(Q33932964)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25051069%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

title

Codon-by-codon modulation of translational speed and accuracy via mRNA folding (English)

1 reference

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10 March 2020

1

1 reference

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10 March 2020

author name string

Xiaoshu Chen

series ordinal

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25051069%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

Jianzhi Zhang

series ordinal

3

1 reference

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10 March 2020

language of work or name

English

0 references

publication date

22 July 2014

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25051069%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25051069%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

volume

12

1 reference

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10 March 2020

issue

7

1 reference

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10 March 2020

page(s)

e1001910

1 reference

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Creative Commons Attribution 4.0 International

10 March 2020

copyright license

start time

22 July 2014

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources

1 reference

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Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo

28 July 2018

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Loss of a conserved tRNA anticodon modification perturbs cellular signaling

28 July 2018

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Efficient translation initiation dictates codon usage at gene start

28 July 2018

1 reference

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Positively charged residues are the major determinants of ribosomal velocity

28 July 2018

1 reference

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Differential requirements for mRNA folding partially explain why highly expressed proteins evolve slowly

28 July 2018

1 reference

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Programmed -1 frameshifting efficiency correlates with RNA pseudoknot conformational plasticity, not resistance to mechanical unfolding

28 July 2018

1 reference

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Genome-wide measurement of RNA folding energies

28 July 2018

1 reference

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Balanced codon usage optimizes eukaryotic translational efficiency

28 July 2018

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Protein misinteraction avoidance causes highly expressed proteins to evolve slowly

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Strong association between mRNA folding strength and protein abundance in S. cerevisiae

28 July 2018

1 reference

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Quality control of mRNA decoding on the bacterial ribosome

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

High-resolution view of the yeast meiotic program revealed by ribosome profiling

28 July 2018

1 reference

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Genetic code translation displays a linear trade-off between efficiency and accuracy of tRNA selection

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Saccharomyces Genome Database: the genomics resource of budding yeast

28 July 2018

1 reference

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28 July 2018

1 reference

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Ribosome profiling of mouse embryonic stem cells reveals the complexity and dynamics of mammalian proteomes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Composite effects of gene determinants on the translation speed and density of ribosomes.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Wobble base-pairing slows in vivo translation elongation in metazoans

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

The ribosome uses two active mechanisms to unwind messenger RNA during translation

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Dynamics of a plant RNA virus intracellular accumulation: stamping machine vs. geometric replication

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Crystal structure of the eukaryotic ribosome

28 July 2018

1 reference

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Expression Level, Evolutionary Rate, and the Cost of Expression

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Genome-wide measurement of RNA secondary structure in yeast

28 July 2018

1 reference

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

The relationship among gene expression, the evolution of gene dosage, and the rate of protein evolution

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

An evolutionarily conserved mechanism for controlling the efficiency of protein translation

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Forces that influence the evolution of codon bias

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Structure and dynamics of a processive Brownian motor: the translating ribosome

28 July 2018

1 reference

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Coding-sequence determinants of gene expression in Escherichia coli

28 July 2018

1 reference

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28 July 2018

Selection on Codon Bias

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Electrostatics in the ribosomal tunnel modulate chain elongation rates

28 July 2018

1 reference

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Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast

28 July 2018

1 reference

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Following translation by single ribosomes one codon at a time.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Clustal W and Clustal X version 2.0

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

PAML 4: phylogenetic analysis by maximum likelihood

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Quantification of protein half-lives in the budding yeast proteome

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Global analysis of protein expression in yeast

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

The ubiquitous nature of RNA chaperone proteins

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

The economics of ribosome biosynthesis in yeast

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

The selection-mutation-drift theory of synonymous codon usage

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Mistranslation-induced protein misfolding as a dominant constraint on coding-sequence evolution.

28 July 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PBIO.1001910

Misfolded proteins impose a dosage-dependent fitness cost and trigger a cytosolic unfolded protein response in yeast

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PBIO.1001910

Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PBIO.1001910

Evolution of codon usage bias in Drosophila

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PBIO.1001910

Fidelity at the molecular level: lessons from protein synthesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PBIO.1001910

Distinct response of yeast ribosomes to a miscoding event during translation

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PBIO.1001910

Prediction of variable translation rate effects on cotranslational protein folding

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PBIO.1001910

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PBIO.1001910

Evolutionary trade-offs, Pareto optimality, and the geometry of phenotype space.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PBIO.1001910

The genomic landscape and evolutionary resolution of antagonistic pleiotropy in yeast

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PBIO.1001910

Automatic genome-wide reconstruction of phylogenetic gene trees.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PBIO.1001910

NCBI GEO: archive for functional genomics data sets--update

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PBIO.1001910

Impact of translational error‐induced and error‐free misfolding on the rate of protein evolution

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Synonymous codon usage in Drosophila melanogaster: natural selection and translational accuracy.

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4106722

Codon usage determines translation rate in Escherichia coli

29 October 2018

1 reference

12 December 2020

Suppression of rpsL phenotypes by tuf mutations reveals a unique relationship between translation elongation and growth rate

1 reference

12 December 2020

A simple method for estimating the parameter of substitution rate variation among sites

1 reference

12 December 2020

Energy constraints on the evolution of gene expression

1 reference

12 December 2020

10.1371/JOURNAL.PBIO.1001910

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25051069%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25051069%20AND%20SRC:MED&resulttype=core&format=json

10 March 2020

PubMed publication ID

25051069

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25051069%20AND%20SRC:MED&resulttype=core&format=json