(Q21090049)

8 August 2022

Mark Welch

1

Mark

Welch

1 reference

8 August 2022

Sridhar Govindarajan

2

Sridhar

Govindarajan

1 reference

8 August 2022

Jon E Ness

3

Jon E

Ness

1 reference

8 August 2022

Alan Villalobos

4

Alan

Villalobos

1 reference

8 August 2022

Austin Gurney

5

Austin

Gurney

1 reference

8 August 2022

Jeremy Minshull

6

Jeremy

Minshull

1 reference

Creative Commons Attribution 4.0 International

8 August 2022

language of work or name

English

0 references

publication date

2009

0 references

published in

PLOS One

0 references

volume

4

0 references

issue

9

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page(s)

e7002

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copyright license

start time

14 September 2009

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

Engineering proteinase K using machine learning and synthetic genes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

SGDB: a database of synthetic genes re-designed for optimizing protein over-expression

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Gene Designer: a synthetic biology tool for constructing artificial DNA segments

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

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

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Environmental genome shotgun sequencing of the Sargasso Sea

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

EMBOSS: the European Molecular Biology Open Software Suite

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Characterization and purification of a phage phi 29-encoded DNA polymerase required for the initiation of replication

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Coding-sequence determinants of gene expression in Escherichia coli

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

You're one in a googol: optimizing genes for protein expression.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Translation initiation and the fate of bacterial mRNAs

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Selective charging of tRNA isoacceptors induced by amino-acid starvation

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Sequential multiple functions of the conserved sequence in sequence-specific termination by T7 RNA polymerase

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Using chemometrics for navigating in the large data sets of genomics, proteomics, and metabonomics (gpm).

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Codon bias and heterologous protein expression

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Probing the substrate specificity of Escherichia coli RNase E using a novel oligonucleotide-based assay

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Codon bias at the 3'-side of the initiation codon is correlated with translation initiation efficiency in Escherichia coli

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Effects of rare codon clusters on high-level expression of heterologous proteins in Escherichia coli

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Nonrandom utilization of codon pairs in Escherichia coli

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Relationship between protein synthesis and concentrations of charged and uncharged tRNATrp in Escherichia coli.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Expression in Escherichia coli of a chemically synthesized gene for the hormone somatostatin

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

A codon window in mRNA downstream of the initiation codon where NGG codons give strongly reduced gene expression in Escherichia coli

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Accumulation of a mRNA decay intermediate by ribosomal pausing at a stop codon

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Effects of a minor isoleucyl tRNA on heterologous protein translation in Escherichia coli

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Reduced synonymous substitution rate at the start of enterobacterial genes

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Gratuitous overexpression of genes in Escherichia coli leads to growth inhibition and ribosome destruction

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

The stability of Escherichia coli lacZ mRNA depends upon the simultaneity of its synthesis and translation

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Optimal encoding rules for synthetic genes: the need for a community effort

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Parameters affecting transcription termination by Escherichia coli RNA. II. Construction and analysis of hybrid terminators

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

Selective charging of tRNA isoacceptors explains patterns of codon usage.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2736378

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

30 May 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0007002

Anatomy of Escherichia coli ribosome binding sites

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0007002

Codon pairs in the genome of Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0007002

Influences on translation initiation and early elongation by the messenger RNA region flanking the initiation codon at the 3' side

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0007002

Amino acid content of recombinant proteins influences the metabolic burden response

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0007002

Structured model to predict intracellular amino acid shortages during recombinant protein overexpression in E. coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0007002

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/10.1371%2FJOURNAL.PONE.0007002

Over expression of a tRNA(Leu) isoacceptor changes charging pattern of leucine tRNAs and reveals new codon reading

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0007002

Cooperative effects by the initiation codon and its flanking regions on translation initiation

21 January 2018

1 reference

12 December 2020

Abortive translation caused by peptidyl-tRNA drop-off at NGG codons in the early coding region of mRNA

1 reference

12 December 2020

Codon optimizer: a freeware tool for codon optimization

1 reference

12 December 2020

A rapid method for the construction of synthetic genes using the polymerase chain reaction

1 reference

12 December 2020

Role of the AGA/AGG codons, the rarest codons in global gene expression in Escherichia coli

1 reference

12 December 2020

10.1371/JOURNAL.PONE.0007002

Identifiers

DOI

1 reference

ADS bibcode

2009PLoSO...4.7002W

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1 reference

1 reference

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