(Q39584395)

13 September 2017

Gradients in nucleotide and codon usage along Escherichia coli genes (English)

1 reference

13 September 2017

1 reference

Hooper SD

1

1 reference

PMC publication ID

110745

13 September 2017

Berg OG

series ordinal

2

1 reference

PMC publication ID

110745

13 September 2017

language of work or name

English

0 references

publication date

1 September 2000

1 reference

13 September 2017

Nucleic Acids Research

1 reference

13 September 2017

28

1 reference

13 September 2017

18

1 reference

13 September 2017

3517-3523

1 reference

The accuracy of codon recognition by polypeptide release factors

13 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Asymmetric substitution patterns: a review of possible underlying mutational or selective mechanisms

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

mRNAs have greater negative folding free energies than shuffled or codon choice randomized sequences

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

A direct estimation of the context effect on the efficiency of termination

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Molecular archaeology of the Escherichia coli genome

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Analyses of frameshifting at UUU-pyrimidine sites

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Codon bias in Escherichia coli: the influence of codon context on mutation and selection.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Synonymous codon bias is related to gene length in Escherichia coli: selection for translational accuracy?

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Preference for guanosine at first codon position in highly expressed Escherichia coli genes. A relationship with translational efficiency

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Codon usage and base composition in Rickettsia prowazekii

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Codon usage in bacteria: correlation with gene expressivity

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

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

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Synonymous codon usage in Bacillus subtilis reflects both translational selection and mutational biases

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Preventing the synthesis of unused transcripts by Rho factor

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Reduced synonymous substitution rate at the start of enterobacterial genes

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Constraints on the accuracy of messenger RNA movement

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Effects of decreased cytosine content on rho interaction with the rho-dependent terminator trp t' in Escherichia coli

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Three, four or more: the translational stop signal at length

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

The close proximity of Escherichia coli genes: consequences for stop codon and synonymous codon use.

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

An effect of codon context on the mistranslation of UGU codons in vitro.

15 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Sense codons are found in specific contexts.

15 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Codon contexts in enterobacterial and coliphage genes.

15 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Context specific misreading of phenylalanine codons.

15 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

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

15 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Translation framing code and frame-monitoring mechanism as suggested by the analysis of mRNA and 16 S rRNA nucleotide sequences.

15 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Processivity errors of gene expression in Escherichia coli.

15 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

A consensus motif common to all rho-dependent prokaryotic transcription terminators

15 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Codon usages in different gene classes of the Escherichia coli genome.

15 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Biased distribution of adenine and thymine in gene nucleotide sequences.

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=110745

Costs of accuracy determined by a maximal growth rate constraint

21 August 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/10982871

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Codon usage and intragenic position

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/10982871

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

On the mechanism of leftward frameshifting at several hungry codons

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/10982871

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/28.18.3517

1 reference

13 September 2017

1 reference

13 September 2017

1 reference

PMC publication ID

110745