Plant 22-nt siRNAs mediate translational repression and stress adaptation

Introns are mediators of cell response to starvation

(2019) Julie Parenteau et al.   NATURE

Excised linear introns regulate growth in yeast

(2019) Jeffrey T. Morgan et al.   NATURE

MicroRNAs and Their Regulatory Roles in Plant–Environment Interactions

(2019) Xianwei Song et al.   Annual Review of Plant Biology

Global translational reprogramming is a fundamental layer of immune regulation in plants

(2017) Guoyong Xu et al.   NATURE

DCL2- and RDR6-dependent transitive silencing of SMXL4 and SMXL5 in Arabidopsis dcl4 mutants causes defective phloem transport and carbohydrate over-accumulation

(2017) Yu-Yi Wu et al.   PLANT JOURNAL

Global Analysis of Truncated RNA Ends Reveals New Insights into Ribosome Stalling in Plants

(2016) Cheng‐Yu Hou et al.   PLANT CELL

Biogenesis of phased siRNAs on membrane-bound polysomes in Arabidopsis

(2016) Shengben Li et al.   eLife

The expanding world of small RNAs in plants

(2015) Filipe Borges et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Suppression of endogenous gene silencing by bidirectional cytoplasmic RNA decay in Arabidopsis

(2015) X. Zhang et al.   SCIENCE

The Diversity, Biogenesis, and Activities of Endogenous Silencing Small RNAs inArabidopsis

(2014) Nicolas G. Bologna et al.   Annual Review of Plant Biology

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

MicroRNAs Inhibit the Translation of Target mRNAs on the Endoplasmic Reticulum in Arabidopsis

(2013) Shengben Li et al.   CELL

Arabidopsis ARGONAUTE7 selects miR390 through multiple checkpoints during RISC assembly

(2013) Yayoi Endo et al.   EMBO REPORTS

ShortStack: Comprehensive annotation and quantification of small RNA genes

(2013) M. J. Axtell   RNA

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

(2013) Daehwan Kim et al.   GENOME BIOLOGY

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

(2012) Cole Trapnell et al.   Nature Protocols

MicroRNAs as master regulators of the plant NB-LRR defense gene family via the production of phased, trans-acting siRNAs

(2011) J. Zhai et al.   GENES & DEVELOPMENT

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

An Importin   Protein Negatively Regulates MicroRNA Activity in Arabidopsis

(2011) W. Wang et al.   PLANT CELL

Identification and Characterization of the 480-Kilodalton Template-Specific RNA-Dependent RNA Polymerase Complex of Red Clover Necrotic Mosaic Virus

(2010) A. Mine et al.   JOURNAL OF VIROLOGY

Unique functionality of 22-nt miRNAs in triggering RDR6-dependent siRNA biogenesis from target transcripts in Arabidopsis

(2010) Josh T Cuperus et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

siRNAs compete with miRNAs for methylation by HEN1 in Arabidopsis

(2010) Bin Yu et al.   NUCLEIC ACIDS RESEARCH

Multiple Regulatory Elements in the Arabidopsis NIA1 Promoter Act Synergistically to Form a Nitrate Enhancer

(2010) Rongchen Wang et al.   PLANT PHYSIOLOGY

22-nucleotide RNAs trigger secondary siRNA biogenesis in plants

(2010) H.-M. Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Members of the LBD Family of Transcription Factors Repress Anthocyanin Synthesis and Affect Additional Nitrogen Responses in Arabidopsis

(2009) G. Rubin et al.   PLANT CELL

Cyclophilin 40 is required for microRNA activity in Arabidopsis

(2009) M. R. Smith et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2009) Ben Langmead et al.   GENOME BIOLOGY

Sorting of Small RNAs into Arabidopsis Argonaute Complexes Is Directed by the 5′ Terminal Nucleotide

(2008) Shijun Mi et al.   CELL

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

(2008) Da Wei Huang et al.   NUCLEIC ACIDS RESEARCH

Widespread Translational Inhibition by Plant miRNAs and siRNAs

(2008) P. Brodersen et al.   SCIENCE