The role of Alu elements in the cis-regulation of RNA processing

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

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

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

(2015) Andranik Ivanov et al.   Cell Reports

Does RNA editing compensate for Alu invasion of the primate genome?

(2014) Erez Y. Levanon et al.   BIOESSAYS

Complementary Sequence-Mediated Exon Circularization

(2014) Xiao-Ou Zhang et al.   CELL

PKR is activated by cellular dsRNAs during mitosis and acts as a mitotic regulator

(2014) Y. Kim et al.   GENES & DEVELOPMENT

Short intronic repeat sequences facilitate circular RNA production

(2014) Dongming Liang et al.   GENES & DEVELOPMENT

The RNA-Editing Enzyme ADAR1 Controls Innate Immune Responses to RNA

(2014) Niamh M. Mannion et al.   Cell Reports

Alu elements shape the primate transcriptome by cis-regulation of RNA editing

(2014) Chammiran Daniel et al.   GENOME BIOLOGY

The majority of endogenous microRNA targets within Alu elements avoid the microRNA machinery

(2013) Yonit Hoffman et al.   BIOINFORMATICS

Direct Competition between hnRNP C and U2AF65 Protects the Transcriptome from the Exonization of Alu Elements

(2013) Kathi Zarnack et al.   CELL

A-to-I RNA editing occurs at over a hundred million genomic sites, located in a majority of human genes

(2013) L. Bazak et al.   GENOME RESEARCH

Functional microRNAs and target sites are created by lineage-specific transposition

(2013) Ryan M. Spengler et al.   HUMAN MOLECULAR GENETICS

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

Identifying RNA editing sites using RNA sequencing data alone

(2013) Gokul Ramaswami et al.   NATURE METHODS

Diversifying microRNA sequence and function

(2013) Stefan L. Ameres et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

RNA editing of the GLI1 transcription factor modulates the output of Hedgehog signaling

(2013) Takashi Shimokawa et al.   RNA Biology

A Circuitous Route to Noncoding RNA

(2013) J. E. Wilusz et al.   SCIENCE

Transposable Elements Re-Wire and Fine-Tune the Transcriptome

(2013) Michael Cowley et al.   PLoS Genetics

The Majority of Primate-Specific Regulatory Sequences Are Derived from Transposable Elements

(2013) Pierre-Étienne Jacques et al.   PLoS Genetics

Cell-Type Specific Features of Circular RNA Expression

(2013) Julia Salzman et al.   PLoS Genetics

The novel MER transposon-derived miRNAs in human genome

(2012) Kung Ahn et al.   GENE

Inverted Alu dsRNA structures do not affect localization but can alter translation efficiency of human mRNAs independent of RNA editing

(2012) Claire R. Capshew et al.   NUCLEIC ACIDS RESEARCH

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

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

(2011) Thomas B Hansen et al.   EMBO JOURNAL

Widespread establishment and regulatory impact of Alu exons in human genes

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

Repetitive Elements May Comprise Over Two-Thirds of the Human Genome

(2011) A. P. Jason de Koning et al.   PLoS Genetics

Site-selective versus promiscuous A-to-I editing

(2011) Helene Wahlstedt et al.   Wiley Interdisciplinary Reviews-RNA

Origin and evolution of a placental-specific microRNA family in the human genome

(2010) Zhidong Yuan et al.   BMC EVOLUTIONARY BIOLOGY

Consistent levels of A-to-I RNA editing across individuals in coding sequences and non-conserved Alu repeats

(2010) Shoshana Greenberger et al.   BMC GENOMICS

Regulation of innate immunity through RNA structure and the protein kinase PKR

(2010) Subba Rao Nallagatla et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

CpG Islands as a Putative Source for Animal miRNAs: Evolutionary and Functional Implications

(2010) D. Dahary et al.   MOLECULAR BIOLOGY AND EVOLUTION

RNA editing changes the lesion specificity for the DNA repair enzyme NEIL1

(2010) J. Yeo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Adenosine-to-inosine RNA editing shapes transcriptome diversity in primates

(2010) N. Paz-Yaacov et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A novel tissue-specific alternatively spliced form of the A-to-I RNA editing enzyme ADAR2

(2010) Lily Agranat et al.   RNA Biology

Expression of Linear and Novel Circular Forms of an INK4/ARF-Associated Non-Coding RNA Correlates with Atherosclerosis Risk

(2010) Christin E. Burd et al.   PLoS Genetics

Deconstructing the Dogma

(2009) John S. Mattick   Annals of the New York Academy of Sciences

RNA editing: a driving force for adaptive evolution?

(2009) Willemijn M. Gommans et al.   BIOESSAYS

Mobile elements create structural variation: Analysis of a complete human genome

(2009) J. Xing et al.   GENOME RESEARCH

Transposable elements in disease-associated cryptic exons

(2009) Igor Vorechovsky   HUMAN GENETICS

Small silencing RNAs: an expanding universe

(2009) Megha Ghildiyal et al.   NATURE REVIEWS GENETICS

C19MC microRNAs are processed from introns of large Pol-II, non-protein-coding transcripts

(2009) M.-L. Bortolin-Cavaille et al.   NUCLEIC ACIDS RESEARCH

High-throughput sequence-based epigenomic analysis of Alu repeats in human cerebellum

(2009) Hehuang Xie et al.   NUCLEIC ACIDS RESEARCH

Chromatin remodeling at Alu repeats by epigenetic treatment activates silenced microRNA-512-5p with downregulation of Mcl-1 in human gastric cancer cells

(2009) Y Saito et al.   ONCOGENE

Evidence for Co-Evolution between Human MicroRNAs and Alu-Repeats

(2009) Stefan Lehnert et al.   PLoS One

Genome-Wide Identification of Human RNA Editing Sites by Parallel DNA Capturing and Sequencing

(2009) J. B. Li et al.   SCIENCE

Alu element-mediated gene silencing

(2008) Ling-Ling Chen et al.   EMBO JOURNAL

Most mammalian mRNAs are conserved targets of microRNAs

(2008) R. C. Friedman et al.   GENOME RESEARCH

Multifactorial Interplay Controls the Splicing Profile of Alu-Derived Exons

(2008) O. Ram et al.   MOLECULAR AND CELLULAR BIOLOGY

Using Alu Elements as Polyadenylation Sites: A Case of Retroposon Exaptation

(2008) C. Chen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Molecular Evolution of a Primate-Specific microRNA Family

(2008) R. Zhang et al.   MOLECULAR BIOLOGY AND EVOLUTION

C. elegans and H. sapiens mRNAs with edited 3' UTRs are present on polysomes

(2008) H. A. Hundley et al.   RNA