Ularcirc: visualization and enhanced analysis of circular RNAs via back and canonical forward splicing

Reconstruction of full-length circular RNAs enables isoform-level quantification

(2019) Yi Zheng et al.   Genome Medicine

Expanded Expression Landscape and Prioritization of Circular RNAs in Mammals

(2019) Peifeng Ji et al.   Cell Reports

Genome-wide identification of cancer-specific alternative splicing in circRNA

(2019) Jing Feng et al.   Molecular Cancer

The Landscape of Circular RNA in Cancer

(2019) Josh N. Vo et al.   CELL

Cardiac circRNAs arise mainly from constitutive exons rather than alternatively spliced exons

(2018) Simona Aufiero et al.   RNA

Computational Strategies for Exploring Circular RNAs

(2018) Yuan Gao et al.   TRENDS IN GENETICS

Circular RNAs: Promising Biomarkers for Human Diseases

(2018) Zhongrong Zhang et al.   EBioMedicine

miRBase: from microRNA sequences to function

(2018) Ana Kozomara et al.   NUCLEIC ACIDS RESEARCH

Translation of CircRNAs

(2017) Nagarjuna Reddy Pamudurti et al.   MOLECULAR CELL

Circ-ZNF609 Is a Circular RNA that Can Be Translated and Functions in Myogenesis

(2017) Ivano Legnini et al.   MOLECULAR CELL

The Output of Protein-Coding Genes Shifts to Circular RNAs When the Pre-mRNA Processing Machinery Is Limiting

(2017) Dongming Liang et al.   MOLECULAR CELL

PlantcircBase: A Database for Plant Circular RNAs

(2017) Qinjie Chu et al.   Molecular Plant

DHX9 suppresses RNA processing defects originating from the Alu invasion of the human genome

(2017) Tuğçe Aktaş et al.   NATURE

Identification of HuR target circular RNAs uncovers suppression of PABPN1 translation by CircPABPN1

(2017) Kotb Abdelmohsen et al.   RNA Biology

FUCHS—towards full circular RNA characterization using RNAseq

(2017) Franziska Metge et al.   PeerJ

Circular RNAs: Identification, biogenesis and function

(2016) Karoline K. Ebbesen et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

RBM20 Regulates Circular RNA Production From the Titin Gene

(2016) Mohsin A Khan et al.   CIRCULATION RESEARCH

How RNase R Degrades Structured RNA

(2016) Sk Tofajjen Hossain et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Circular RNAs are miRNA sponges and can be used as a new class of biomarker

(2016) Franceli Rodrigues Kulcheski et al.   JOURNAL OF BIOTECHNOLOGY

Simulation-based comprehensive benchmarking of RNA-seq aligners

(2016) Giacomo Baruzzo et al.   NATURE METHODS

Circular RNA profiling reveals an abundant circHIPK3 that regulates cell growth by sponging multiple miRNAs

(2016) Qiupeng Zheng et al.   Nature Communications

Circular non-coding RNA ANRIL modulates ribosomal RNA maturation and atherosclerosis in humans

(2016) Lesca M. Holdt et al.   Nature Communications

Comprehensive identification of internal structure and alternative splicing events in circular RNAs

(2016) Yuan Gao et al.   Nature Communications

CircRNA-protein complexes: IMP3 protein component defines subfamily of circRNPs

(2016) Tim Schneider et al.   Scientific Reports

Specific identification and quantification of circular RNAs from sequencing data

(2015) Jun Cheng et al.   BIOINFORMATICS

The RNA Binding Protein Quaking Regulates Formation of circRNAs

(2015) Simon J. Conn et al.   CELL

Circular RNAs in the Mammalian Brain Are Highly Abundant, Conserved, and Dynamically Expressed

(2015) Agnieszka Rybak-Wolf et al.   MOLECULAR CELL

Comparison of circular RNA prediction tools

(2015) Thomas B. Hansen et al.   NUCLEIC ACIDS RESEARCH

Analysis of Intron Sequences Reveals Hallmarks of Circular RNA Biogenesis in Animals

(2015) Andranik Ivanov et al.   Cell Reports

Circular RNA biogenesis can proceed through an exon-containing lariat precursor

(2015) Steven P Barrett et al.   eLife

Statistically based splicing detection reveals neural enrichment and tissue-specific induction of circular RNA during human fetal development

(2015) Linda Szabo et al.   GENOME BIOLOGY

CIRI: an efficient and unbiased algorithm for de novo circular RNA identification

(2015) Yuan Gao et al.   GENOME BIOLOGY

Sushi.R: flexible, quantitative and integrative genomic visualizations for publication-quality multi-panel figures

(2014) D. H. Phanstiel et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Complementary Sequence-Mediated Exon Circularization

(2014) Xiao-Ou Zhang et al.   CELL

C to U RNA editing mediated by APOBEC1 requires RNA-binding protein RBM47

(2014) N. Fossat et al.   EMBO REPORTS

circRNA Biogenesis Competes with Pre-mRNA Splicing

(2014) Reut Ashwal-Fluss et al.   MOLECULAR CELL

Detecting and characterizing circular RNAs

(2014) William R Jeck et al.   NATURE BIOTECHNOLOGY

circBase: a database for circular RNAs

(2014) Petar Glažar et al.   RNA

Alternative splicing regulates vesicular trafficking genes in cardiomyocytes during postnatal heart development

(2014) Jimena Giudice et al.   Nature Communications

Natural RNA circles function as efficient microRNA sponges

(2013) Thomas B. Hansen et al.   NATURE

Circular RNAs are a large class of animal RNAs with regulatory potency

(2013) Sebastian Memczak et al.   NATURE

Systematic evaluation of spliced alignment programs for RNA-seq data

(2013) Pär G Engström et al.   NATURE METHODS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Circular RNAs Are the Predominant Transcript Isoform from Hundreds of Human Genes in Diverse Cell Types

(2012) Julia Salzman et al.   PLoS One

Circular RNAs are abundant, conserved, and associated with ALU repeats

(2012) W. R. Jeck et al.   RNA

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS