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Items: 1 to 20 of 124

1.

On ribosome load, codon bias and protein abundance.

Klumpp S, Dong J, Hwa T.

PLoS One. 2012;7(11):e48542. doi: 10.1371/journal.pone.0048542. Epub 2012 Nov 7.

2.

Environmental perturbations lift the degeneracy of the genetic code to regulate protein levels in bacteria.

Subramaniam AR, Pan T, Cluzel P.

Proc Natl Acad Sci U S A. 2013 Feb 5;110(6):2419-24. doi: 10.1073/pnas.1211077110. Epub 2012 Dec 31.

3.

Ribosome traffic in E. coli and regulation of gene expression.

Lesnik T, Solomovici J, Deana A, Ehrlich R, Reiss C.

J Theor Biol. 2000 Jan 21;202(2):175-85.

PMID:
10640436
4.

Coevolution of codon usage and transfer RNA abundance.

Bulmer M.

Nature. 1987 Feb 19-25;325(6106):728-30.

PMID:
2434856
5.

Analysis of the codon bias in E. coli sequences.

Blake RD, Hinds PW.

J Biomol Struct Dyn. 1984 Dec;2(3):593-606.

PMID:
6401123
6.
7.

Silent substitutions predictably alter translation elongation rates and protein folding efficiencies.

Spencer PS, Siller E, Anderson JF, Barral JM.

J Mol Biol. 2012 Sep 21;422(3):328-35. doi: 10.1016/j.jmb.2012.06.010. Epub 2012 Jun 12.

8.

Selective charging of tRNA isoacceptors explains patterns of codon usage.

Elf J, Nilsson D, Tenson T, Ehrenberg M.

Science. 2003 Jun 13;300(5626):1718-22.

9.

The imprint of codons on protein structure.

Deane CM, Saunders R.

Biotechnol J. 2011 Jun;6(6):641-9. doi: 10.1002/biot.201000329. Epub 2011 May 13. Review.

PMID:
21567957
10.
11.

Effect of correlated tRNA abundances on translation errors and evolution of codon usage bias.

Shah P, Gilchrist MA.

PLoS Genet. 2010 Sep 16;6(9):e1001128. doi: 10.1371/journal.pgen.1001128.

12.

The role of codon selection in regulation of translation efficiency deduced from synthetic libraries.

Navon S, Pilpel Y.

Genome Biol. 2011;12(2):R12. doi: 10.1186/gb-2011-12-2-r12. Epub 2011 Feb 1.

13.

The anti-Shine-Dalgarno sequence drives translational pausing and codon choice in bacteria.

Li GW, Oh E, Weissman JS.

Nature. 2012 Mar 28;484(7395):538-41. doi: 10.1038/nature10965.

15.
16.

Optimality of codon usage in Escherichia coli due to load minimization.

Najafabadi HS, Goodarzi H, Torabi N.

J Theor Biol. 2005 Nov 21;237(2):203-9. Epub 2005 Jun 1.

PMID:
15932760
17.

Forces that influence the evolution of codon bias.

Sharp PM, Emery LR, Zeng K.

Philos Trans R Soc Lond B Biol Sci. 2010 Apr 27;365(1544):1203-12. doi: 10.1098/rstb.2009.0305. Review.

18.

Design parameters to control synthetic gene expression in Escherichia coli.

Welch M, Govindarajan S, Ness JE, Villalobos A, Gurney A, Minshull J, Gustafsson C.

PLoS One. 2009 Sep 14;4(9):e7002. doi: 10.1371/journal.pone.0007002.

19.

Codon usage bias in prokaryotic pyrimidine-ending codons is associated with the degeneracy of the encoded amino acids.

Wald N, Alroy M, Botzman M, Margalit H.

Nucleic Acids Res. 2012 Aug;40(15):7074-83. doi: 10.1093/nar/gks348. Epub 2012 May 11.

20.

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

Rocha EP.

Genome Res. 2004 Nov;14(11):2279-86. Epub 2004 Oct 12. Erratum in: Genome Res. 2004 Dec;14(12):2510.

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