RNA regulation and disease

L-GIREMI detects RNA editing sites in long-read RNA-seq with high accuracy by addressing sequencing errors and biases.

The paper introduces SNAP-CDAR-S, a cytidine-to-uridine RNA base editor that outperforms RESCUE-S in editing efficiency and pathway perturbation.

The paper identifies RNA editing sites in human retinal transcriptomes and links editing QTLs to retinal diseases.

This study examines RNA editing changes in skeletal muscle of Parkinson's disease patients before and after exercise, finding age, disease status, and exercise-related differences in ADAR editing patterns.

The paper shows that ADAR1 p150, not p110 or p150, edits AZIN1 coding sites after splicing in mouse and human cells.

The paper reanalyzes proteomic datasets to identify ADAR-mediated RNA editing events and finds 18 core recoded protein sites across human tissues.

The paper identifies 25 RNA editing biomarkers in Parkinson's disease by analyzing their potential impact on miRNA regulations of 133 PD-related genes.

The paper investigates ADAR1 isoform-specific editing by analyzing binding and editing patterns in human and mouse cells, revealing that cytoplasmic localization drives editing specificity.

This paper develops a CRISPR-based RNA editing tool to restore Dendra2 fluorescence in neurons by editing specific nucleotides in the mRNA, enabling visualization of RNA-protein interactions.

This study characterizes the temporal landscape of A-to-I editing in mouse retina development and shows its dynamic interplay with splicing and translation.

The paper identifies 24,236 potentially functional A-to-I RNA editing events across 33 cancer types from The Cancer Genome Atlas, linking them to tumorigenesis through altered expression, protein function, and miRNA regulation.

The paper identifies genetic variants influencing A-to-I RNA editing in neurodegenerative diseases using large-scale transcriptomic and genetic data from multiple brain tissues.

The paper introduces miRmedon, a method for detecting A-to-I miRNA editing in small RNAseq data, and finds widespread co-editing of mature miRNA in the human brain.

This study shows that Adar1 deletion in mice causes exocrine pancreas degeneration through Mavs-dependent interferon signaling, which is rescued by concurrent Mavs deletion.

The paper examines RNA editing changes during human cortical development, identifying expansion of editing sites and their genetic regulation linked to neurological disorders.

This paper introduces CellREADR, a programmable RNA sensing technology that detects and manipulates cell types via RNA editing, demonstrating its use in mouse and human brain tissues.

This paper generates and characterizes a new Adar1p150-/- mouse model, showing its essential role in embryonic development and adult homeostasis through IFN response suppression.

The paper reports that the common ADAR1p150 mutation P193A is well tolerated in mice, with reduced severity when combined with MDA5 loss.

This study shows that overexpressing human APOBEC3B in mice causes lethality through RNA editing and organ dysfunction.

The paper quantifies RNA editing in human brain cell types, identifies cell-specific editing sites, and discovers cis-editing quantitative trait loci linked to genetic regulation.

This paper introduces REDDIT, an RNA editing-based reporter system to monitor promoter activity without requiring reporter proteins, showing it works for coding, noncoding, and miRNA genes and can be adapted for in vivo imaging.

The paper identifies three types of A-to-I editing site clusters in cephalopods and describes structural features and mechanisms underlying their formation.

This study uses RNA secondary structure to predict A-to-I editing sites, achieving moderate accuracy with a PPV of 0.68 and AUC of 0.71.

This paper introduces RADARS, a programmable RNA-sensing technology that uses ADAR-mediated RNA editing to control protein expression based on target RNA transcripts in mammalian cells, with applications in gene therapy and synthetic biology.

This study engineers ADAR2 deaminase variants to enhance RNA editing activity, specificity, and functionality through deep mutational scans, domain-wide mutagenesis, and split deaminase design.

hyperTRIBER is an R package for detecting differential RNA editing, showing high statistical power in analyzing low-expression and low-editing proportion scenarios.

The paper shows that ADAR2-mediated RNA editing of DNA:RNA hybrids is essential for DNA double strand break repair by facilitating DNA end resection.

The paper identifies RNA editing sites in single cortical neurons and links locus 15q11 with psychiatric illness through differential editing in cell types.

This study shows that Adar-mediated A-to-I editing is essential for establishing antero-posterior and dorso-ventral axes in zebrafish embryos.