OPTIMIZER: a web server for optimizing the codon usage of DNA sequences (Q41769919)

9 October 2017

OPTIMIZER: a web server for optimizing the codon usage of DNA sequences (English)

1 reference

9 October 2017

1 reference

Santiago Garcia-Vallvé

object named as

Santiago Garcia-Vallvé

4

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author name string

Pere Puigbò

1

1 reference

9 October 2017

Eduard Guzmán

2

1 reference

9 October 2017

Antoni Romeu

3

1 reference

9 October 2017

16 April 2007

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9 October 2017

Nucleic Acids Research

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9 October 2017

35

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9 October 2017

Web Server issue

1 reference

9 October 2017

W126-31

1 reference

An environmental signature for 323 microbial genomes based on codon adaptation indices

9 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

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

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

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

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

GeneDesign: rapid, automated design of multikilobase synthetic genes

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

JCat: a novel tool to adapt codon usage of a target gene to its potential expression host

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

GeMS: an advanced software package for designing synthetic genes

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

Variation in the strength of selected codon usage bias among bacteria

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

Correlation of codon bias measures with mRNA levels: analysis of transcriptome data from Escherichia coli

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

REBASE--restriction enzymes and DNA methyltransferases

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

DNA vaccines: designing strategies against parasitic infections

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

Codon usage bias from tRNA's point of view: redundancy, specialization, and efficient decoding for translation optimization

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

Codon bias and heterologous protein expression

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

UpGene: Application of a web-based DNA codon optimization algorithm

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

Hierarchy of sequence-dependent features associated with prokaryotic translation

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

HGT-DB: a database of putative horizontally transferred genes in prokaryotic complete genomes

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

Use and misuse of correspondence analysis in codon usage studies

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

DNAWorks: an automated method for designing oligonucleotides for PCR-based gene synthesis

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

Predicted highly expressed genes of diverse prokaryotic genomes

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

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

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

Codon-anticodon assignment and detection of codon usage trends in seven microbial genomes

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes: A proposal for a synonymous codon choice that is optimal for the E. coli translational system

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

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

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

The 'effective number of codons' used in a gene

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

Predicting gene expression level from codon usage bias.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

INCA: synonymous codon usage analysis and clustering by means of self-organizing map.

18 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

Codon adaptation index as a measure of dominating codon bias.

18 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1933141

The Synthetic Gene Designer: a flexible web platform to explore sequence manipulation for heterologous expression

18 August 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17439967

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Codon optimizer: a freeware tool for codon optimization

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17439967

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Selection on codon usage for error minimization at the protein level

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17439967

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKM219

1 reference

9 October 2017

journals/nar/PuigboGRG07

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

9 October 2017

PubMed publication ID

17439967

1 reference