonstrated a major role for IR in numerous biological …