%MinMax: A versatile tool for calculating and comparing synonymous codon usage and its impact on protein folding

Widespread position-specific conservation of synonymous rare codons within coding sequences

(2017) Julie L. Chaney et al.   PLoS Computational Biology

The DEAD-Box Protein Dhh1p Couples mRNA Decay and Translation by Monitoring Codon Optimality

(2016) Aditya Radhakrishnan et al.   CELL

Quality over quantity: optimizing co-translational protein folding with non-‘optimal’ synonymous codons

(2016) Giselle N Jacobson et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Synonymous Codons Direct Cotranslational Folding toward Different Protein Conformations

(2016) Florian Buhr et al.   MOLECULAR CELL

Roles for Synonymous Codon Usage in Protein Biogenesis

(2015) Julie L. Chaney et al.   Annual Review of Biophysics

Translational tuning optimizes nascent protein folding in cells

(2015) S. J. Kim et al.   SCIENCE

The Structure and Regulation of Human Muscle α-Actinin

(2014) Euripedes de Almeida Ribeiro et al.   CELL

Expanding Anfinsen’s Principle: Contributions of Synonymous Codon Selection to Rational Protein Design

(2014) Ian M. Sander et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Local slowdown of translation by nonoptimal codons promotes nascent-chain recognition by SRP in vivo

(2014) Sebastian Pechmann et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Measurement of average decoding rates of the 61 sense codons in vivo

(2014) Justin Gardin et al.   eLife

mRNA-programmed translation pauses in the targeting of E. coli membrane proteins

(2014) Nir Fluman et al.   eLife

Quantifying Elongation Rhythm during Full-Length Protein Synthesis

(2013) Gabriel Rosenblum et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Non-optimal codon usage affects expression, structure and function of clock protein FRQ

(2013) Mian Zhou et al.   NATURE

Silent Substitutions Predictably Alter Translation Elongation Rates and Protein Folding Efficiencies

(2012) Paige S. Spencer et al.   JOURNAL OF MOLECULAR BIOLOGY

The anti-Shine–Dalgarno sequence drives translational pausing and codon choice in bacteria

(2012) Gene-Wei Li et al.   NATURE

Increased incidence of rare codon clusters at 5' and 3' gene termini:implications for function

(2010) Thomas F Clarke et al.   BMC GENOMICS

Control of translation efficiency in yeast by codon-anticodon interactions

(2010) D. P. Letzring et al.   RNA

Design Parameters to Control Synthetic Gene Expression in Escherichia coli

(2009) Mark Welch et al.   PLoS One

Coding-Sequence Determinants of Gene Expression in Escherichia coli

(2009) G. Kudla et al.   SCIENCE

Preferred and avoided codon pairs in three domains of life

(2008) Age Tats et al.   BMC GENOMICS

A New Purple Fluorescent Color Marker for Genetic Studies in Saccharomyces cerevisiae and Candida albicans

(2008) S. Keppler-Ross et al.   GENETICS

Heterologous Protein Expression Is Enhanced by Harmonizing the Codon Usage Frequencies of the Target Gene with those of the Expression Host

(2008) Evelina Angov et al.   PLoS One

Rare Codons Cluster

(2008) Thomas F. Clarke et al.   PLoS One

Codon optimization can improve expression of human genes in Escherichia coli: A multi-gene study

(2008) Nicola A. Burgess-Brown et al.   PROTEIN EXPRESSION AND PURIFICATION