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Items: 1 to 20 of 121

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.

Codon Bias Patterns of E. coli's Interacting Proteins.

Dilucca M, Cimini G, Semmoloni A, Deiana A, Giansanti A.

PLoS One. 2015 Nov 13;10(11):e0142127. doi: 10.1371/journal.pone.0142127. eCollection 2015.

3.

Effect of codon adaptation on codon-level and gene-level translation efficiency in vivo.

Nakahigashi K, Takai Y, Shiwa Y, Wada M, Honma M, Yoshikawa H, Tomita M, Kanai A, Mori H.

BMC Genomics. 2014 Dec 16;15:1115. doi: 10.1186/1471-2164-15-1115.

4.

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.

5.

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
6.

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.

7.

Codon optimality controls differential mRNA translation during amino acid starvation.

Saikia M, Wang X, Mao Y, Wan J, Pan T, Qian SB.

RNA. 2016 Nov;22(11):1719-1727. Epub 2016 Sep 9.

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.

Codon usage bias in 5' terminal coding sequences reveals distinct enrichment of gene functions.

Liu H, Rahman SU, Mao Y, Xu X, Tao S.

Genomics. 2017 Oct;109(5-6):506-513. doi: 10.1016/j.ygeno.2017.07.008. Epub 2017 Aug 1.

PMID:
28778539
10.

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
11.
12.

Coevolution of codon usage and transfer RNA abundance.

Bulmer M.

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

PMID:
2434856
13.

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.

14.

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
15.

Mutations to Less-Preferred Synonymous Codons in a Highly Expressed Gene of Escherichia coli: Fitness and Epistatic Interactions.

Hauber DJ, Grogan DW, DeBry RW.

PLoS One. 2016 Jan 4;11(1):e0146375. doi: 10.1371/journal.pone.0146375. eCollection 2016.

16.

Modelling the efficiency of codon-tRNA interactions based on codon usage bias.

Sabi R, Tuller T.

DNA Res. 2014 Oct;21(5):511-26. doi: 10.1093/dnares/dsu017. Epub 2014 Jun 6.

17.

Measurement of average decoding rates of the 61 sense codons in vivo.

Gardin J, Yeasmin R, Yurovsky A, Cai Y, Skiena S, Futcher B.

Elife. 2014 Oct 27;3. doi: 10.7554/eLife.03735.

18.

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.

19.

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
20.

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