Endogenous microRNA sponges: evidence and controversy

The specificity of long noncoding RNA expression

(2016) Brian S. Gloss et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

IGF1 3′UTR functions as a ceRNA in promoting angiogenesis by sponging miR-29 family in osteosarcoma

(2016) Shuming Gao et al.   JOURNAL OF MOLECULAR HISTOLOGY

The 3′UTR of the pseudogene CYP4Z2P promotes tumor angiogenesis in breast cancer by acting as a ceRNA for CYP4Z1

(2015) Lufeng Zheng et al.   BREAST CANCER RESEARCH AND TREATMENT

The BRAF Pseudogene Functions as a Competitive Endogenous RNA and Induces Lymphoma In Vivo

(2015) Florian A. Karreth et al.   CELL

The RNA Binding Protein Quaking Regulates Formation of circRNAs

(2015) Simon J. Conn et al.   CELL

Hepatitis C Virus RNA Functionally Sequesters miR-122

(2015) Joseph M. Luna et al.   CELL

AEG-1 3′-untranslated region functions as a ceRNA in inducing epithelial–mesenchymal transition of human non-small cell lung cancer by regulating miR-30a activity

(2015) Kunmei Liu et al.   EUROPEAN JOURNAL OF CELL BIOLOGY

CXCR4 3′UTR functions as a ceRNA in promoting metastasis, proliferation and survival of MCF-7 cells by regulating miR-146a activity

(2015) Tianjing Zheng et al.   EUROPEAN JOURNAL OF CELL BIOLOGY

Viral noncoding RNAs: more surprises

(2015) Kazimierz T. Tycowski et al.   GENES & DEVELOPMENT

Extensive microRNA-mediated crosstalk between lncRNAs and mRNAs in mouse embryonic stem cells

(2015) Jennifer Y. Tan et al.   GENOME RESEARCH

PTEN ceRNA networks in human cancer

(2015) Laura Poliseno et al.   METHODS

Get in LINE: Competition for Newly Minted Retrotransposon Proteins at the Ribosome

(2015) Stephen N. Floor et al.   MOLECULAR CELL

Identification of lncRNA-associated competing triplets reveals global patterns and prognostic markers for cancer

(2015) Peng Wang et al.   NUCLEIC ACIDS RESEARCH

Model-guided quantitative analysis of microRNA-mediated regulation on competing endogenous RNAs using a synthetic gene circuit

(2015) Ye Yuan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA-mediated degradation of microRNAs: A widespread viral strategy?

(2015) Jana McCaskill et al.   RNA Biology

Competing endogenous RNA interplay in cancer: mechanism, methodology, and perspectives

(2015) Dong-Liang Cheng et al.   TUMOR BIOLOGY

miRSponge: a manually curated database for experimentally supported miRNA sponges and ceRNAs

(2015) Peng Wang et al.   Database-The Journal of Biological Databases and Curation

Circular RNA ITCH has inhibitory effect on ESCC by suppressing the Wnt/β-catenin pathway

(2015) Fang Li et al.   Oncotarget

Systematic exploration of autonomous modules in noisy microRNA-target networks for testing the generality of the ceRNA hypothesis

(2015) Danny Kit-Sang Yip et al.   BMC GENOMICS

RNA-Based Regulation: Dynamics and Response to Perturbations of Competing RNAs

(2014) Matteo Figliuzzi et al.   BIOPHYSICAL JOURNAL

Computational analysis identifies a sponge interaction network between long non-coding RNAs and messenger RNAs in human breast cancer

(2014) Paola Paci et al.   BMC Systems Biology

Genome-wide identification of miR-200 targets reveals a regulatory network controlling cell invasion

(2014) C. P. Bracken et al.   EMBO JOURNAL

FOXO1 3′UTR functions as a ceRNA in repressing the metastases of breast cancer cells via regulating miRNA activity

(2014) Jue Yang et al.   FEBS LETTERS

Cupid: simultaneous reconstruction of microRNA-target and ceRNA networks

(2014) Hua-Sheng Chiu et al.   GENOME RESEARCH

A View of Pre-mRNA Splicing from RNase R Resistant RNAs

(2014) Hitoshi Suzuki et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Pseudogene PTENP1 Functions as a Competing Endogenous RNA to Suppress Clear-Cell Renal Cell Carcinoma Progression

(2014) G. Yu et al.   MOLECULAR CANCER THERAPEUTICS

Global Analyses of the Effect of Different Cellular Contexts on MicroRNA Targeting

(2014) Jin-Wu Nam et al.   MOLECULAR CELL

Alternative Capture of Noncoding RNAs or Protein-Coding Genes by Herpesviruses to Alter Host T Cell Function

(2014) Yang Eric Guo et al.   MOLECULAR CELL

Assessing the ceRNA Hypothesis with Quantitative Measurements of miRNA and Target Abundance

(2014) Rémy Denzler et al.   MOLECULAR CELL

Competitive Endogenous RNAs Cannot Alter MicroRNA Function In Vivo

(2014) Jennifer A. Broderick et al.   MOLECULAR CELL

Endogenous miRNA and Target Concentrations Determine Susceptibility to Potential ceRNA Competition

(2014) Andrew D. Bosson et al.   MOLECULAR CELL

Space–time wiring specificity supports direction selectivity in the retina

(2014) Jinseop S. Kim et al.   NATURE

The multilayered complexity of ceRNA crosstalk and competition

(2014) Yvonne Tay et al.   NATURE

Detecting and characterizing circular RNAs

(2014) William R Jeck et al.   NATURE BIOTECHNOLOGY

Competition between target sites of regulators shapes post-transcriptional gene regulation

(2014) Marvin Jens et al.   NATURE REVIEWS GENETICS

lncRNAdb v2.0: expanding the reference database for functional long noncoding RNAs

(2014) Xiu Cheng Quek et al.   NUCLEIC ACIDS RESEARCH

DIANA-TarBase v7.0: indexing more than half a million experimentally supported miRNA:mRNA interactions

(2014) Ioannis S. Vlachos et al.   NUCLEIC ACIDS RESEARCH

Assessing the gene regulatory properties of Argonaute-bound small RNAs of diverse genomic origin

(2014) Daniel W. Thomson et al.   NUCLEIC ACIDS RESEARCH

lnCeDB: Database of Human Long Noncoding RNA Acting as Competing Endogenous RNA

(2014) Shaoli Das et al.   PLoS One

Anti-miRs Competitively Inhibit microRNAs in Argonaute Complexes

(2014) Daniel J. Hogan et al.   PLoS One

Circular RNAs: diversity of form and function

(2014) Erika Lasda et al.   RNA

Antisense therapeutics in oncology: current status

(2014) Ammad Ahmad Farooqi et al.   OncoTargets and Therapy

3′UTR shortening identifies high-risk cancers with targeted dysregulation of the ceRNA network

(2014) Li Li et al.   Scientific Reports

Long noncoding RNA associated-competing endogenous RNAs in gastric cancer

(2014) Tian Xia et al.   Scientific Reports

HumanViCe: host ceRNA network in virus infected cells in human

(2014) Suman Ghosal et al.   Frontiers in Genetics

Competing endogenous RNAs (ceRNAs): new entrants to the intricacies of gene regulation

(2014) Reena V. Kartha et al.   Frontiers in Genetics

Linc2GO: a human LincRNA function annotation resource based on ceRNA hypothesis

(2013) Ke Liu et al.   BIOINFORMATICS

MicroRNAs as a Selective Channel of Communication between Competing RNAs: a Steady-State Theory

(2013) Matteo Figliuzzi et al.   BIOPHYSICAL JOURNAL

Pseudogene OCT4-pg4 functions as a natural micro RNA sponge to regulate OCT4 expression by competing for miR-145 in hepatocellular carcinoma

(2013) Lei Wang et al.   CARCINOGENESIS

Selective Degradation of Host MicroRNAs by an Intergenic HCMV Noncoding RNA Accelerates Virus Production

(2013) Sanghyun Lee et al.   Cell Host & Microbe

Endogenous miRNA Sponge lincRNA-RoR Regulates Oct4, Nanog, and Sox2 in Human Embryonic Stem Cell Self-Renewal

(2013) Yue Wang et al.   DEVELOPMENTAL CELL

Emerging Roles of Competing Endogenous RNAs in Cancer: Insights from the Regulation of PTEN

(2013) A. de Giorgio et al.   MOLECULAR AND CELLULAR BIOLOGY

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

A pseudogene long-noncoding-RNA network regulates PTEN transcription and translation in human cells

(2013) Per Johnsson et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein–RNA interaction networks from large-scale CLIP-Seq data

(2013) Jun-Hao Li et al.   NUCLEIC ACIDS RESEARCH

LncRNA loc285194 is a p53-regulated tumor suppressor

(2013) Qian Liu et al.   NUCLEIC ACIDS RESEARCH

A dosage-dependent pleiotropic role of Dicer in prostate cancer growth and metastasis

(2013) B Zhang et al.   ONCOGENE

On Measuring miRNAs after Transient Transfection of Mimics or Antisense Inhibitors

(2013) Daniel W. Thomson et al.   PLoS One

Modelling Competing Endogenous RNA Networks

(2013) Carla Bosia et al.   PLoS One

Integrated transcriptional and competitive endogenous RNA networks are cross-regulated in permissive molecular environments

(2013) U. Ala et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Circuitous Route to Noncoding RNA

(2013) J. E. Wilusz et al.   SCIENCE

miRcode: a map of putative microRNA target sites in the long non-coding transcriptome

(2012) Ashwini Jeggari et al.   BIOINFORMATICS

Argonaute Divides Its RNA Guide into Domains with Distinct Functions and RNA-Binding Properties

(2012) Liang Meng Wee et al.   CELL

Versican 3′-untranslated region (3′-UTR) functions as a ceRNA in inducing the development of hepatocellular carcinoma by regulating miRNA activity

(2012) Ling Fang et al.   FASEB JOURNAL

Identification of microRNA-regulated gene networks by expression analysis of target genes

(2012) Vincenzo Alessandro Gennarino et al.   GENOME RESEARCH

Genome-wide analysis of long noncoding RNA stability

(2012) M. B. Clark et al.   GENOME RESEARCH

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

(2012) T. Derrien et al.   GENOME RESEARCH

The non-coding 3' UTR of CD44 induces metastasis by regulating extracellular matrix functions

(2012) Z. J. Rutnam et al.   JOURNAL OF CELL SCIENCE

Modular regulatory principles of large non-coding RNAs

(2012) Mitchell Guttman et al.   NATURE

High-throughput assessment of microRNA activity and function using microRNA sensor and decoy libraries

(2012) Gavriel Mullokandov et al.   NATURE METHODS

An alternative mode of microRNA target recognition

(2012) Sung Wook Chi et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

DIANA-LncBase: experimentally verified and computationally predicted microRNA targets on long non-coding RNAs

(2012) Maria D. Paraskevopoulou et al.   NUCLEIC ACIDS RESEARCH

A new microRNA target prediction tool identifies a novel interaction of a putative miRNA with CCND2

(2012) Anastasis Oulas et al.   RNA Biology

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

(2012) W. R. Jeck et al.   RNA

Evidence for conserved post-transcriptional roles of unitary pseudogenes and for frequent bifunctionality of mRNAs

(2012) Ana C Marques et al.   GENOME BIOLOGY

Analysis of CLIP and iCLIP methods for nucleotide-resolution studies of protein-RNA interactions

(2012) Yoichiro Sugimoto et al.   GENOME BIOLOGY

The GENCODE pseudogene resource

(2012) Baikang Pei et al.   GENOME BIOLOGY

The evolution of RNAs with multiple functions

(2011) Marcel E. Dinger et al.   BIOCHIMIE

An Extensive MicroRNA-Mediated Network of RNA-RNA Interactions Regulates Established Oncogenic Pathways in Glioblastoma

(2011) Pavel Sumazin et al.   CELL

Coding-Independent Regulation of the Tumor Suppressor PTEN by Competing Endogenous mRNAs

(2011) Yvonne Tay et al.   CELL

A Long Noncoding RNA Controls Muscle Differentiation by Functioning as a Competing Endogenous RNA

(2011) Marcella Cesana et al.   CELL

In Vivo Identification of Tumor- Suppressive PTEN ceRNAs in an Oncogenic BRAF-Induced Mouse Model of Melanoma

(2011) Florian A. Karreth et al.   CELL

A ceRNA Hypothesis: The Rosetta Stone of a Hidden RNA Language?

(2011) Leonardo Salmena et al.   CELL

miRNA-dependent gene silencing involving Ago2-mediated cleavage of a circular antisense RNA

(2011) Thomas B Hansen et al.   EMBO JOURNAL

Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses

(2011) M. N. Cabili et al.   GENES & DEVELOPMENT

Weak seed-pairing stability and high target-site abundance decrease the proficiency of lsy-6 and other microRNAs

(2011) David M Garcia et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Global analysis of the mammalian RNA degradome reveals widespread miRNA-dependent and miRNA-independent endonucleolytic cleavage

(2011) Cameron P. Bracken et al.   NUCLEIC ACIDS RESEARCH

Experimental strategies for microRNA target identification

(2011) D. W. Thomson et al.   NUCLEIC ACIDS RESEARCH

Masking the 5' terminal nucleotides of the hepatitis C virus genome by an unconventional microRNA-target RNA complex

(2011) E. S. Machlin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transcriptome-wide Identification of RNA-Binding Protein and MicroRNA Target Sites by PAR-CLIP

(2010) Markus Hafner et al.   CELL

Emerging Roles for Natural MicroRNA Sponges

(2010) Margaret S. Ebert et al.   CURRENT BIOLOGY

Expanding the MicroRNA Targeting Code: Functional Sites with Centered Pairing

(2010) Chanseok Shin et al.   MOLECULAR CELL

Target mRNA abundance dilutes microRNA and siRNA activity

(2010) Aaron Arvey et al.   Molecular Systems Biology

A coding-independent function of gene and pseudogene mRNAs regulates tumour biology

(2010) Laura Poliseno et al.   NATURE

Expression of CD44 3′-untranslated region regulates endogenous microRNA functions in tumorigenesis and angiogenesis

(2010) Zina Jeyapalan et al.   NUCLEIC ACIDS RESEARCH

CREB up-regulates long non-coding RNA, HULC expression through interaction with microRNA-372 in liver cancer

(2010) Jiayi Wang et al.   NUCLEIC ACIDS RESEARCH

Expression of Versican 3′-Untranslated Region Modulates Endogenous MicroRNA Functions

(2010) Daniel Y. Lee et al.   PLoS One

MicroRNA sponges: Progress and possibilities

(2010) M. S. Ebert et al.   RNA

Down-Regulation of a Host MicroRNA by a Herpesvirus saimiri Noncoding RNA

(2010) D. Cazalla et al.   SCIENCE

Comprehensive modeling of microRNA targets predicts functional non-conserved and non-canonical sites

(2010) Doron Betel et al.   GENOME BIOLOGY

Lost in translation: an assessment and perspective for computational microRNA target identification

(2009) Panagiotis Alexiou et al.   BIOINFORMATICS

MicroRNAs: Target Recognition and Regulatory Functions

(2009) David P. Bartel   CELL

Predicting microRNA targets and functions: traps for the unwary

(2009) William Ritchie et al.   NATURE METHODS

Vectors expressing efficient RNA decoys achieve the long-term suppression of specific microRNA activity in mammalian cells

(2009) Takeshi Haraguchi et al.   NUCLEIC ACIDS RESEARCH

Concordant Regulation of Translation and mRNA Abundance for Hundreds of Targets of a Human microRNA

(2009) David G. Hendrickson et al.   PLOS BIOLOGY

New challenges for text mining: mapping between text and manually curated pathways

(2008) Kanae Oda et al.   BMC BIOINFORMATICS

Position-Dependent Function for a Tandem MicroRNA miR-122-Binding Site Located in the Hepatitis C Virus RNA Genome

(2008) Catherine L. Jopling et al.   Cell Host & Microbe

The impact of microRNAs on protein output

(2008) Daehyun Baek et al.   NATURE

LNA-mediated microRNA silencing in non-human primates

(2008) Joacim Elmén et al.   NATURE

Experimental validation of the importance of seed complement frequency to siRNA specificity

(2008) E. M. Anderson et al.   RNA

Experimental validation of miRNA targets

(2007) Donald E. Kuhn et al.   METHODS

Inhibition of microRNA with antisense oligonucleotides

(2007) Christine C. Esau   METHODS