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Comparative context analysis of codon pairs on an ORFeome scale
Gabriela Moura, Miguel Pinheiro, Raquel Silva, Isabel Miranda, Vera Afreixo, Gaspar Dias, Adelaide Freitas, José L Oliveira, Manuel AS Santos
Genome Biol. 2005; 6(3): R28. Published online 2005 February 15. doi: 10.1186/gb-2005-6-3-r28
PMCID:
PMC1088947
Abstract Full Text PDF–527K

Is Cited by the Following 12 Articles in this Archive:

Synonymous Codon Ordering: A Subtle but Prevalent Strategy of Bacteria to Improve Translational Efficiency
Zhu-Qing Shao, Yan-Mei Zhang, Xue-Ying Feng, Bin Wang, Jian-Qun Chen
PLoS One. 2012; 7(3): e33547. Published online 2012 March 14. doi: 10.1371/journal.pone.0033547
PMCID:
PMC3303843
Abstract Full Text PDF–662K Supplementary Material
CodingMotif: exact determination of overrepresented nucleotide motifs in coding sequences
Yang Ding, William A Lorenz, Jeffrey H Chuang
BMC Bioinformatics. 2012; 13: 32. Published online 2012 February 14. doi: 10.1186/1471-2105-13-32
PMCID:
PMC3298695
Abstract Full Text PDF–778K
Clustering of classical swine fever virus isolates by codon pair bias
Immanuel Leifer, Dirk Hoeper, Sandra Blome, Martin Beer, Nicolas Ruggli
BMC Res Notes. 2011; 4: 521. Published online 2011 November 29. doi: 10.1186/1756-0500-4-521
PMCID:
PMC3341591
Abstract Full Text PDF–1.1M
Control of translation efficiency in yeast by codon–anticodon interactions
Daniel P. Letzring, Kimberly M. Dean, Elizabeth J. Grayhack
RNA. 2010 December; 16(12): 2516–2528. doi: 10.1261/rna.2411710
PMCID:
PMC2995412
Abstract Full Text PDF–1.1M
Computational identification of rare codons of Escherichia coli based on codon pairs preference
Xianming Wu, Songfeng Wu, Dong Li, Jiyang Zhang, Lin Hou, Jie Ma, Wanlin Liu, Daming Ren, Yunping Zhu, Fuchu He
BMC Bioinformatics. 2010; 11: 61. Published online 2010 January 28. doi: 10.1186/1471-2105-11-61
PMCID:
PMC2828438
Abstract Full Text PDF–363K Supplementary Material
You're one in a googol: optimizing genes for protein expression
Mark Welch, Alan Villalobos, Claes Gustafsson, Jeremy Minshull
J R Soc Interface. 2009 August 6; 6(Suppl_4): S467–S476. Published online 2009 March 11. doi: 10.1098/rsif.2008.0520.focus
PMCID:
PMC2843954
Abstract Full Text PDF–812K
Preferred and avoided codon pairs in three domains of life
Age Tats, Tanel Tenson, Maido Remm
BMC Genomics. 2008; 9: 463. Published online 2008 October 8. doi: 10.1186/1471-2164-9-463
PMCID:
PMC2585594
Abstract Full Text PDF–626K Supplementary Material
Codon-triplet context unveils unique features of the Candida albicans protein coding genome
Gabriela R Moura, José P Lousado, Miguel Pinheiro, Laura Carreto, Raquel M Silva, José L Oliveira, Manuel AS Santos
BMC Genomics. 2007; 8: 444. Published online 2007 November 29. doi: 10.1186/1471-2164-8-444
PMCID:
PMC2244636
Abstract Full Text PDF–859K Supplementary Material
A genetic code alteration generates a proteome of high diversity in the human pathogen Candida albicans
Ana C Gomes, Isabel Miranda, Raquel M Silva, Gabriela R Moura, Benjamin Thomas, Alexandre Akoulitchev, Manuel AS Santos
Genome Biol. 2007; 8(10): R206. Published online 2007 October 4. doi: 10.1186/gb-2007-8-10-r206
PMCID:
PMC2246281
Abstract Full Text PDF–1000K Supplementary Material
Large Scale Comparative Codon-Pair Context Analysis Unveils General Rules that Fine-Tune Evolution of mRNA Primary Structure
Gabriela Moura, Miguel Pinheiro, Joel Arrais, Ana Cristina Gomes, Laura Carreto, Adelaide Freitas, José L. Oliveira, Manuel A. S. Santos
PLoS ONE. 2007; 2(9): e847. Published online 2007 September 5. doi: 10.1371/journal.pone.0000847
PMCID:
PMC1952141
Abstract Full Text PDF–491K Supplementary Material
Gene Designer: a synthetic biology tool for constructing artificial DNA segments
Alan Villalobos, Jon E Ness, Claes Gustafsson, Jeremy Minshull, Sridhar Govindarajan
BMC Bioinformatics. 2006; 7: 285. Published online 2006 June 6. doi: 10.1186/1471-2105-7-285
PMCID:
PMC1523223
Abstract Full Text PDF–672K
tRNA properties help shape codon pair preferences in open reading frames
J. Ross Buchan, Lorna S. Aucott, Ian Stansfield
Nucleic Acids Res. 2006; 34(3): 1015–1027. Published online 2006 February 9. doi: 10.1093/nar/gkj488
PMCID:
PMC1363775
Abstract Full Text PDF–1.0M Supplementary Material
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