Tailor: a computational framework for detecting non-templated tailing of small silencing RNAs

AGO3 Slicer activity regulates mitochondria–nuage localization of Armitage and piRNA amplification

(2014) Haidong Huang et al.   JOURNAL OF CELL BIOLOGY

A census of human RNA-binding proteins

(2014) Stefanie Gerstberger et al.   NATURE REVIEWS GENETICS

ADAR2 induces reproducible changes in sequence and abundance of mature microRNAs in the mouse brain

(2014) Cornelia Vesely et al.   NUCLEIC ACIDS RESEARCH

A-to-I editing in the miRNA seed region regulates target mRNA selection and silencing efficiency

(2014) Hideaki Kume et al.   NUCLEIC ACIDS RESEARCH

Conserved microRNA editing in mammalian evolution, development and disease

(2014) Maria Warnefors et al.   GENOME BIOLOGY

RNA interference in the nucleus: roles for small RNAs in transcription, epigenetics and beyond

(2013) Stephane E. Castel et al.   NATURE REVIEWS GENETICS

PIWI-interacting RNAs: from generation to transgenerational epigenetics

(2013) Maartje J. Luteijn et al.   NATURE REVIEWS GENETICS

Diversifying microRNA sequence and function

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

Probabilistic error correction for RNA sequencing

(2013) Hai-Son Le et al.   NUCLEIC ACIDS RESEARCH

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Mono-Uridylation of Pre-MicroRNA as a Key Step in the Biogenesis of Group II let-7 MicroRNAs

(2012) Inha Heo et al.   CELL

Uridylation of miRNAs by HEN1 SUPPRESSOR1 in Arabidopsis

(2012) Guodong Ren et al.   CURRENT BIOLOGY

The Arabidopsis Nucleotidyl Transferase HESO1 Uridylates Unmethylated Small RNAs to Trigger Their Degradation

(2012) Yuanyuan Zhao et al.   CURRENT BIOLOGY

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

(2012) C. Vesely et al.   GENOME RESEARCH

Long-term, efficient inhibition of microRNA function in mice using rAAV vectors

(2012) Jun Xie et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Argonaute proteins couple chromatin silencing to alternative splicing

(2012) Maya Ameyar-Zazoua et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Prospects and limitations of full-text index structures in genome analysis

(2012) M. Vyverman et al.   NUCLEIC ACIDS RESEARCH

microRNAs associated with the different human Argonaute proteins

(2012) A. Dueck et al.   NUCLEIC ACIDS RESEARCH

Generation of Artificial FASTQ Files to Evaluate the Performance of Next-Generation Sequencing Pipelines

(2012) Matthew Frampton et al.   PLoS One

Detection of microRNAs in color space

(2011) Antonio Marco et al.   BIOINFORMATICS

Evaluation of genomic high-throughput sequencing data generated on Illumina HiSeq and Genome Analyzer systems

(2011) André E Minoche et al.   GENOME BIOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

A survey of sequence alignment algorithms for next-generation sequencing

(2010) H. Li et al.   BRIEFINGS IN BIOINFORMATICS

Target RNA-directed tailing and trimming purifies the sorting of endo-siRNAs between the two Drosophila Argonaute proteins

(2010) S. L. Ameres et al.   RNA

Target RNA-Directed Trimming and Tailing of Small Silencing RNAs

(2010) S. L. Ameres et al.   SCIENCE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

CDE-1 Affects Chromosome Segregation through Uridylation of CSR-1-Bound siRNAs

(2009) Josien C. van Wolfswinkel et al.   CELL

TUT4 in Concert with Lin28 Suppresses MicroRNA Biogenesis through Pre-MicroRNA Uridylation

(2009) Inha Heo et al.   CELL

Efficient frequency-based de novo short-read clustering for error trimming in next-generation sequencing

(2009) W. Qu et al.   GENOME RESEARCH

Small silencing RNAs: an expanding universe

(2009) Megha Ghildiyal et al.   NATURE REVIEWS GENETICS

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

SOAP: short oligonucleotide alignment program

(2008) R. Li et al.   BIOINFORMATICS

Mapping short DNA sequencing reads and calling variants using mapping quality scores

(2008) H. Li et al.   GENOME RESEARCH

Lin28 Mediates the Terminal Uridylation of let-7 Precursor MicroRNA

(2008) Inha Heo et al.   MOLECULAR CELL

Substantial biases in ultra-short read data sets from high-throughput DNA sequencing

(2008) J. C. Dohm et al.   NUCLEIC ACIDS RESEARCH