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Correlation between nucleotide composition and folding energy of coding sequences with special attention to wobble bases.

Biro JC.

Theor Biol Med Model. 2008 Jul 29;5:14.PMID: 18664268 [PubMed - indexed for MEDLINE]Related articlesFree article

Indications that "codon boundaries" are physico-chemically defined and that protein-folding information is contained in the redundant exon bases.

Biro JC.

Theor Biol Med Model. 2006 Aug 7;3:28.PMID: 16893453 [PubMed - indexed for MEDLINE]Related articlesFree article

Nucleic acid chaperons: a theory of an RNA-assisted protein folding.

Biro JC.

Theor Biol Med Model. 2005 Sep 1;2:35.PMID: 16137324 [PubMed - indexed for MEDLINE]Related articlesFree article

A novel intra-molecular protein-protein interaction code based on partial complementary coding of co-locating amino acids.

Biro JC.

Med Hypotheses. 2006;66(1):137-42. Epub 2005 Sep 15.PMID: 16168570 [PubMed - indexed for MEDLINE]Related articles

Folding type specific secondary structure propensities of synonymous codons.

Gu W, Zhou T, Ma J, Sun X, Lu Z.

IEEE Trans Nanobioscience. 2003 Sep;2(3):150-7.PMID: 15376949 [PubMed - indexed for MEDLINE]Related articles

Natural selection and algorithmic design of mRNA.

Cohen B, Skiena S.

J Comput Biol. 2003;10(3-4):419-32.PMID: 12935336 [PubMed - indexed for MEDLINE]Related articles

Protein folding information in nucleic acids which is not present in the genetic code.

Biro JC.

Ann N Y Acad Sci. 2006 Dec;1091:399-411.PMID: 17341631 [PubMed - indexed for MEDLINE]Related articles

Conflicting selection pressures on synonymous codon use in yeast suggest selection on mRNA secondary structures.

Stoletzki N.

BMC Evol Biol. 2008 Jul 31;8:224.PMID: 18671878 [PubMed - indexed for MEDLINE]Related articlesFree article

Statistical evidence for conserved, local secondary structure in the coding regions of eukaryotic mRNAs and pre-mRNAs.

Meyer IM, Miklós I.

Nucleic Acids Res. 2005 Nov 7;33(19):6338-48. Print 2005.PMID: 16275783 [PubMed - indexed for MEDLINE]Related articlesFree article

Correlation between amino acid residues converted by RNA editing and functional residues in protein three-dimensional structures in plant organelles.

Yura K, Go M.

BMC Plant Biol. 2008 Jul 16;8:79.PMID: 18631376 [PubMed - indexed for MEDLINE]Related articlesFree article

mRNAs have greater negative folding free energies than shuffled or codon choice randomized sequences.

Seffens W, Digby D.

Nucleic Acids Res. 1999 Apr 1;27(7):1578-84.PMID: 10075987 [PubMed - indexed for MEDLINE]Related articlesFree article

A periodic pattern of mRNA secondary structure created by the genetic code.

Shabalina SA, Ogurtsov AY, Spiridonov NA.

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Nucleic acid sequences coding for internal antisense peptides: are there implications for protein folding and evolution?

Zull JE, Taylor RC, Michaels GS, Rushforth NB.

Nucleic Acids Res. 1994 Aug 25;22(16):3373-80.PMID: 8078773 [PubMed - indexed for MEDLINE]Related articlesFree article

Specific correlations between relative synonymous codon usage and protein secondary structure.

Oresic M, Shalloway D.

J Mol Biol. 1998 Aug 7;281(1):31-48.PMID: 9680473 [PubMed - indexed for MEDLINE]Related articles

The relation between mRNA folding and protein structure.

Jia M, Luo L.

Biochem Biophys Res Commun. 2006 Apr 28;343(1):177-82. Epub 2006 Mar 3.PMID: 16530729 [PubMed - indexed for MEDLINE]Related articles

Calculation of folding energies of single-stranded nucleic acid sequences: conceptual issues.

Forsdyke DR.

J Theor Biol. 2007 Oct 21;248(4):745-53. Epub 2007 Jul 18. Review.PMID: 17698086 [PubMed - indexed for MEDLINE]Related articles

Thermodynamic matchers: strengthening the significance of RNA folding energies.

Höchsmann T, Höchsmann M, Giegerich R.

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Heterologous protein expression is enhanced by harmonizing the codon usage frequencies of the target gene with those of the expression host.

Angov E, Hillier CJ, Kincaid RL, Lyon JA.

PLoS One. 2008 May 14;3(5):e2189.PMID: 18478103 [PubMed - indexed for MEDLINE]Related articlesFree article

An Integrated Sequence-Structure Database incorporating matching mRNA sequence, amino acid sequence and protein three-dimensional structure data.

Adzhubei IA, Adzhubei AA, Neidle S.

Nucleic Acids Res. 1998 Jan 1;26(1):327-31.PMID: 9399866 [PubMed - indexed for MEDLINE]Related articlesFree article

Self complementarity in messenger RNA of collagen. I. Possible hairpin structures in regions coding for oligopeptides of glycine, proline (hydroxyproline) and alanine.

Bachra BN.

J Mol Evol. 1976 Aug 3;8(2):155-73.PMID: 966290 [PubMed - indexed for MEDLINE]Related articles