RNA Research and Splicing

hGRAD rapidly depletes nuclear RNA binding proteins, enabling study of their roles in RNA processing and dynamics.

The paper shows that IntS6 recruits PP2A to regulate transcription termination efficiency at specific genes, highlighting the phosphatase module's selective role in Integrator complex function.

The paper uses an integrative proteogenomics approach to analyze splicing variation and differential expression in a DM1 mouse model, identifying both known and novel aberrant splicing events.

This study reveals how the dsRBD2 domain of the DExH-type helicase maleless orchestrates RNA unwinding through structural transitions, independent of ATP.

This study shows that catalytic activity of Bin3 is not required for 7SK snRNP function in Drosophila, as catalytic mutants can rescue all phenotypes.

The paper characterizes Kirrel3 isoforms in mouse and human brain using long-read sequencing, identifies novel exons, and links splicing diversity to evolutionary changes in synapse-specificity.

The paper introduces a Proxitome-RNA-capture method to study RNA composition in Arabidopsis processing bodies, revealing dynamic RNA regulation and its role in stress responses.

This paper adapts the RiPCA technology to detect and screen mRNA-protein interactions in live cells, providing a guide for developing future assays for diverse interactions.

This study identifies distinct roles of low-complexity regions in SFPQ for biomolecular condensate formation, showing the C-terminal region drives condensation while the N-terminal region inhibits it.

This study investigates SF3B1-mutant myelodysplastic syndromes with ring sideroblasts by isolating RS and analyzing their development and mis-splicing during erythroid differentiation.

The paper investigates transcript boundary shifts during glucose starvation in fission yeast, revealing changes in 3-UTRs, poly(A) tails, and 5-UTRs with functional impacts on stress response proteins.

The paper identifies how NEAT1 domains specify shell protein composition in paraspeckles, enabling their independence from nuclear speckles through phase separation.

This study shows JMJD6 links pre-mRNA splicing and metabolism in MYC-driven cancers, and its inhibition enhances therapeutic response to splicing inhibitors.

The paper determines the structure of CPSF73-CPSF100 heterodimer and its interaction with Symplekin, revealing conserved architecture and key binding regions.

This study shows DDX6 regulates decay of inefficiently translated mRNAs by interacting with ribosomes and requiring ATPase activity.

The paper presents the cryo-EM structure of the CBC-ALYREF complex, revealing interactions between ALYREF and CBC subunits that contribute to mRNA export.

The paper identifies dual roles of ZC3H18 in promoting NEXT and antagonizing PAXT to co-activate RNA decay pathways for short substrates.

This study shows that inactivating Prp18p leads to global activation of alternative 3' splice sites with divergent sequences, without affecting cellular fitness.

The paper identifies PAP-gamma as a component of the PAXT complex that recruits it to gene promoters, regulating PROMPT ncRNA abundance through polyadenylation.

The paper shows that bacterial pore-forming toxins induce alternative splicing of CIRBP and SRSFs, altering cell response to Listeria infection.

DEWSeq improves eCLIP data analysis by increasing the detection of RNA-binding protein binding sites and their functional elements.

The paper shows that alternative splicing contributes significantly to biological signals in RNA-seq data, suggesting current studies may miss important insights.

The paper quantifies evolutionary constraint on the branch point sequence in 30 species using public variant databases, finding biased variants in 16 species and identifying constrained positions in 14.

The paper benchmarks eight tools for identifying and quantifying alternative polyadenylation sites from RNA-seq data using real, synthetic, and 3'-end sequencing data.

This study identifies alternative splicing in lung genes as a factor influencing COVID-19 severity and respiratory diseases using Mendelian randomization.

The paper shows that variation in 5 splice site sequence preferences correlates with the presence of METTL16 and SNRNP27K, using inter-species association mapping in Saccharomycotina species.

This study identifies DHX15 as a splicing quality control factor in human cells, activated by SUGP1, which represses suboptimal introns and promotes splicing fidelity.

The paper identifies a neural-specific post-transcriptional mechanism regulating PQM-1 expression and hypoxia survival through ADAR proteins in larval animals.

CLT-seq provides a simple, unbiased method for poly(A)-tail profiling, revealing dynamic ncRNA regulation similar to mRNA.