rMATS-turbo: an efficient and flexible computational tool for alternative splicing analysis of large-scale RNA-seq data
Pre-mRNA alternative splicing is a prevalent mechanism for diversifying eukaryotic
transcriptomes and proteomes. Regulated alternative splicing plays a role in many …
transcriptomes and proteomes. Regulated alternative splicing plays a role in many …
The role of alternative splicing in cancer
The functional capacity of cells is defined by the transcriptome. Many recent studies have
identified variations in the transcriptome of tumors due to alternative splicing changes, as …
identified variations in the transcriptome of tumors due to alternative splicing changes, as …
rMATS: robust and flexible detection of differential alternative splicing from replicate RNA-Seq data
Ultra-deep RNA sequencing (RNA-Seq) has become a powerful approach for genome-wide
analysis of pre-mRNA alternative splicing. We previously developed multivariate analysis of …
analysis of pre-mRNA alternative splicing. We previously developed multivariate analysis of …
The functional impact of alternative splicing in cancer
Alternative splicing changes are frequently observed in cancer and are starting to be
recognized as important signatures for tumor progression and therapy. However, their …
recognized as important signatures for tumor progression and therapy. However, their …
The MBNL3 splicing factor promotes hepatocellular carcinoma by increasing PXN expression through the alternative splicing of lncRNA-PXN-AS1
J Yuan, X Liu, T Wang, W Pan, Q Tao, WP Zhou… - Nature cell …, 2017 - nature.com
Understanding the roles of splicing factors and splicing events during tumorigenesis would
open new avenues for targeted therapies. Here we identify an oncofetal splicing factor …
open new avenues for targeted therapies. Here we identify an oncofetal splicing factor …
Intron retention is a hallmark and spliceosome represents a therapeutic vulnerability in aggressive prostate cancer
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 …
progression of solid tumors remains to be defined. Here we describe the first comprehensive …
Dysregulation of the splicing machinery is directly associated to aggressiveness of prostate cancer
JM Jiménez-Vacas, V Herrero-Aguayo… - …, 2020 - thelancet.com
Background Dysregulation of splicing variants (SVs) expression has recently emerged as a
novel cancer hallmark. Although the generation of aberrant SVs (eg AR-v7/sst5TMD4/etc.) is …
novel cancer hallmark. Although the generation of aberrant SVs (eg AR-v7/sst5TMD4/etc.) is …
The splicing regulators Esrp1 and Esrp2 direct an epithelial splicing program essential for mammalian development
TW Bebee, JW Park, KI Sheridan, CC Warzecha… - Elife, 2015 - elifesciences.org
Tissue-and cell-type-specific regulators of alternative splicing (AS) are essential
components of posttranscriptional gene regulation, necessary for normal cellular function …
components of posttranscriptional gene regulation, necessary for normal cellular function …
Deep-learning augmented RNA-seq analysis of transcript splicing
A major limitation of RNA sequencing (RNA-seq) analysis of alternative splicing is its
reliance on high sequencing coverage. We report DARTS (https://github …
reliance on high sequencing coverage. We report DARTS (https://github …
DNA methylation variations are required for epithelial-to-mesenchymal transition induced by cancer-associated fibroblasts in prostate cancer cells
Widespread genome hypo-methylation and promoter hyper-methylation of epithelium-
specific genes are hallmarks of stable epithelial-to-mesenchymal transition (EMT), which in …
specific genes are hallmarks of stable epithelial-to-mesenchymal transition (EMT), which in …