Modelling the Efficiency of Codon–tRNA Interactions Based on Codon Usage Bias

Transcript features alone enable accurate prediction and understanding of gene expression in S. cerevisiae

(2013) Hadas Zur et al.   BMC BIOINFORMATICS

Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes

(2013) Mads Albertsen et al.   NATURE BIOTECHNOLOGY

Exonic Transcription Factor Binding Directs Codon Choice and Affects Protein Evolution

(2013) A. B. Stergachis et al.   SCIENCE

Codon usage bias: causative factors, quantification methods and genome-wide patterns: with emphasis on insect genomes

(2012) Susanta K. Behura et al.   BIOLOGICAL REVIEWS

A Role for tRNA Modifications in Genome Structure and Codon Usage

(2012) Eva Maria Novoa et al.   CELL

One core, two shells: bacterial and eukaryotic ribosomes

(2012) Sergey Melnikov et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Conservation of the relative tRNA composition in healthy and cancerous tissues

(2012) S. Mahlab et al.   RNA

Balanced Codon Usage Optimizes Eukaryotic Translational Efficiency

(2012) Wenfeng Qian et al.   PLoS Genetics

Ribosome Profiling of Mouse Embryonic Stem Cells Reveals the Complexity and Dynamics of Mammalian Proteomes

(2011) Nicholas T. Ingolia et al.   CELL

An Evolutionarily Conserved Mechanism for Controlling the Efficiency of Protein Translation

(2010) Tamir Tuller et al.   CELL

Relative Codon Adaptation: A Generic Codon Bias Index for Prediction of Gene Expression

(2010) J. M. Fox et al.   DNA RESEARCH

On Relevance of Codon Usage to Expression of Synthetic and Natural Genes in Escherichia coli

(2010) F. Supek et al.   GENETICS

Coadaptation of isoacceptor tRNA genes and codon usage bias for translation efficiency in Aedes aegypti and Anopheles gambiae

(2010) S. K. Behura et al.   INSECT MOLECULAR BIOLOGY

Comparative analysis of nuclear tRNA genes ofNasonia vitripennisand other arthropods, and relationships to codon usage bias

(2010) S. K. Behura et al.   INSECT MOLECULAR BIOLOGY

Agmatidine, a modified cytidine in the anticodon of archaeal tRNAIle, base pairs with adenosine but not with guanosine

(2010) D. Mandal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Predicting Gene Expression Level from Relative Codon Usage Bias: An Application to Escherichia coli Genome

(2009) U. Roymondal et al.   DNA RESEARCH

Coalescent Simulation of Intracodon Recombination

(2009) M. Arenas et al.   GENETICS

Reconstructing ancestral gene content by coevolution

(2009) T. Tuller et al.   GENOME RESEARCH

Arabidopsis tRNA Adenosine Deaminase Arginine Edits the Wobble Nucleotide of Chloroplast tRNAArg(ACG) and Is Essential for Efficient Chloroplast Translation

(2009) E. Delannoy et al.   PLANT CELL

Coding-Sequence Determinants of Gene Expression in Escherichia coli

(2009) G. Kudla et al.   SCIENCE

Protein abundance profiling of the Escherichia coli cytosol

(2008) Yasushi Ishihama et al.   BMC GENOMICS