Transcriptome-wide profiles of circular RNA and RNA-binding protein interactions reveal effects on circular RNA biogenesis and cancer pathway expression

Expanded encyclopaedias of DNA elements in the human and mouse genomes

(2020) Jill E. Moore et al.   NATURE

Circular RNA profiling provides insights into their subcellular distribution and molecular characteristics in HepG2 cells

(2019) Ju Zhang et al.   RNA Biology

Computational approaches for circular RNA analysis

(2019) Tobias Jakobi et al.   Wiley Interdisciplinary Reviews-RNA

The Landscape of Circular RNA in Cancer

(2019) Josh N. Vo et al.   CELL

Widespread and Functional RNA Circularization in Localized Prostate Cancer

(2019) Sujun Chen et al.   CELL

Dysregulation of Circular RNAs in Myotonic Dystrophy Type 1

(2019) Voellenkle et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

CircCDYL inhibits the expression of C-MYC to suppress cell growth and migration in bladder cancer

(2019) Jiayin Sun et al.   Artificial Cells Nanomedicine and Biotechnology

A Network of Noncoding Regulatory RNAs Acts in the Mammalian Brain

(2018) Benjamin Kleaveland et al.   CELL

A length-dependent evolutionarily conserved pathway controls nuclear export of circular RNAs

(2018) Chuan Huang et al.   GENES & DEVELOPMENT

Insulin-like growth factor 2 mRNA-binding protein 1 (IGF2BP1) in cancer

(2018) Xinwei Huang et al.   Journal of Hematology & Oncology

Sequence, Structure, and Context Preferences of Human RNA Binding Proteins

(2018) Daniel Dominguez et al.   MOLECULAR CELL

QuantSeq 3′ mRNA sequencing for RNA quantification

(2018) Pamela Moll et al.   NATURE METHODS

Circular RNAs: Promising Biomarkers for Human Diseases

(2018) Zhongrong Zhang et al.   EBioMedicine

The interaction of circRNAs and RNA binding proteins: An important part of circRNA maintenance and function

(2018) Jiankun Zang et al.   JOURNAL OF NEUROSCIENCE RESEARCH

COSMIC: the Catalogue Of Somatic Mutations In Cancer

(2018) John G Tate et al.   NUCLEIC ACIDS RESEARCH

Modulation of IGF2BP1 by long non-coding RNA HCG11 suppresses apoptosis of hepatocellular carcinoma cells via MAPK signaling transduction

(2017) Yantian Xu et al.   INTERNATIONAL JOURNAL OF ONCOLOGY

IGF2BP1: a novel binding protein of p38 MAPK

(2017) Jacob Rini et al.   MOLECULAR AND CELLULAR BIOCHEMISTRY

Sensing Self and Foreign Circular RNAs by Intron Identity

(2017) Y. Grace Chen et al.   MOLECULAR CELL

Coordinated circRNA Biogenesis and Function with NF90/NF110 in Viral Infection

(2017) Xiang Li et al.   MOLECULAR CELL

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

(2017) Tuğçe Aktaş et al.   NATURE

Ensembl 2018

(2017) Daniel R Zerbino et al.   NUCLEIC ACIDS RESEARCH

Genome-wide CRISPR screen identifies HNRNPL as a prostate cancer dependency regulating RNA splicing

(2017) Teng Fei et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Circular RNAs are abundantly expressed and upregulated during human epidermal stem cell differentiation

(2017) Lasse Sommer Kristensen et al.   RNA Biology

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

(2017) Kotb Abdelmohsen et al.   RNA Biology

Loss of a mammalian circular RNA locus causes miRNA deregulation and affects brain function

(2017) Monika Piwecka et al.   SCIENCE

FUS affects circular RNA expression in murine embryonic stem cell-derived motor neurons

(2017) Lorenzo Errichelli et al.   Nature Communications

Identifying and Characterizing circRNA-Protein Interaction

(2017) William W Du et al.   Theranostics

Circular RNA expression is abundant and correlated to aggressiveness in early-stage bladder cancer

(2017) Trine Line Hauge Okholm et al.   npj Genomic Medicine

Comprehensive Transcriptional Analysis of Early-Stage Urothelial Carcinoma

(2016) Jakob Hedegaard et al.   CANCER CELL

Induction of tumor apoptosis through a circular RNA enhancing Foxo3 activity

(2016) William W Du et al.   CELL DEATH AND DIFFERENTIATION

RBM20 Regulates Circular RNA Production From the Titin Gene

(2016) Mohsin A Khan et al.   CIRCULATION RESEARCH

GRWD1 negatively regulates p53 via the RPL11–MDM2 pathway and promotes tumorigenesis

(2016) Kota Kayama et al.   EMBO REPORTS

Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP)

(2016) Eric L Van Nostrand et al.   NATURE METHODS

Foxo3 circular RNA retards cell cycle progression via forming ternary complexes with p21 and CDK2

(2016) William W. Du et al.   NUCLEIC ACIDS RESEARCH

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

(2016) Tim Schneider et al.   Scientific Reports

The Clothes Make the mRNA: Past and Present Trends in mRNP Fashion

(2015) Guramrit Singh et al.   Annual Review of Biochemistry

The RNA Binding Protein Quaking Regulates Formation of circRNAs

(2015) Simon J. Conn et al.   CELL

Circular RNA is enriched and stable in exosomes: a promising biomarker for cancer diagnosis

(2015) Yan Li et al.   CELL RESEARCH

PLA2G2A overexpression is associated with poor therapeutic response and inferior outcome in rectal cancer patients receiving neoadjuvant concurrent chemoradiotherapy

(2015) Hong-Lin He et al.   HISTOPATHOLOGY

Neural circular RNAs are derived from synaptic genes and regulated by development and plasticity

(2015) Xintian You et al.   NATURE NEUROSCIENCE

Cdt1-binding protein GRWD1 is a novel histone-binding protein that facilitates MCM loading through its influence on chromatin architecture

(2015) Nozomi Sugimoto et al.   NUCLEIC ACIDS RESEARCH

Exon Circularization Requires Canonical Splice Signals

(2015) Stefan Starke et al.   Cell Reports

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

(2015) Andranik Ivanov et al.   Cell Reports

Diverse roles of the nucleic acid-binding protein KHSRP in cell differentiation and disease

(2015) Paola Briata et al.   Wiley Interdisciplinary Reviews-RNA

The Molecular Signatures Database Hallmark Gene Set Collection

(2015) Arthur Liberzon et al.   Cell Systems

Identification and Characterization of Circular RNAs As a New Class of Putative Biomarkers in Human Blood

(2015) Sebastian Memczak et al.   PLoS One

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Complementary Sequence-Mediated Exon Circularization

(2014) Xiao-Ou Zhang et al.   CELL

The Landscape of MicroRNA, Piwi-Interacting RNA, and Circular RNA in Human Saliva

(2014) J. H. Bahn et al.   CLINICAL CHEMISTRY

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

Circular RNA and miR-7 in Cancer

(2013) T. B. Hansen et al.   CANCER RESEARCH

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

Rbfox proteins regulate alternative mRNA splicing through evolutionarily conserved RNA bridges

(2013) Michael T Lovci et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

IGF2BP1 promotes cell migration by regulating MK5 and PTEN signaling

(2012) N. Stohr et al.   GENES & DEVELOPMENT

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

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

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

ANALYSIS OF qPCR DATA BY CONVERTING EXPONENTIALLY RELATED Ct VALUES INTO LINEARLY RELATED X0 VALUES

(2010) RUNE THOMSEN et al.   Journal of Bioinformatics and Computational Biology

PLA2 (group IIA phospholipase A2) as a prognostic determinant in stage II colorectal carcinoma

(2009) A. Buhmeida et al.   ANNALS OF ONCOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

GAGE: generally applicable gene set enrichment for pathway analysis

(2009) Weijun Luo et al.   BMC BIOINFORMATICS

The Spliceosome: Design Principles of a Dynamic RNP Machine

(2009) Markus C. Wahl et al.   CELL

RNA-binding proteins and post-transcriptional gene regulation

(2008) Tina Glisovic et al.   FEBS LETTERS