Genome-wide identification and characterization of tissue-specific RNA editing events inD. melanogasterand their potential role in regulating alternative splicing

ADAR mediates differential expression of polycistronic microRNAs

(2014) Geetanjali Chawla et al.   NUCLEIC ACIDS RESEARCH

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

Identifying RNA editing sites using RNA sequencing data alone

(2013) Gokul Ramaswami et al.   NATURE METHODS

Genome-wide analysis of A-to-I RNA editing by single-molecule sequencing in Drosophila

(2013) Georges St Laurent et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Ensembl 2014

(2013) Paul Flicek et al.   NUCLEIC ACIDS RESEARCH

Global regulation of alternative splicing by adenosine deaminase acting on RNA (ADAR)

(2013) O. Solomon et al.   RNA

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

(2013) Daehwan Kim et al.   GENOME BIOLOGY

RNA editing in the human ENCODE RNA-seq data

(2012) E. Park et al.   GENOME RESEARCH

Adenosine deaminases that act on RNA induce reproducible changes in abundance and sequence of embryonic miRNAs

(2012) C. Vesely et al.   GENOME RESEARCH

A-to-I editing of microRNAs in the mammalian brain increases during development

(2012) Y. Ekdahl et al.   GENOME RESEARCH

Detecting differential usage of exons from RNA-seq data

(2012) S. Anders et al.   GENOME RESEARCH

Nascent-Seq Indicates Widespread Cotranscriptional RNA Editing in Drosophila

(2012) Joseph Rodriguez et al.   MOLECULAR CELL

A closer look at RNA editing

(2012) Lior Pachter   NATURE BIOTECHNOLOGY

Comprehensive analysis of RNA-Seq data reveals extensive RNA editing in a human transcriptome

(2012) Zhiyu Peng et al.   NATURE BIOTECHNOLOGY

Accurate identification of human Alu and non-Alu RNA editing sites

(2012) Gokul Ramaswami et al.   NATURE METHODS

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

RNA-interacting proteins act as site-specific repressors of ADAR2-mediated RNA editing and fluctuate upon neuronal stimulation

(2012) Aamira Tariq et al.   NUCLEIC ACIDS RESEARCH

R- chie : a web server and R package for visualizing RNA secondary structures

(2012) Daniel Lai et al.   NUCLEIC ACIDS RESEARCH

A distant cis acting intronic element induces site-selective RNA editing

(2012) Chammiran Daniel et al.   NUCLEIC ACIDS RESEARCH

Canonical A-to-I and C-to-U RNA Editing Is Enriched at 3′UTRs and microRNA Target Sites in Multiple Mouse Tissues

(2012) Tongjun Gu et al.   PLoS One

High levels of RNA-editing site conservation amongst 15 laboratory mouse strains

(2012) Petr Daneck et al.   GENOME BIOLOGY

Genome-wide evaluation and discovery of vertebrate A-to-I RNA editing sites

(2011) S. Maas et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

(2011) H. Li   BIOINFORMATICS

Nascent-seq indicates widespread cotranscriptional pre-mRNA splicing in Drosophila

(2011) Y. L. Khodor et al.   GENES & DEVELOPMENT

Accurate identification of A-to-I RNA editing in human by transcriptome sequencing

(2011) J. H. Bahn et al.   GENOME RESEARCH

Computational Detection and Functional Analysis of Human Tissue-Specific A-to-I RNA Editing

(2011) Tao He et al.   PLoS One

The intricate relationship between RNA structure, editing, and splicing

(2011) Leila E. Rieder et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Predicting sites of ADAR editing in double-stranded RNA

(2011) Julie M. Eggington et al.   Nature Communications

Functions and Regulation of RNA Editing by ADAR Deaminases

(2010) Kazuko Nishikura   Annual Review of Biochemistry

SNVMix: predicting single nucleotide variants from next-generation sequencing of tumors

(2010) Rodrigo Goya et al.   BIOINFORMATICS

Cross-mapping and the identification of editing sites in mature microRNAs in high-throughput sequencing libraries

(2010) M. J.L. de Hoon et al.   GENOME RESEARCH

Engineered Alterations in RNA Editing Modulate Complex Behavior inDrosophila

(2010) James E. C. Jepson et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The developmental transcriptome of Drosophila melanogaster

(2010) Brenton R. Graveley et al.   NATURE

The UCSC Genome Browser database: update 2011

(2010) P. A. Fujita et al.   NUCLEIC ACIDS RESEARCH

Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE

(2010) et al.   SCIENCE

Transat—A Method for Detecting the Conserved Helices of Functional RNA Structures, Including Transient, Pseudo-Knotted and Alternative Structures

(2010) Nicholas J. P. Wiebe et al.   PLoS Computational Biology

Large-scale mRNA sequencing determines global regulation of RNA editing during brain development

(2009) H. Wahlstedt et al.   GENOME RESEARCH

Unlocking the secrets of the genome

(2009) Susan E. Celniker et al.   NATURE

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

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

(2009) J. B. Li et al.   SCIENCE

RNAalifold: improved consensus structure prediction for RNA alignments

(2008) Stephan H Bernhart et al.   BMC BIOINFORMATICS

Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing

(2008) Qun Pan et al.   NATURE GENETICS