Expression Variations of miRNAs and mRNAs in Rice (Oryza sativa)

Efficient and specific inhibition of plant microRNA function by anti-microRNA oligonucleotides (AMOs) in vitro and in vivo

(2016) Lian He et al.   PLANT CELL REPORTS

Evolutionarily Dynamic, but Robust, Targeting of Resistance Genes by the miR482/2118 Gene Family in the Solanaceae

(2015) Sophie de Vries et al.   Genome Biology and Evolution

Gene Expression Evolves under a House-of-Cards Model of Stabilizing Selection

(2015) Andrea Hodgins-Davis et al.   MOLECULAR BIOLOGY AND EVOLUTION

KEGG as a reference resource for gene and protein annotation

(2015) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Rice osa-miR171c Mediates Phase Change from Vegetative to Reproductive Development and Shoot Apical Meristem Maintenance by Repressing Four OsHAM Transcription Factors

(2015) Tian Fan et al.   PLoS One

Functional Divergence of the miRNA Transcriptome at the Onset of Drosophila Metamorphosis

(2014) Shu-Dan Yeh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genetic analysis of sugar-related traits in rice grain

(2014) Y. Yang et al.   SOUTH AFRICAN JOURNAL OF BOTANY

Classification and Comparison of Small RNAs from Plants

(2013) Michael J. Axtell   Annual Review of Plant Biology

Pathview: an R/Bioconductor package for pathway-based data integration and visualization

(2013) Weijun Luo et al.   BIOINFORMATICS

Overexpression of microRNA OsmiR397 improves rice yield by increasing grain size and promoting panicle branching

(2013) Yu-Chan Zhang et al.   NATURE BIOTECHNOLOGY

Identification of a novel microRNA (miRNA) from rice that targets an alternatively spliced transcript of theNramp6(Natural resistance-associated macrophage protein 6) gene involved in pathogen resistance

(2013) Sonia Campo et al.   NEW PHYTOLOGIST

Organ Evolution in Angiosperms Driven by Correlated Divergences of Gene Sequences and Expression Patterns

(2013) Ruolin Yang et al.   PLANT CELL

Phased, Secondary, Small Interfering RNAs in Posttranscriptional Regulatory Networks

(2013) Q. Fei et al.   PLANT CELL

miREvo: an integrative microRNA evolutionary analysis platform for next-generation sequencing experiments

(2012) Ming Wen et al.   BMC BIOINFORMATICS

Roles for MicroRNAs in Conferring Robustness to Biological Processes

(2012) Margaret S. Ebert et al.   CELL

Impact of microRNA regulation on variation in human gene expression

(2012) J. Lu et al.   GENOME RESEARCH

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Control of Tiller Growth of Rice by OsSPL14 and Strigolactones, Which Work in Two Independent Pathways

(2012) Le Luo et al.   PLANT AND CELL PHYSIOLOGY

Functional Specialization of the Plant miR396 Regulatory Network through Distinct MicroRNA–Target Interactions

(2012) Juan M. Debernardi et al.   PLoS Genetics

ViennaRNA Package 2.0

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

Variation for host range within and among populations of the parasitic plant Striga hermonthica

(2011) K Huang et al.   HEREDITY

Microarray-based analysis of cadmium-responsive microRNAs in rice (Oryza sativa)

(2011) Yanfei Ding et al.   JOURNAL OF EXPERIMENTAL BOTANY

psRNATarget: a plant small RNA target analysis server

(2011) Xinbin Dai et al.   NUCLEIC ACIDS RESEARCH

Evolution and Functional Diversification ofMIRNAGenes

(2011) Josh T. Cuperus et al.   PLANT CELL

Testing hypotheses on the rate of molecular evolution in relation to gene expression using microRNAs

(2011) Y. Shen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Two Evolutionary Histories in the Genome of Rice: the Roles of Domestication Genes

(2011) Ziwen He et al.   PLoS Genetics

Sequence variation and selection of small RNAs in domesticated rice

(2010) Yu Wang et al.   BMC EVOLUTIONARY BIOLOGY

Profiling of cold-stress-responsive miRNAs in rice by microarrays

(2010) De-Kang Lv et al.   GENE

MicroRNAs and gene regulatory networks: managing the impact of noise in biological systems

(2010) H. Herranz et al.   GENES & DEVELOPMENT

Regulation of flowering time and floral patterning by miR172

(2010) Qian-Hao Zhu et al.   JOURNAL OF EXPERIMENTAL BOTANY

Expression Analysis of miRNAs and Highly-expressed Small RNAs in Two Rice Subspecies and their Reciprocal Hybrids

(2010) Fangfang Chen et al.   Journal of Integrative Plant Biology

Cell signalling by microRNA165/6 directs gene dose-dependent root cell fate

(2010) Annelie Carlsbecker et al.   NATURE

Regulation of OsSPL14 by OsmiR156 defines ideal plant architecture in rice

(2010) Yongqing Jiao et al.   NATURE GENETICS

OsSPL14 promotes panicle branching and higher grain productivity in rice

(2010) Kotaro Miura et al.   NATURE GENETICS

Global Epigenetic and Transcriptional Trends among Two Rice Subspecies and Their Reciprocal Hybrids

(2010) G. He et al.   PLANT CELL

MicroRNA Gene Evolution inArabidopsis lyrataandArabidopsis thaliana

(2010) Noah Fahlgren et al.   PLANT CELL

Arabidopsis lyrataSmall RNAs: TransientMIRNAand Small Interfering RNA Loci within theArabidopsisGenus

(2010) Zhaorong Ma et al.   PLANT CELL

Distinct Regulation of Adaxial-Abaxial Polarity in Anther Patterning in Rice

(2010) T. Toriba et al.   PLANT CELL

Transcriptome-wide identification of microRNA targets in rice

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

Joint Genome-Wide Profiling of miRNA and mRNA Expression in Alzheimer's Disease Cortex Reveals Altered miRNA Regulation

(2010) Juan Nunez-Iglesias et al.   PLoS One

CORNA: testing gene lists for regulation by microRNAs

(2009) X. Wu et al.   BIOINFORMATICS

Genome-wide profiling of Populus small RNAs

(2009) Daniel Klevebring et al.   BMC GENOMICS

Members of miR-169 family are induced by high salinity and transiently inhibit the NF-YA transcription factor

(2009) Botao Zhao et al.   BMC MOLECULAR BIOLOGY

MicroRNAs: Target Recognition and Regulatory Functions

(2009) David P. Bartel   CELL

Expression analysis of phytohormone-regulated microRNAs in rice, implying their regulation roles in plant hormone signaling

(2009) Qing Liu et al.   FEBS LETTERS

Evolution under canalization and the dual roles of microRNAs--A hypothesis

(2009) C.-I Wu et al.   GENOME RESEARCH

Genome-Wide and Organ-Specific Landscapes of Epigenetic Modifications and Their Relationships to mRNA and Small RNA Transcriptomes in Maize

(2009) X. Wang et al.   PLANT CELL

Rice MicroRNA Effector Complexes and Targets

(2009) L. Wu et al.   PLANT CELL

Genome-wide survey of rice microRNAs and microRNA–target pairs in the root of a novel auxin-resistant mutant

(2009) Yijun Meng et al.   PLANTA

Optimization of gene expression by natural selection

(2009) T. Bedford 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

SOAP: short oligonucleotide alignment program

(2008) R. Li et al.   BIOINFORMATICS

Big impacts by small RNAs in plant development

(2008) George Chuck et al.   CURRENT OPINION IN PLANT BIOLOGY

A diverse set of microRNAs and microRNA-like small RNAs in developing rice grains

(2008) Q.-H. Zhu et al.   GENOME RESEARCH

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight?

(2008) Witold Filipowicz et al.   NATURE REVIEWS GENETICS

Characterization and expression profiles of miRNAs in rice seeds

(2008) Liang-Jiao Xue et al.   NUCLEIC ACIDS RESEARCH

Criteria for Annotation of Plant MicroRNAs

(2008) B. C. Meyers et al.   PLANT CELL

Developmental Role and Auxin Responsiveness of Class III Homeodomain Leucine Zipper Gene Family Members in Rice

(2008) J.-I. Itoh et al.   PLANT PHYSIOLOGY

Sequence Variation of MicroRNAs and Their Binding Sites in Arabidopsis

(2008) I. M. Ehrenreich et al.   PLANT PHYSIOLOGY

Gene expression variation in African and European populations of Drosophila melanogaster

(2008) Stephan Hutter et al.   GENOME BIOLOGY