Selection on Synonymous Sites for Increased Accessibility around miRNA Binding Sites in Plants

The code within the code: microRNAs target coding regions

(2011) Joshua J. Forman et al.   CELL CYCLE

Unusually effective microRNA targeting within repeat-rich coding regions of mammalian mRNAs

(2011) M. Schnall-Levin et al.   GENOME RESEARCH

The sound of silence

(2011) Laurence D. Hurst   NATURE

A synonymous variant in IRGM alters a binding site for miR-196 and causes deregulation of IRGM-dependent xenophagy in Crohn's disease

(2011) Patrick Brest et al.   NATURE GENETICS

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

sTarPicker: A Method for Efficient Prediction of Bacterial sRNA Targets Based on a Two-Step Model for Hybridization

(2011) Xiaomin Ying et al.   PLoS One

Viral microRNA target allows insight into the role of translation in governing microRNA target accessibility

(2011) H.-R. Lin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Vive la différence: biogenesis and evolution of microRNAs in plants and animals

(2011) Michael J Axtell et al.   GENOME BIOLOGY

Regulation of mRNA Translation and Stability by microRNAs

(2010) Marc Robert Fabian et al.   Annual Review of Biochemistry

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

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

Overlapping codes within protein-coding sequences

(2010) S. Itzkovitz et al.   GENOME RESEARCH

Detecting Positive and Purifying Selection at Synonymous Sites in Yeast and Worm

(2010) T. Zhou et al.   MOLECULAR BIOLOGY AND EVOLUTION

miRBase: integrating microRNA annotation and deep-sequencing data

(2010) A. Kozomara et al.   NUCLEIC ACIDS RESEARCH

MicroRNA Gene Evolution inArabidopsis lyrataandArabidopsis thaliana

(2010) Noah Fahlgren et al.   PLANT CELL

Translation efficiency is determined by both codon bias and folding energy

(2010) Tamir Tuller et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Conserved microRNA targeting in Drosophila is as widespread in coding regions as in 3'UTRs

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

A Universal Trend of Reduced mRNA Stability near the Translation-Initiation Site in Prokaryotes and Eukaryotes

(2010) Wanjun Gu et al.   PLoS Computational Biology

Seed-based IntaRNA prediction combined with GFP-reporter system identifies mRNA targets of the small RNA Yfr1

(2009) Andreas S. Richter et al.   BIOINFORMATICS

New Tricks for Animal MicroRNAs: Targeting of Amino Acid Coding Regions at Conserved and Nonconserved Sites

(2009) I. Rigoutsos   CANCER RESEARCH

MicroRNAs: Target Recognition and Regulatory Functions

(2009) David P. Bartel   CELL

Relative contribution of sequence and structure features to the mRNA binding of Argonaute/EIF2C-miRNA complexes and the degradation of miRNA targets

(2009) J. Hausser et al.   GENOME RESEARCH

Translationally Optimal Codons Associate with Structurally Sensitive Sites in Proteins

(2009) T. Zhou et al.   MOLECULAR BIOLOGY AND EVOLUTION

Revisiting the principles of microRNA target recognition and mode of action

(2009) Peter Brodersen et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Biological basis for restriction of microRNA targets to the 3′ untranslated region in mammalian mRNAs

(2009) Shuo Gu et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

BioMart Central Portal—unified access to biological data

(2009) Syed Haider et al.   NUCLEIC ACIDS RESEARCH

Ensembl Genomes: Extending Ensembl across the taxonomic space

(2009) P. J. Kersey et al.   NUCLEIC ACIDS RESEARCH

Sequence context outside the target region influences the effectiveness of miR-223 target sites in the RhoB 3′UTR

(2009) Guihua Sun et al.   NUCLEIC ACIDS RESEARCH

Coding-Sequence Determinants of Gene Expression in Escherichia coli

(2009) G. Kudla et al.   SCIENCE

Conflicting selection pressures on synonymous codon use in yeast suggest selection on mRNA secondary structures

(2008) Nina Stoletzki   BMC EVOLUTIONARY BIOLOGY

Mutation-Selection Models of Codon Substitution and Their Use to Estimate Selective Strengths on Codon Usage

(2008) Z. Yang et al.   MOLECULAR BIOLOGY AND EVOLUTION

MicroRNAs to Nanog, Oct4 and Sox2 coding regions modulate embryonic stem cell differentiation

(2008) Yvonne Tay et al.   NATURE

A search for conserved sequences in coding regions reveals that the let-7 microRNA targets Dicer within its coding sequence

(2008) J. J. Forman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolution of plant microRNAs and their targets

(2008) Michael J. Axtell et al.   TRENDS IN PLANT SCIENCE

The Impact of the Nucleosome Code on Protein-Coding Sequence Evolution in Yeast

(2008) Tobias Warnecke et al.   PLoS Genetics