Circular RNAs in diseases

circRAB3IP modulates cell proliferation by reorganizing gene expression and mRNA processing in a paracrine manner

The paper identifies circRAB3IP as a circRNA that modulates cell proliferation by altering gene expression and mRNA processing through interactions with SF3B1 in a paracrine manner.

Inhibiting circRNA Cdr1as expression in the ILPFC of adult male C57BL/6J mice impairs fear extinction memory

The paper shows that inhibiting circRNA Cdr1as in the infralimbic prefrontal cortex of mice impairs fear extinction memory.

Identification of circRNAs linked to Alzheimer's disease and related dementias

The paper identifies circRNAs associated with Alzheimer's disease and related dementias through transcriptome analysis and validates their expression in neuronal precursor cells exposed to oligomeric tau.

Pervasive translation of circular RNAs driven by short IRES-like elements

This study identifies IRES-like elements that drive circRNA translation and shows that many endogenous circRNAs are translated into peptides.

Clean-PIE: a novel strategy for efficiently constructing precise circRNA with thoroughly minimized immunogenicity to direct potent and durable protein expression

Clean-PIE generates high-purity, low-immunogenic circRNAs that enable durable protein expression in vitro and in vivo.

Analyses of circRNA expression throughout circadian rhythm reveal a strong link between Cdr1as and light-induced phase shifts in the SCN

The paper examines circRNA expression in circadian rhythms, finding that Cdr1as shows dynamic expression in the SCN and is linked to light-induced phase shifts.

High-throughput analysis of ANRIL circRNA isoforms in human pancreatic islets

The paper analyzes circular ANRIL isoforms in human pancreatic islets and finds higher circular:linear ANRIL ratios in T2D risk allele carriers, linked to reduced beta cell proliferation.

Identifying disease-associated circRNAs based on edge-weighted graph attention and heterogeneous graph neural network

This paper introduces CDHGNN, a model using edge-weighted graph attention and heterogeneous graph neural networks to predict circRNA-disease associations, outperforming existing methods.

Influence of RNA circularity on Target RNA-Directed MicroRNA Degradation

The paper investigates whether circular or linear RNA topology affects Target RNA-Directed MicroRNA Degradation (TDMD), finding that circular RNAs can inhibit while linear forms can drive TDMD.

Circular RNA's competing endogenous gene pair as motif in serous ovarian cancer

The paper identifies circular RNA competing endogenous gene pairs (cceGPs) as predictive indicators for serous ovarian cancer using a novel method and validates their predictive capacity in independent cohorts.

Genetic tools for the stable overexpression of circular RNAs

This paper develops genetic tools for stable circRNA overexpression in vitro and in vivo, demonstrating their utility in cell culture and mouse models.

Circular RNA detection identifies circPSEN1 alterations in brain specific to Autosomal Dominant Alzheimer Disease

This study identifies increased circPSEN1 levels in ADAD brains compared to sporadic AD and controls, suggesting a potential role in neuroinflammatory processes.

The circ_0002538/miR-138-5p/PLLP axis regulates Schwann cell migration and myelination in diabetic peripheral neuropathy

CRAFT: a bioinformatics software for custom prediction of circular RNA functions

CRAFT predicts circRNA functions by analyzing sequence interactions with miRNAs and RBPs, coding potential, and integrates predictions to infer regulatory networks.

Knockout of circRNAs by base editing back-splice sites of circularized exons

This study uses base editors to specifically knock out circRNAs by targeting back-splice sites, showing efficient repression of circular RNAs without affecting linear cognate RNAs.

Attention-based deep multiple instances learning for classifying circular RNA and other long non-coding RNA

The paper introduces an attention-based deep multiple instance learning model for circRNA identification from lncRNA, showing improved performance and identifying key sequence motifs.

Quantifying full-length circular RNAs in cancer

The paper introduces psirc, a method to identify and quantify full-length circRNA isoforms from RNA sequencing data, showing its effectiveness on cancer and normal tissue samples.

Phospho-RNA sequencing with CircAID-p-seq

The paper introduces circAID-p-seq, a PCR-free method for phospho-RNA sequencing, and demonstrates its application in ribosome profiling to study RNA-protein interactions.

Circular RNAs exhibit limited evidence for translation, or translation regulation of the mRNA-counterpart in terminal hematopoiesis

The paper analyzes circRNA expression during hematopoietic differentiation and finds limited evidence for their translation or regulatory role in erythroid and megakaryoid cells.

Application of sequence semantic and integrated cellular geography approach to study biogenesis of exonic circular RNA

This study builds a systems biology model for exonic circular RNA biogenesis using sequence semantics and an integrated cellular geography approach, showing it is a post-transcriptional event involving lncRNAs as precursors.

CircSry regulates spermatogenesis by enhancing γH2AX expression via sponging miR-138-5p

This study identifies circSry as a regulator of spermatogenesis by enhancing γH2AX expression through miR-138-5p sponging in mouse testis.

circFL-seq reveals full-length circular RNAs with rolling circular reverse transcription and nanopore sequencing

The paper introduces circFL-seq, a method for full-length circRNA sequencing using RCRT and nanopore sequencing, identifying 77,606 high-quality circRNAs from human cell lines and tissues.

Non-coding circular RNAs repertoire and expression profile during Brassica rapa pollen development

This study identifies and characterizes circRNAs during Brassica rapa pollen development, revealing their potential regulatory roles through expression patterns and miRNA interactions.

Evolutionary dynamics of circular RNAs in primates

This study examines circRNA evolution across primates, finding that expression profiles diverge rapidly between species but some circRNAs show long-term neural conservation.

Sensitive, reliable, and robust circRNA detection from RNA-seq with CirComPara2

CirComPara2 improves circRNA detection from RNA-seq by combining multiple methods, achieving high recall and precision across datasets.

An autoregulation loop in fust-1 for circular RNA regulation in Caenorhabditis elegans

The paper identifies FUST-1 as a regulator of circRNA formation in C. elegans and demonstrates an autoregulation loop between its isoforms.

Nanopore sequencing of full-length circRNAs in human and mouse brains reveals circRNA-specific exon usage and intron retention

Reverse complementary matches simultaneously promote both back-splicing and exon-skipping

The paper identifies reverse complementary matches (RCMs) in C. elegans circRNAs that facilitate both back-splicing and exon-skipping, showing their coupled occurrence in zip-2 gene splicing.

A TREM2-derived circRNA is upregulated in the entorhinal cortex of Alzheimer's disease patients

The paper identifies a novel TREM2-derived circRNA, circTREM2_1, which is upregulated in Alzheimer's disease entorhinal cortex samples.

NOVA2 regulates neural circRNA biogenesis

The paper identifies NOVA2 as a key regulator of circRNA biogenesis in the developing mouse brain, showing its role in enhancing circRNA levels through specific binding sites.