[PDF][PDF] The expanding landscape of alternative splicing variation in human populations

E Park, Z Pan, Z Zhang, L Lin, Y Xing - The American Journal of Human …, 2018 - cell.com
Alternative splicing is a tightly regulated biological process by which the number of gene
products for any given gene can be greatly expanded. Genomic variants in splicing …

Systematic evaluation of differential splicing tools for RNA-seq studies

A Mehmood, A Laiho, MS Venäläinen… - Briefings in …, 2020 - academic.oup.com
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 …

[HTML][HTML] SUPPA2: fast, accurate, and uncertainty-aware differential splicing analysis across multiple conditions

JL Trincado, JC Entizne, G Hysenaj, B Singh, M Skalic… - Genome biology, 2018 - Springer
Despite the many approaches to study differential splicing from RNA-seq, many challenges
remain unsolved, including computing capacity and sequencing depth requirements. Here …

Araport11: a complete reannotation of the Arabidopsis thaliana reference genome

CY Cheng, V Krishnakumar, AP Chan… - The Plant …, 2017 - Wiley Online Library
The flowering plant Arabidopsis thaliana is a dicot model organism for research in many
aspects of plant biology. A comprehensive annotation of its genome paves the way for …

[PDF][PDF] The functional impact of alternative splicing in cancer

H Climente-González, E Porta-Pardo, A Godzik… - Cell reports, 2017 - cell.com
Alternative splicing changes are frequently observed in cancer and are starting to be
recognized as important signatures for tumor progression and therapy. However, their …

Rapid and dynamic alternative splicing impacts the Arabidopsis cold response transcriptome

CPG Calixto, W Guo, AB James, NA Tzioutziou… - The Plant …, 2018 - academic.oup.com
Plants have adapted to tolerate and survive constantly changing environmental conditions
by reprogramming gene expression The dynamics of the contribution of alternative splicing …

A high quality Arabidopsis transcriptome for accurate transcript-level analysis of alternative splicing

R Zhang, CPG Calixto, Y Marquez… - Nucleic acids …, 2017 - academic.oup.com
Alternative splicing generates multiple transcript and protein isoforms from the same gene
and thus is important in gene expression regulation. To date, RNA-sequencing (RNA-seq) is …

Discovery proteomics in aging human skeletal muscle finds change in spliceosome, immunity, proteostasis and mitochondria

C Ubaida-Mohien, A Lyashkov, M Gonzalez-Freire… - Elife, 2019 - elifesciences.org
A decline of skeletal muscle strength with aging is a primary cause of mobility loss and frailty
in older persons, but the molecular mechanisms of such decline are not understood. Here …

[HTML][HTML] Intron retention is a hallmark and spliceosome represents a therapeutic vulnerability in aggressive prostate cancer

D Zhang, Q Hu, X Liu, Y Ji, HP Chao, Y Liu… - Nature …, 2020 - nature.com
The role of dysregulation of mRNA alternative splicing (AS) in the development and
progression of solid tumors remains to be defined. Here we describe the first comprehensive …

Large-scale analysis of genome and transcriptome alterations in multiple tumors unveils novel cancer-relevant splicing networks

E Sebestyén, B Singh, B Miñana, A Pagès… - Genome …, 2016 - genome.cshlp.org
Alternative splicing is regulated by multiple RNA-binding proteins and influences the
expression of most eukaryotic genes. However, the role of this process in human disease …