Mathematical modeling of translation initiation for the estimation of its efficiency to computationally design mRNA sequences with desired expression levels in prokaryotes (Q33588067)

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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

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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

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object named as

Dokyun Na

1

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object named as

Sunjae Lee

2

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object named as

Doheon Lee

3

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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

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14 July 2018

Coding-sequence determinants of gene expression in Escherichia coli

1 reference

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14 July 2018

Computational design of orthogonal ribosomes

1 reference

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

1 reference

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Synthetic gene circuits: design with directed evolution

1 reference

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Environmentally controlled invasion of cancer cells by engineered bacteria

1 reference

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14 July 2018

Synthetic biology

1 reference

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14 July 2018

DINAMelt web server for nucleic acid melting prediction

1 reference

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14 July 2018

Initiation of protein synthesis in bacteria

1 reference

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14 July 2018

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

1 reference

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14 July 2018

mRNA helicase activity of the ribosome

1 reference

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

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

1 reference

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

1 reference

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

1 reference

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14 July 2018

Mfold web server for nucleic acid folding and hybridization prediction

1 reference

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

1 reference

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Directed evolution of a genetic circuit

1 reference

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

1 reference

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14 July 2018

Meanderings of the mRNA through the ribosome

1 reference

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

1 reference

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

1 reference

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

1 reference

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Identification and characterization of E.coli ribosomal binding sites by free energy computation

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

1 reference

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

1 reference

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14 July 2018

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

1 reference

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14 July 2018

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

1 reference

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

1 reference

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

1 reference

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

1 reference

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14 July 2018

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

1 reference

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14 July 2018

Improved predictions of secondary structures for RNA

1 reference

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14 July 2018

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

1 reference

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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

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14 July 2018

A uridine-rich sequence required for translation of prokaryotic mRNA

1 reference

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

1 reference

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1 reference

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Peptide bond formation destabilizes Shine-Dalgarno interaction on the ribosome

1 reference

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

1 reference

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1 reference

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1 reference

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Robustness and fragility of Boolean models for genetic regulatory networks.

1 reference

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31 October 2018

A partnership between biology and engineering.

1 reference

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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

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1 reference

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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

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1 reference

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31 October 2018

Stochastic protein expression in individual cells at the single molecule level

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31 October 2018

Secondary structure of mRNA and efficiency of translation initiation

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

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based on heuristic

inferred from PubMed ID database lookup

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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

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

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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

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1186/1752-0509-4-71

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Europe PubMed Central

PubMed publication ID

28 July 2017

DBLP publication ID

journals/bmcsb/NaLL10

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DBLP Dataset 2021-01-02

28 January 2021

Dimensions Publication ID

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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

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