(Q33588067)

English

Mathematical modeling of translation initiation for the estimation of its efficiency to computationally design mRNA sequences with desired expression levels in prokaryotes

scientific article

In more languages

default for all languages

No label defined

No description defined

Statements

scholarly article

1 reference

Europe PubMed Central

PubMed publication ID

28 July 2017

Mathematical modeling of translation initiation for the estimation of its efficiency to computationally design mRNA sequences with desired expression levels in prokaryotes (English)

1 reference

Europe PubMed Central

PubMed publication ID

28 July 2017

0 references

0 references

object named as

Dokyun Na

1

0 references

object named as

Sunjae Lee

2

0 references

object named as

Doheon Lee

3

0 references

publication date

26 May 2010

1 reference

Europe PubMed Central

PubMed publication ID

28 July 2017

BMC Systems Biology

1 reference

Europe PubMed Central

PubMed publication ID

28 July 2017

4

1 reference

Europe PubMed Central

PubMed publication ID

28 July 2017

71

1 reference

Europe PubMed Central

PubMed publication ID

28 July 2017

Automated design of synthetic ribosome binding sites to control protein expression

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Coding-sequence determinants of gene expression in Escherichia coli

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Computational design of orthogonal ribosomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

A snapshot of the 30S ribosomal subunit capturing mRNA via the Shine-Dalgarno interaction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Synthetic gene circuits: design with directed evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Environmentally controlled invasion of cancer cells by engineered bacteria

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Synthetic biology

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

DINAMelt web server for nucleic acid melting prediction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Initiation of protein synthesis in bacteria

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

AU-rich sequences within 5' untranslated leaders enhance translation and stabilize mRNA in Escherichia coli.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

mRNA helicase activity of the ribosome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

The small RNA regulators of Escherichia coli: roles and mechanisms*

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Using an RNA secondary structure partition function to determine confidence in base pairs predicted by free energy minimization

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Artificial genetic selection for an efficient translation initiation site for expression of human RACK1 gene in Escherichia coli

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

AN ESTIMATE OF THE SIZE OF THE RIBOSOMAL SITE FOR MESSENGER RNA BINDING

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Mfold web server for nucleic acid folding and hybridization prediction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Global RNA half-life analysis in Escherichia coli reveals positional patterns of transcript degradation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Directed evolution of a genetic circuit

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Global analysis of mRNA decay and abundance in Escherichia coli at single-gene resolution using two-color fluorescent DNA microarrays

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Meanderings of the mRNA through the ribosome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Strategies for achieving high-level expression of genes in Escherichia coli

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Translational control by a long range RNA-RNA interaction; a basepair substitution analysis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Nature of the ribosomal mRNA track: Analysis of ribosome-binding sites containing different sequences and secondary structures

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Identification and characterization ofE.coliribosomal binding sites by free energy computation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Roles of a ribosome-binding site and mRNA secondary structure in differential expression of Shiga toxin genes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Productive and abortive initiation of transcription in vitro at the lac UV5 promoter

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

The 3'-terminal sequence of Escherichia coli 16S ribosomal RNA: complementarity to nonsense triplets and ribosome binding sites

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Nucleotide Sequence of the Gene Coding for the Bacteriophage MS2 Coat Protein

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Secondary structure as primary determinant of the efficiency of ribosomal binding sites in Escherichia coli

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Use of synthetic ribosome binding site for overproduction of the 5B protein of insertion sequence IS5.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Alternative mRNA structures of the cIII gene of bacteriophage lambda determine the rate of its translation initiation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Improved predictions of secondary structures for RNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Search for the optimal sequence of the ribosome binding site by random oligonucleotide-directed mutagenesis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Secondary structure of the ribosome binding site determines translational efficiency: a quantitative analysis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Translation initiation in Escherichia coli: old and new questions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Translation initiation in Escherichia coli: sequences within the ribosome-binding site

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

A uridine-rich sequence required for translation of prokaryotic mRNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

14 July 2018

Regulation of ribosome synthesis in Escherichia coli: effects of temperature and dilution rate changes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

31 October 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

31 October 2018

Peptide bond formation destabilizes Shine-Dalgarno interaction on the ribosome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

31 October 2018

mRNA secondary structure at start AUG codon is a key limiting factor for human protein expression in Escherichia coli.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

31 October 2018

Optimization of DsRed production in Escherichia coli: effect of ribosome binding site sequestration on translation efficiency.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

31 October 2018

Transcriptional stochasticity in gene expression.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

31 October 2018

Robustness and fragility of Boolean models for genetic regulatory networks.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

31 October 2018

A partnership between biology and engineering.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

31 October 2018

Synthetic biology: starting from scratch.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

31 October 2018

Synthetic biology. Microbes made to order.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

31 October 2018

Translational initiation on structured messengers. Another role for the Shine-Dalgarno interaction.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

31 October 2018

Effects of alterations in the translation control region on bacterial gene expression: use of cat gene constructs transcribed from the lac promoter as a model system

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

31 October 2018

Stochastic protein expression in individual cells at the single molecule level

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2883959

31 October 2018

Secondary structure of mRNA and efficiency of translation initiation

1 reference

https://pubmed.ncbi.nlm.nih.gov/20504310

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

High-Level Expression of Prochymosin in Escherichia coli: Effect of the Secondary Structure of the Ribosome Binding Site

1 reference

https://pubmed.ncbi.nlm.nih.gov/20504310

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Mutations upstream of the ribosome-binding site affect translational efficiency

1 reference

https://pubmed.ncbi.nlm.nih.gov/20504310

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Analysis of base-pairing potentials between 16S rRNA and 5' UTR for translation initiation in various prokaryotes

1 reference

https://pubmed.ncbi.nlm.nih.gov/20504310

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1186/1752-0509-4-71

1 reference

Europe PubMed Central

PubMed publication ID

28 July 2017

DBLP publication ID

journals/bmcsb/NaLL10

1 reference

DBLP Dataset 2021-01-02

28 January 2021

Dimensions Publication ID

0 references

PMC publication ID

1 reference

Europe PubMed Central

PubMed publication ID

28 July 2017

PubMed publication ID

1 reference

Europe PubMed Central

PubMed publication ID

28 July 2017

ResearchGate publication ID

0 references

Sitelinks

Wikipedia(0 entries)

Wikibooks(0 entries)

Wikinews(0 entries)

Wikiquote(0 entries)

Wikisource(0 entries)

Wikiversity(0 entries)

Wikivoyage(0 entries)

Wiktionary(0 entries)

Multilingual sites(0 entries)

Retrieved from "https://www.wikidata.org/w/index.php?title=Q33588067&oldid=2195529049"