Codon usage between genomes is constrained by genome-wide mutational processes (Q33976278)

30 July 2017

Codon usage between genomes is constrained by genome-wide mutational processes (English)

1 reference

30 July 2017

1

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Lucy Shapiro

series ordinal

4

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Harley McAdams

series ordinal

5

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Alison K Hottes

series ordinal

3

object named as

Alison K Hottes

1 reference

30 July 2017

William Lee

2

1 reference

PubMed ID

14990797

30 July 2017

language of work or name

English

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publication date

27 February 2004

1 reference

Proceedings of the National Academy of Sciences of the United States of America

30 July 2017

1 reference

30 July 2017

101

1 reference

30 July 2017

10

1 reference

30 July 2017

3480-3485

1 reference

Noise in eukaryotic gene expression

30 July 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Genome-tools: a flexible package for genome sequence analysis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Synonymous codon usage is subject to selection in thermophilic bacteria

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

On the evolution of cells

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Analysis of codon usage diversity of bacterial genes with a self-organizing map (SOM): characterization of horizontally transferred genes with emphasis on the E. coli O157 genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Hyperthermophilic enzymes: sources, uses, and molecular mechanisms for thermostability

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Archaeal adaptation to higher temperatures revealed by genomic sequence of Thermoplasma volcanium

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Lateral gene transfer and the nature of bacterial innovation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Thermophilic bacteria strictly obey Szybalski's transcription direction rule and politely purine-load RNAs with both adenine and guanine

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Isochores and the evolutionary genomics of vertebrates

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

You are what you eat: a gene transfer ratchet could account for bacterial genes in eukaryotic nuclear genomes.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Codon usage bias and tRNA abundance in Drosophila

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Instability and decay of the primary structure of DNA

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Codon usage: mutational bias, translational selection, or both?

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Hydrophobicity, expressivity and aromaticity are the major trends of amino-acid usage in 999 Escherichia coli chromosome-encoded genes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Selection intensity for codon bias

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Codon catalog usage is a genome strategy modulated for gene expressivity

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Codon catalog usage and the genome hypothesis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Codon usage in bacteria: correlation with gene expressivity

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Codon usage and tRNA content in unicellular and multicellular organisms

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

The guanine and cytosine content of genomic DNA and bacterial evolution

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Directional mutation pressure and neutral molecular evolution

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

The rate of synonymous substitution in enterobacterial genes is inversely related to codon usage bias

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

"Silent" sites in Drosophila genes are not neutral: evidence of selection among synonymous codons

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Coevolution of codon usage and transfer RNA abundance

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Codon usage and secondary structure of the rabbit alpha-globin mRNA: a hypothesis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

The selection-mutation-drift theory of synonymous codon usage

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Recent evidence for evolution of the genetic code

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Equal G and C contents in histone genes indicate selection pressures on mRNA secondary structure

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Secondary structure of MS2 phage RNA and bias in code word usage

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

Relationship between G + C in silent sites of codons and amino acid composition of human proteins

5 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0307827100

Comparative DNA analysis across diverse genomes.

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0307827100

Aerobiosis increases the genomic guanine plus cytosine content (GC%) in prokaryotes

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0307827100

Internal correspondence analysis of codon and amino-acid usage in thermophilic bacteria

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=373487

The compositional distribution of coding sequences and DNA molecules in humans and murids

29 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/14990797

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Correlations between the compositional properties of human genes, codon usage, and amino acid composition of proteins

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/14990797

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The correlation of protein hydropathy with the base composition of coding sequences

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/14990797

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1073/PNAS.0307827100

1 reference

30 July 2017

0 references

1 reference

30 July 2017

1 reference

PubMed ID

14990797