PubMed

P-value based visualization of codon usage data.

Meinicke P, Brodag T, Fricke WF, Waack S.

Algorithms Mol Biol. 2006 Jun 29;1(1):10.PMID: 16808834 [PubMed]Related articlesFree article

Comparison of correspondence analysis methods for synonymous codon usage in bacteria.

Suzuki H, Brown CJ, Forney LJ, Top EM.

DNA Res. 2008 Dec;15(6):357-65. Epub 2008 Oct 21.PMID: 18940873 [PubMed - indexed for MEDLINE]Related articlesFree article

Statistical, computational and visualization methodologies to unveil gene primary structure features.

Pinheiro M, Afreixo V, Moura G, Freitas A, Santos MA, Oliveira JL.

Methods Inf Med. 2006;45(2):163-8.PMID: 16538282 [PubMed - indexed for MEDLINE]Related articles

Comparison of codon usage measures and their applicability in prediction of microbial gene expressivity.

Supek F, Vlahovicek K.

BMC Bioinformatics. 2005 Jul 19;6:182.PMID: 16029499 [PubMed - indexed for MEDLINE]Related articlesFree article

An environmental signature for 323 microbial genomes based on codon adaptation indices.

Willenbrock H, Friis C, Juncker AS, Ussery DW.

Genome Biol. 2006;7(12):R114.PMID: 17156429 [PubMed - indexed for MEDLINE]Related articlesFree article

Comparative analysis of codon usage patterns and identification of predicted highly expressed genes in five Salmonella genomes.

Mondal UK, Sur S, Bothra AK, Sen A.

Indian J Med Microbiol. 2008 Oct-Dec;26(4):313-21.PMID: 18974482 [PubMed - indexed for MEDLINE]Related articlesFree article

A unified framework for finding differentially expressed genes from microarray experiments.

Shaik JS, Yeasin M.

BMC Bioinformatics. 2007 Sep 18;8:347.PMID: 17877806 [PubMed - indexed for MEDLINE]Related articlesFree article

Codon usages of genes on chromosome, and surprisingly, genes in plasmid are primarily affected by strand-specific mutational biases in Lawsonia intracellularis.

Guo FB, Yuan JB.

DNA Res. 2009 Apr;16(2):91-104. Epub 2009 Feb 15.PMID: 19221094 [PubMed - indexed for MEDLINE]Related articlesFree article

Use and misuse of correspondence analysis in codon usage studies.

Perrière G, Thioulouse J.

Nucleic Acids Res. 2002 Oct 15;30(20):4548-55.PMID: 12384602 [PubMed - indexed for MEDLINE]Related articlesFree article

Gender-specific selection on codon usage in plant genomes.

Whittle CA, Malik MR, Krochko JE.

BMC Genomics. 2007 Jun 13;8:169.PMID: 17567911 [PubMed - indexed for MEDLINE]Related articlesFree article

Positive selection for unpreferred codon usage in eukaryotic genomes.

Neafsey DE, Galagan JE.

BMC Evol Biol. 2007 Jul 18;7:119.PMID: 17640368 [PubMed - indexed for MEDLINE]Related articlesFree article

Rapid divergence of codon usage patterns within the rice genome.

Wang HC, Hickey DA.

BMC Evol Biol. 2007 Feb 8;7 Suppl 1:S6.PMID: 17288579 [PubMed - indexed for MEDLINE]Related articlesFree article

Estimating translational selection in eukaryotic genomes.

dos Reis M, Wernisch L.

Mol Biol Evol. 2009 Feb;26(2):451-61. Epub 2008 Nov 25.PMID: 19033257 [PubMed - indexed for MEDLINE]Related articlesFree article

Prediction of highly expressed genes in microbes based on chromatin accessibility.

Willenbrock H, Ussery DW.

BMC Mol Biol. 2007 Feb 13;8:11.PMID: 17295928 [PubMed - indexed for MEDLINE]Related articlesFree article

Composition-based methods to identify horizontal gene transfer.

Cortez D, Delaye L, Lazcano A, Becerra A.

Methods Mol Biol. 2009;532:215-25.PMID: 19271187 [PubMed - indexed for MEDLINE]Related articles

Molecular evolution of synonymous codon usage in Populus.

Ingvarsson PK.

BMC Evol Biol. 2008 Nov 4;8:307.PMID: 18983655 [PubMed - indexed for MEDLINE]Related articlesFree article

Gene expression and protein length influence codon usage and rates of sequence evolution in Populus tremula.

Ingvarsson PK.

Mol Biol Evol. 2007 Mar;24(3):836-44. Epub 2007 Jan 4.PMID: 17204548 [PubMed - indexed for MEDLINE]Related articlesFree article

Predicting gene expression level from relative codon usage bias: an application to Escherichia coli genome.

Roymondal U, Das S, Sahoo S.

DNA Res. 2009 Feb;16(1):13-30. Epub 2009 Jan 8.PMID: 19131380 [PubMed - indexed for MEDLINE]Related articlesFree article

Study of codon bias perspective of fungal xylanase gene by multivariate analysis.

Shrivastava S, Poddar R, Shukla P, Mukhopadhyay K.

Bioinformation. 2009 Jul 27;3(10):425-9.PMID: 19759864 [PubMed - in process]Related articlesFree article

Predicting gene expression level from codon usage bias.

Henry I, Sharp PM.

Mol Biol Evol. 2007 Jan;24(1):10-2. Epub 2006 Oct 12.PMID: 17038449 [PubMed - indexed for MEDLINE]Related articlesFree article