The Landscape of A-to-I RNA Editome Is Shaped by Both Positive and Purifying Selection

The Pfam protein families database: towards a more sustainable future

(2015) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

The majority of transcripts in the squid nervous system are extensively recoded by A-to-I RNA editing

(2015) Shahar Alon et al.   eLife

A biochemical landscape of A-to-I RNA editing in the human brain transcriptome

(2014) M. Sakurai et al.   GENOME RESEARCH

In Search of Beneficial Coding RNA Editing

(2014) Guixia Xu et al.   MOLECULAR BIOLOGY AND EVOLUTION

Vicinal: a method for the determination of ncRNA ends using chimeric reads from RNA-seq experiments

(2014) Zhipeng Lu et al.   NUCLEIC ACIDS RESEARCH

Human coding RNA editing is generally nonadaptive

(2014) G. Xu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

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

RNA Editome in Rhesus Macaque Shaped by Purifying Selection

(2014) Jia-Yu Chen et al.   PLoS Genetics

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

Characterization and comparison of human nuclear and cytosolic editomes

(2013) L. Chen   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA editing ineagpotassium channels

(2012) Mary Y. Ryan et al.   Channels

Adar is essential for optimal presynaptic function

(2012) Carolina Maldonado et al.   MOLECULAR AND CELLULAR NEUROSCIENCE

Nascent-Seq Indicates Widespread Cotranscriptional RNA Editing in Drosophila

(2012) Joseph Rodriguez et al.   MOLECULAR CELL

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

RNA Editing Underlies Temperature Adaptation in K+ Channels from Polar Octopuses

(2012) S. Garrett et al.   SCIENCE

Global Patterns of Tissue-Specific Alternative Polyadenylation in Drosophila

(2012) Peter Smibert et al.   Cell Reports

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

(2012) Petr Daneck et al.   GENOME BIOLOGY

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

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

FlyBase 101 - the basics of navigating FlyBase

(2011) P. McQuilton et al.   NUCLEIC ACIDS RESEARCH

The Ecoresponsive Genome of Daphnia pulex

(2011) J. K. Colbourne et al.   SCIENCE

GLOOME: gain loss mapping engine

(2010) O. Cohen et al.   BIOINFORMATICS

Prediction and characterization of noncoding RNAs in C. elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data

(2010) Z. J. Lu et al.   GENOME RESEARCH

The developmental transcriptome of Drosophila melanogaster

(2010) Brenton R. Graveley et al.   NATURE

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

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Database resources of the National Center for Biotechnology Information

(2010) E. W. Sayers et al.   NUCLEIC ACIDS RESEARCH

ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data

(2010) K. Wang et al.   NUCLEIC ACIDS RESEARCH

Gene ontology analysis for RNA-seq: accounting for selection bias

(2010) Matthew D Young et al.   GENOME BIOLOGY

RNA editing: a driving force for adaptive evolution?

(2009) Willemijn M. Gommans et al.   BIOESSAYS

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

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

(2009) H. Wahlstedt et al.   GENOME RESEARCH

Origins and evolution of ADAR-mediated RNA editing

(2009) Yongfeng Jin et al.   IUBMB LIFE

Inference and Characterization of Horizontally Transferred Gene Families Using Stochastic Mapping

(2009) O. Cohen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Unlocking the secrets of the genome

(2009) Susan E. Celniker et al.   NATURE

Presynaptic α2δ-3 is required for synaptic morphogenesis independent of its Ca2+-channel functions

(2009) Peri T Kurshan et al.   NATURE NEUROSCIENCE

Recognition and coupling of A-to-I edited sites are determined by the tertiary structure of the RNA

(2009) Mats Ensterö et al.   NUCLEIC ACIDS RESEARCH

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

(2009) J. B. Li et al.   SCIENCE

straightjacketis required for the synaptic stabilization ofcacophony, a voltage-gated calcium channel α1subunit

(2008) Cindy V. Ly et al.   JOURNAL OF CELL BIOLOGY

Mutations in a Drosophila  2  Voltage-Gated Calcium Channel Subunit Reveal a Crucial Synaptic Function

(2008) D. K. Dickman et al.   JOURNAL OF NEUROSCIENCE

Frequency and fate of microRNA editing in human brain

(2008) Y. Kawahara et al.   NUCLEIC ACIDS RESEARCH

FLYSNPdb: a high-density SNP database of Drosophila melanogaster

(2008) Doris Chen et al.   NUCLEIC ACIDS RESEARCH

RNA editing in regulating gene expression in the brain

(2007) James E.C. Jepson et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms