A comparison of performance of plant miRNA target prediction tools and the characterization of features for genome-wide target prediction

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

(2013) Shengben Li et al.   CELL

A large-scale evaluation of computational protein function prediction

(2013) Predrag Radivojac et al.   NATURE METHODS

Diversifying microRNA sequence and function

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

Biogenesis, Turnover, and Mode of Action of Plant MicroRNAs

(2013) K. Rogers et al.   PLANT CELL

Identification of soybean seed developmental stage-specific and tissue-specific miRNA targets by degradome sequencing

(2012) Md Shamimuzzaman et al.   BMC GENOMICS

microRNAs targeting DEAD-box helicases are involved in salinity stress response in rice (Oryza sativa L.)

(2012) Anca Macovei et al.   BMC PLANT BIOLOGY

Benchmark comparison of ab initio microRNA identification methods and software

(2012) L.L. Hu et al.   GENETICS AND MOLECULAR RESEARCH

SoMART: a web server for plant miRNA, tasiRNA and target gene analysis

(2012) Feng Li et al.   PLANT JOURNAL

The Arabidopsis MicroRNA396-GRF1/GRF3 Regulatory Module Acts as a Developmental Regulator in the Reprogramming of Root Cells during Cyst Nematode Infection

(2012) T. Hewezi et al.   PLANT PHYSIOLOGY

Identification and Comparative Profiling of miRNAs in an Early Flowering Mutant of Trifoliate Orange and Its Wild Type by Genome-Wide Deep Sequencing

(2012) Lei-Ming Sun et al.   PLoS One

Genome-Wide Identification of miRNAs Responsive to Drought in Peach (Prunus persica) by High-Throughput Deep Sequencing

(2012) Vahap Eldem et al.   PLoS One

ViennaRNA Package 2.0

(2011) Ronny Lorenz et al.   Algorithms for Molecular Biology

Employing machine learning for reliable miRNA target identification in plants

(2011) Ashwani Jha et al.   BMC GENOMICS

Weak seed-pairing stability and high target-site abundance decrease the proficiency of lsy-6 and other microRNAs

(2011) David M Garcia et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Roles of target site location and sequence complementarity in trans-acting siRNA formation in Arabidopsis

(2011) Changqing Zhang et al.   PLANT JOURNAL

Target-align: a tool for plant microRNA target identification: Fig. 1.

(2010) Fuliang Xie et al.   BIOINFORMATICS

TAPIR, a web server for the prediction of plant microRNA targets, including target mimics

(2010) Eric Bonnet et al.   BIOINFORMATICS

Computational analysis of miRNA targets in plants: current status and challenges

(2010) X. Dai et al.   BRIEFINGS IN BIOINFORMATICS

Transcriptome-wide identification of microRNA targets in rice

(2010) Yong-Fang Li et al.   PLANT JOURNAL

microRNA-directed cleavage and translational repression of the copper chaperone for superoxide dismutase mRNA in Arabidopsis

(2010) Linda Beauclair et al.   PLANT JOURNAL

Origin, Biogenesis, and Activity of Plant MicroRNAs

(2009) Olivier Voinnet   CELL

MicroRNAs: Target Recognition and Regulatory Functions

(2009) David P. Bartel   CELL

Origins and Mechanisms of miRNAs and siRNAs

(2009) Richard W. Carthew et al.   CELL

The Role of WRKY Transcription Factors in Plant Immunity

(2009) S. P. Pandey et al.   PLANT PHYSIOLOGY

Global identification of microRNA–target RNA pairs by parallel analysis of RNA ends

(2008) Marcelo A German et al.   NATURE BIOTECHNOLOGY

Gene silencing in plants using artificial microRNAs and other small RNAs

(2008) Stephan Ossowski et al.   PLANT JOURNAL

Sucrose induction of Arabidopsis miR398 represses two Cu/Zn superoxide dismutases

(2008) Diana V. Dugas et al.   PLANT MOLECULAR BIOLOGY

RNA-Directed RNA Polymerase3 from Nicotiana attenuata Is Required for Competitive Growth in Natural Environments

(2008) S. P. Pandey et al.   PLANT PHYSIOLOGY

Identification of soybean microRNAs and their targets

(2008) Baohong Zhang et al.   PLANTA

Herbivory-induced changes in the small-RNA transcriptome and phytohormone signaling in Nicotiana attenuata

(2008) S. P. Pandey et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Widespread Translational Inhibition by Plant miRNAs and siRNAs

(2008) P. Brodersen et al.   SCIENCE