The Yin and Yang of Codon Usage. (Q38880246)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27354349%20AND%20SRC:MED&resulttype=core&format=json

16 March 2020

review article

1 reference

title

The Yin and Yang of codon usage (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27354349%20AND%20SRC:MED&resulttype=core&format=json

16 March 2020

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27354349%20AND%20SRC:MED&resulttype=core&format=json

16 March 2020

author name string

Anton A Komar

series ordinal

1

1 reference

PubMed publication ID

27354349

7 September 2017

publication date

27 June 2016

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27354349%20AND%20SRC:MED&resulttype=core&format=json

16 March 2020

published in

Human Molecular Genetics

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27354349%20AND%20SRC:MED&resulttype=core&format=json

16 March 2020

volume

25

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27354349%20AND%20SRC:MED&resulttype=core&format=json

16 March 2020

issue

R2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27354349%20AND%20SRC:MED&resulttype=core&format=json

16 March 2020

page(s)

R77-R85

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27354349%20AND%20SRC:MED&resulttype=core&format=json

General nature of the genetic code for proteins

16 March 2020

cites work

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

RNA CODEWORDS AND PROTEIN SYNTHESIS. THE EFFECT OF TRINUCLEOTIDES UPON THE BINDING OF SRNA TO RIBOSOMES.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

RNA CODEWORDS AND PROTEIN SYNTHESIS. II. NUCLEOTIDE SEQUENCE OF A VALINE RNA CODEWORD

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

RNA CODEWORDS AND PROTEIN SYNTHESIS. THE NUCLEOTIDE SEQUENCES OF MULTIPLE CODEWORDS FOR PHENYLALANINE, SERINE, LEUCINE, AND PROLINE.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

RNA CODEWORDS AND PROTEIN SYNTHESIS, VI. ON THE NUCLEOTIDE SEQUENCES OF DEGENERATE CODEWORD SETS FOR ISOLEUCINE, TYROSINE, ASPARAGINE, AND LYSINE

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

RNA codewords and protein synthesis, VII. On the general nature of the RNA code

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

RNA codewords and protein synthesis, 8. Nucleotide sequences of synonym codons for arginine, valine, cysteine, and alanine

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Studies on polynucleotides, XLIX. Stimulation of the binding of aminoacyl-sRNA's to ribosomes by ribotrinucleotides and a survey of codon assignments for 20 amino acids

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon catalog usage and the genome hypothesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon frequencies in 119 individual genes confirm consistent choices of degenerate bases according to genome type.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon usage in yeast: cluster analysis clearly differentiates highly and lowly expressed genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

The codon Adaptation Index--a measure of directional synonymous codon usage bias, and its potential applications

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon usage patterns in Escherichia coli, Bacillus subtilis, Saccharomyces cerevisiae, Schizosaccharomyces pombe, Drosophila melanogaster and Homo sapiens; a review of the considerable within-species diversity

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon bias and gene expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon usage tabulated from international DNA sequence databases: status for the year 2000

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon-defined ribosomal pausing in Escherichia coli detected by using the pyrE attenuator to probe the coupling between transcription and translation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Rates of aminoacyl-tRNA selection at 29 sense codons in vivo.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Evolution of synonymous codon usage in metazoans

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

21 January 2018

Selection on Codon Bias

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Forces that influence the evolution of codon bias

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon optimality is a major determinant of mRNA stability

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon influence on protein expression in E. coli correlates with mRNA levels

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon Usage and 3' UTR Length Determine Maternal mRNA Stability in Zebrafish

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Biased codon usage in signal peptides: a role in protein export

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Coupling between codon usage, translation and protein export in Escherichia coli.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Synonymous mutations and ribosome stalling can lead to altered folding pathways and distinct minima

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

A pause for thought along the co-translational folding pathway

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Folding at the birth of the nascent chain: coordinating translation with co-translational folding

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Understanding the influence of codon translation rates on cotranslational protein folding

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Co-translational mechanisms of protein maturation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Roles for Synonymous Codon Usage in Protein Biogenesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Synonymous Codons Direct Cotranslational Folding toward Different Protein Conformations

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Understanding the contribution of synonymous mutations to human disease

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Exposing synonymous mutations

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Exonic transcription factor binding directs codon choice and affects protein evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Non-Standard Genetic Codes Define New Concepts for Protein Engineering

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Changes in tRNA levels during the induction of hemoglobin synthesis in Friend leukemia cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Co-variation of tRNA abundance and codon usage in Escherichia coli at different growth rates.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Selective charging of tRNA isoacceptors induced by amino-acid starvation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Tissue-specific differences in human transfer RNA expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

A dual program for translation regulation in cellular proliferation and differentiation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Distinctive tRNA Repertoires in Proliferating versus Differentiating Cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Coevolution of codon usage and transfer RNA abundance

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

tRNA gene number and codon usage in the C. elegans genome are co-adapted for optimal translation of highly expressed genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Models of nearly neutral mutations with particular implications for nonrandom usage of synonymous codons.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Switches in species-specific codon preferences: the influence of mutation biases

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon usage in bacteria: correlation with gene expressivity

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Nonrandom utilization of codon pairs in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon context and protein synthesis: enhancements of the genetic code

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Preferred and avoided codon pairs in three domains of life

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Species-specific codon context rules unveil non-neutrality effects of synonymous mutations

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon pair utilization biases influence translational elongation step times

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Virus attenuation by genome-scale changes in codon pair bias

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon Pair Bias Is a Direct Consequence of Dinucleotide Bias

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Regularities of context-dependent codon bias in eukaryotic genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon pairs in the genome of Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Comparative context analysis of codon pairs on an ORFeome scale

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

tRNA properties help shape codon pair preferences in open reading frames

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

The "+70 pause": hypothesis of a translational control of membrane protein assembly.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Coding-sequence determinants of gene expression in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Causes and effects of N-terminal codon bias in bacterial genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Efficient translation initiation dictates codon usage at gene start

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Ribosome-mediated translational pause and protein domain organization

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Posttranscriptional regulatory mechanisms in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Initiation of mRNA translation in bacteria: structural and dynamic aspects

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

The mechanism of eukaryotic translation initiation and principles of its regulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

A universal trend of reduced mRNA stability near the translation-initiation site in prokaryotes and eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Large-scale analysis of conserved rare codon clusters suggests an involvement in co-translational molecular recognition events

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

The efficiency of folding of some proteins is increased by controlled rates of translation in vivo. A hypothesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Analysis of the distribution of functionally relevant rare codons

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Conserved regional 3' grouping of rare codons in the coding sequence of ocular prosecretory mitogen lacritin

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

A "silent" polymorphism in the MDR1 gene changes substrate specificity

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon Usage Influences the Local Rate of Translation Elongation to Regulate Co-translational Protein Folding

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Transient ribosomal attenuation coordinates protein synthesis and co-translational folding.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Expanding Anfinsen's principle: contributions of synonymous codon selection to rational protein design

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Genetic code-guided protein synthesis and folding in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Protein folding. Translational tuning optimizes nascent protein folding in cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Codon replacement in the PGK1 gene of Saccharomyces cerevisiae: experimental approach to study the role of biased codon usage in gene expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

A small segment of the MAT alpha 1 transcript promotes mRNA decay in Saccharomyces cerevisiae: a stimulatory role for rare codons

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Synonymous codon selection controls in vivo turnover and amount of mRNA in Escherichia coli bla and ompA genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

The frequency of translational misreading errors in E. coli is largely determined by tRNA competition.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Fidelity at the molecular level: lessons from protein synthesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

A comprehensive analysis of translational missense errors in the yeast Saccharomyces cerevisiae.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Protein mistranslation: friend or foe?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Selection for minimization of translational frameshifting errors as a factor in the evolution of codon usage

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

The protooncogene c-jun contains an unusual estrogen-inducible enhancer within the coding sequence

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

A transcriptional regulatory element in the coding sequence of the human Bcl-2 gene.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Transcriptional enhancers in protein-coding exons of vertebrate developmental genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Discovery and characterization of human exonic transcriptional regulatory elements

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Coding exons function as tissue-specific enhancers of nearby genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FHMG%2FDDW207

Synonymous codon substitutions affect ribosome traffic and protein folding during in vitro translation

21 January 2018

1 reference

12 December 2020

Synonymous codon usage in bacteria

1 reference

12 December 2020

The selection-mutation-drift theory of synonymous codon usage

1 reference

12 December 2020

Efficiency of translation termination in humans is highly dependent upon nucleotides in the neighbourhood of a (premature) termination codon

1 reference

12 December 2020

Codon preferences in free-living microorganisms

1 reference

12 December 2020

Codon usage determines translation rate in Escherichia coli

1 reference

12 December 2020

Errors and alternatives in reading the universal genetic code.

1 reference

12 December 2020

Role of the code redundancy in determining cotranslational protein folding

1 reference

12 December 2020

Frequency of using codons in mRNA and coding of the domain structure of proteins

1 reference

12 December 2020

Missense misreading of asparagine codons as a function of codon identity and context

1 reference

12 December 2020

[Role of the rare codon clusters in defining the boundaries of polypeptide chain regions with identical secondary structures in the process of co-translational folding of proteins]

1 reference

12 December 2020

Codon usage and tRNA content in unicellular and multicellular organisms

1 reference

12 December 2020

A comparison of rabbit liver and reticulocyte transfer RNA: Evidence of unique species in reticulocytes

1 reference

12 December 2020

A method for calculating codon frequencies in DNA

1 reference

12 December 2020

Specialization of Rabbit Reticulocyte Transfer RNA Content for Hemoglobin Synthesis

1 reference

12 December 2020

Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes

1 reference

12 December 2020

Correlation between the abundance of yeast transfer RNAs and the occurrence of the respective codons in protein genes. Differences in synonymous codon choice patterns of yeast and Escherichia coli with reference to the abundance of isoaccepting tran

1 reference

12 December 2020

Codon usage in muscle genes and liver genes

1 reference

12 December 2020

Codon selection in yeast

1 reference

12 December 2020

Identifiers

DOI

10.1093/HMG/DDW207

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27354349%20AND%20SRC:MED&resulttype=core&format=json

16 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27354349%20AND%20SRC:MED&resulttype=core&format=json

16 March 2020

PubMed publication ID

27354349

1 reference