Tag codon-usage [37 articles] Export

Recent papers classified by the tag codon-usage.

	Design Parameters to Control Synthetic Gene Expression in Escherichia coli [My Copy] PLoS ONE, Vol. 4, No. 9. (14 September 2009), e7002. by Mark Welch, Sridhar Govindarajan, Jon E. Ness, et al.Alan Villalobos, Austin Gurney, Jeremy Minshull, Claes Gustafsson posted to codon-usage by michaelbarton on 2009-09-15 12:53:59 as along with 6 people and 1 group dbikard RasmusJensen pala0088 jjray Vincent_Rouilly bmduggan Synthetic Biology
	Relationship of codon bias to mRNA concentration and protein length in Saccharomyces cerevisiae. [My Copy] Yeast, Vol. 16, No. 12. (15 September 2000), pp. 1131-1145. by A. Coghlan, K. H. Wolfe posted to codon-usage mdb-thesis yeast by michaelbarton on 2009-07-29 11:35:42 as along with 1 person bjorns
	Revisiting the codon adaptation index from a whole-genome perspective: analyzing the relationship between gene expression and codon occurrence in yeast using a variety of models. [My Copy] Nucleic Acids Research, Vol. 31, No. 8. (15 April 2003), pp. 2242-2251. by R. Jansen, H. J. Bussemaker, M. Gerstein posted to yeast mdb-thesis mdb-manuscript-1 gene-expression codon-usage by michaelbarton on 2009-07-19 19:35:03 as along with 1 person nedwards
	Coding-sequence determinants of gene expression in Escherichia coli. [My Copy] Science (New York, N.Y.), Vol. 324, No. 5924. (10 April 2009), pp. 255-258. by Grzegorz Kudla, Andrew W. Murray, David Tollervey, Joshua B. Plotkin posted to codon-usage expression by samgj on 2009-06-29 12:34:17 as along with 35 people and 1 group daveGerrard pmalkus codonusage balabu yyfwuhan dbikard kinestetika dswan bpcusack emptyhb sameersoi dpsuslo8 anwazo Vincent_Rouilly kintoki erel10 michaelbarton fenghezi VGreiff ramanuja austin twatanab coela polivares rpatward lizbiogen jdbowes operon jasontsai absterga jbhiatt jjray kshundyak zwang friendpine BergmanLab
	Measure of synonymous codon usage diversity among genes in bacteria [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 167. by Haruo Suzuki, Rintaro Saito, Masaru Tomita posted to codon-usage gc-content gene-expression by michaelbarton on 2009-06-15 23:21:07 as along with 3 people codonusage dokky jmeppley
	CodonExplorer: An Online Tool for Analyzing Codon Usage and Sequence Composition, Scaling From Genes to Genomes [My Copy] Bioinformatics (11 March 2009), btp141. by Micah Hamady, Stephanie A. Wilson, Jesse Zaneveld, Noboru Sueoka, Rob Knight posted to codon-usage sequence by nuin on 2009-05-25 18:31:27 as along with 1 person and 1 group dswan Bioinformatics
	Gene expression: Structure versus codon bias [My Copy] Nature Reviews Genetics, Vol. 10, No. 6., pp. 348-349. by Elizabeth Neame posted to codon-usage gene-expression by michaelbarton on 2009-05-19 10:45:42 as
	Studies of codon usage and tRNA genes of 18 unicellular organisms and quantification of Bacillus subtilis tRNAs: gene expression level and species-specific diversity of codon usage based on multivariate analysis. [My Copy] Gene, Vol. 238, No. 1. (30 September 1999), pp. 143-155. by S. Kanaya, Y. Yamada, Y. Kudo, T. Ikemura posted to codon-usage mdb-thesis by michaelbarton on 2009-03-04 18:15:07 as along with 2 people codonusage bjorns
	Correlation between the abundance of yeast transfer RNAs and the occurrence of the respective codons in protein genes. Differences in synonymous codon choice patterns of yeast and Escherichia coli with reference to the abundance of isoaccepting transfer RNAs. [My Copy] Journal of Molecular Biology, Vol. 158, No. 4. (15 July 1982), pp. 573-597. by T. Ikemura posted to yeast mdb-thesis mdb-manuscript-1 ecoli codon-usage by michaelbarton on 2008-12-30 13:00:49 as along with 3 people and 1 group danatcaret bjorns cisevol BergmanLab
	Relationships among stop codon usage bias, its context, isochores, and gene expression level in various eukaryotes. [My Copy] J Mol Evol, Vol. 61, No. 4. (October 2005), pp. 437-444. by J. Sun, M. Chen, J. Xu, J. Luo posted to codon-usage by michaelbarton on 2008-12-16 16:04:29 as
	Comparison of Correspondence Analysis Methods for Synonymous Codon Usage in Bacteria [My Copy] DNA Res (21 October 2008), dsn028. by Haruo Suzuki, Celeste J. Brown, Larry J. Forney, Eva M. Top posted to bacteria codon-usage synonymous by treangen on 2008-11-25 09:18:10 as along with 2 people rshe druvus
	Rare Codons Cluster [My Copy] PLoS ONE, Vol. 3, No. 10. (15 October 2008), e3412. by Thomas F. Clarke, Patricia L. Clark posted to codon-usage teaching by cabbagesofdoom on 2008-10-16 09:33:30 as along with 1 person saunders
	Metabolic efficiency and amino acid composition in the proteomes of Escherichia coli and Bacillus subtilis. [My Copy] Proceedings of the National Academy of Sciences, Vol. 99, No. 6. (19 March 2002), pp. 3695-3700. by H. Akashi, T. Gojobori posted to mdb-thesis mdb-manuscript-1 evolution energy-production ecoli cost-minimisation codon-usage amino-acid-usage by michaelbarton on 2008-10-10 10:50:38 as along with 4 people and 1 group bpcusack kinestetika bjorns tny microbiology_nijmegen
	Comparative analyses of codon and amino acid usage in symbiotic island and core genome in nitrogen-fixing symbiotic bacterium Bradyrhizobium japonicum. [My Copy] Journal of biomolecular structure & dynamics, Vol. 23, No. 2. (October 2005), pp. 221-232. by S. Das, A. Pan, S. Paul, C. Dutta posted to amino-acid bradyrhizobium-japonicum codon-usage usage by Saby2000 on 2008-04-19 02:42:07 as
	Synonymous codon usage in adenoviruses: influence of mutation, selection and protein hydropathy. [My Copy] Virus research, Vol. 117, No. 2. (May 2006), pp. 227-236. by S. Das, S. Paul, C. Dutta posted to adenovirus codon-usage protein-hydropathy by Saby2000 on 2008-04-19 02:30:17 as
	Evolutionary Constraints on Codon and Amino Acid Usage in Two Strains of Human Pathogenic Actinobacteria Tropheryma whipplei [My Copy] Journal of Molecular Evolution, Vol. 62, No. 5. (28 May 2006), pp. 645-658. by Sabyasachi Das, Sandip Paul, Chitra Dutta posted to aminoacid-usage codon-usage pathogenic-bacteria by Saby2000 on 2008-04-13 18:36:02 as
	Codon and amino Acid usage in two major human pathogens of genus bartonella -- optimization between replicational-transcriptional selection, translational control and cost minimization. [My Copy] DNA Res, Vol. 12, No. 2. (2005), pp. 91-102. by S. Das, S. Paul, S. Chatterjee, C. Dutta posted to aminoacid-usage codon-usage genomics proteomics by Saby2000 on 2008-04-13 18:28:28 as along with 2 people bjorns michaelbarton
	Analysis of Nanoarchaeum equitansgenome and proteome composition: indications for hyperthermophilic and parasitic adaptation [My Copy] BMC Genomics, Vol. 7 (25 July 2006), 186. by Sabyasachi Das, Sandip Paul, Sumit Bag, Chitra Dutta posted to amino-acidusage codon-usage genomics nanoarchaeum proteomics thermophiles by Saby2000 on 2008-04-13 03:14:03 as
	Molecular Signature of Hypersaline Adaptation: Insights from Genome and Proteome Composition of Halophilic Prokaryotes [My Copy] Genome Biology, Vol. 9, No. 4. (2008) by Sandip Paul, Sumit Bag, Sabyasachi Das, Eric Harvill, Chitra Dutta posted to aminoacid-usage codon-usage genomics halophiles proteomics by Saby2000 on 2008-04-13 03:09:43 as along with 2 people neils rowenabrennavart
	Global analysis of protein expression in yeast [My Copy] Nature, Vol. 425, No. 6959. (16 October 2003), pp. 737-741. by Sina Ghaemmaghami, Won-Ki Huh, Kiowa Bower, et al.Russell W. Howson, Archana Belle, Noah Dephoure, Erin K. O'Shea, Jonathan S. Weissman posted to yeast translation tap-tag reviewed proteins mdb-thesis mdb-manuscript-1 gene-expression codon-usage by michaelbarton on 2008-04-01 16:51:51 as along with 14 people viren4388 phebden jporternj nzm MarcJungbluth rebeccahainess nirfriedman nm raiyar nicoleq roys faion dylanwalker chasmand
	Transfer RNA gene redundancy and translational selection in Saccharomyces cerevisiae [My Copy] Journal of Molecular Biology, Vol. 268, No. 2. (2 May 1997), pp. 322-330. by Riccardo Percudani, Angelo Pavesi, Simone Ottonello posted to yeast trna-copy trna translational-selection translational-accuracy reviewed mdb-manuscript-1 genetic-code gene-expression gene-characteristics codon-usage amino-acid-usage by michaelbarton on 2008-03-31 11:38:04 as
	Compositional variation in bacterial genes and proteins with potential expression level [My Copy] FEBS Letters, Vol. 579, No. 23. (26 September 2005), pp. 5205-5210. by Sabyasachi Das, Subhagata Ghosh, Archana Pan, Chitra Dutta posted to reviewed gene-expression gene-characteristics gc-content evolution eubacteria ecoli cost-minimisation codon-usage amino-acid-usage by michaelbarton on 2008-03-17 09:39:08 as along with 1 person Saby2000
	Mutational and selective pressures on codon and amino acid usage in Buchnera, endosymbiotic bacteria of aphids [My Copy] Genome Research, Vol. 14, No. 1. (January 2004), pp. 44-53. by Claude Rispe, François Delmotte, Roeland C. H. J. van Ham, Andres Moya posted to amino-acid-usage buchnera codon-usage cost-minimisation ecoli endosymbiotic evolution gc-content gene-characteristics mdb-thesis symbiosis by michaelbarton on 2008-03-17 09:19:46 as along with 3 people codonusage operon bjorns
	Hydrophobicity, expressivity and aromaticity are the major trends of amino-acid usage in 999 Escherichia coli chromosome-encoded genes. [My Copy] Nucleic Acids Res, Vol. 22, No. 15. (11 August 1994), pp. 3174-3180. by J. R. Lobry, C. Gautier posted to amino-acid-usage codon-usage cost-minimisation ecoli evolution gene-characteristics gene-expression trna trna-copy by michaelbarton on 2008-03-17 09:16:34 as along with 2 people operon bjorns
	Codon usage bias from tRNA's point of view: redundancy, specialization, and efficient decoding for translation optimization. [My Copy] Genome Res, Vol. 14, No. 11. (November 2004), pp. 2279-2286. by E. P. Rocha posted to codon-usage gene-expression translation translational-selection trna by michaelbarton on 2008-03-10 12:00:30 as along with 3 people codonusage bjorns gpalidwor
	Translational selection and yeast proteome evolution. [My Copy] Genetics, Vol. 164, No. 4. (August 2003), pp. 1291-1303. by H. Akashi posted to yeast trna-copy trna translational-selection reviewed mdb-thesis mdb-manuscript-1 gene-length gene-expression gene-characteristics codon-usage amino-acid-usage by michaelbarton on 2008-03-10 11:52:39 as along with 2 people and 1 group bjorns penka Nie
	Synonymous Codon Usage in Escherichia coli: Selection for Translational Accuracy [My Copy] Molecular Biology and Evolution, Vol. 24, No. 2. (February 2007), pp. 374-381. by Stoletzki, Nina, Eyre-Walker, Adam posted to codon-usage ecoli gene-expression translational-accuracy translational-selection by michaelbarton on 2008-03-10 11:50:00 as along with 5 people robfsouza operon smbe2008 gjuggler bpcusack
	Context-Dependent Codon Bias and Messenger RNA Longevity in the Yeast Transcriptome [My Copy] Molecular Biology and Evolution, Vol. 22, No. 6. (June 2005), pp. 1403-1411. by David B. Carlini posted to codon-usage gene-expression gene-expression-degradation mrna-degradation mrna-stability yeast by michaelbarton on 2008-03-10 11:48:56 as
	Relationship of codon bias to mRNA concentration and protein length in <I>Saccharomyces cerevisiae</I> [My Copy] Yeast, Vol. 16, No. 12. (2000), pp. 1131-1145. by Avril Coghlan, Kenneth H. Wolfe posted to codon-usage gene-expression gene-length yeast by michaelbarton on 2008-03-10 10:47:05 as
	Gene length and codon usage bias in Drosophila melanogaster, Saccharomyces cerevisiae and Escherichia coli [My Copy] pp. 3188-3193. by Etsuko N. Moriyama posted to codon-usage drosophila ecoli gene-expression gene-length yeast by michaelbarton on 2008-03-10 10:44:00 as
	Two-step total gene synthesis method. [My Copy] Nucleic Acids Res, Vol. 32, No. 7. (2004) by L. Young, Q. Dong posted to codon-usage expression pcr by robert on 2007-08-22 10:15:52 as
	Overexpression in Escherichia coli of the AT-rich trpA and trpB genes from the hyperthermophilic archaeon Pyrococcus furiosus. [My Copy] FEMS Microbiol Lett, Vol. 216, No. 2. (5 November 2002), pp. 179-183. by M. Ishida, T. Oshima, K. Yutani posted to cloning codon-usage ecoli expression by robert on 2006-10-16 09:35:54 as
	Effective structure of a leader open reading frame for enhancing the expression of GC-rich genes. [My Copy] J Biochem (Tokyo), Vol. 132, No. 1. (July 2002), pp. 63-70. by M. Ishida, T. Oshima posted to cloning codon-usage ecoli streptomyces by robert on 2006-10-16 09:32:18 as
	Codon usage pattern in alpha 2(I) chain domain of chicken type I collagen and its implications for the secondary structure of the mRNA and the synthesis pauses of the collagen. [My Copy] Biochem Biophys Res Commun, Vol. 167, No. 2. (16 March 1990), pp. 772-776. by M. Zama posted to codon-usage by mdimmic on 2006-05-12 16:46:37 as
	Folding of the MS2 coat protein in Escherichia coli is modulated by translational pauses resulting from mRNA secondary structure and codon usage: a hypothesis. [My Copy] J Theor Biol, Vol. 162, No. 2. (21 May 1993), pp. 243-252. by Y. Guisez, J. Robbens, E. Remaut, W. Fiers posted to codon-usage by mdimmic on 2006-05-12 16:45:16 as
	Codon usage tabulated from international DNA sequence databases: status for the year 2000. [My Copy] Nucleic Acids Res, Vol. 28, No. 1. (1 January 2000) by Y. Nakamura, T. Gojobori, T. Ikemura posted to codon-usage ecoli expression by robert on 2006-02-09 09:15:50 as along with 1 person nagendraproj
	Tracing specific synonymous codon-secondary structure correlations through evolution. [My Copy] J Mol Evol, Vol. 56, No. 4. (April 2003), pp. 473-484. by M. Oresic, M. Dehn, D. Korenblum, D. Shalloway posted to codon-usage by mdimmic on 2005-11-11 21:59:35 as

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gene-expression	15
ecoli	11
yeast	9
mdb-thesis	8
amino-acid-usage	7
mdb-manuscript-1	7
expression	6
gene-characteristics	6
cost-minimisation	5
translational-selection	5
evolution	4
gc-content	4
genomics	4
reviewed	4
trna	4
aminoacid-usage	3
gene-length	3
proteomics	3
trna-copy	3
cloning	2
translation	2
translational-accuracy	2
adenovirus	1
amino-acid	1
amino-acidusage	1
bacteria	1
bradyrhizobium-japonicum	1
buchnera	1
drosophila	1
endosymbiotic	1
energy-production	1
eubacteria	1
gene-expression-degradation	1
genetic-code	1
halophiles	1
microbiology	1
mrna-degradation	1
mrna-stability	1
nanoarchaeum	1
pathogenic-bacteria	1
pcr	1
protein-hydropathy	1
protein-production	1
proteins	1
rna-structure	1
sequence	1
streptomyces	1
symbiosis	1
synonymous	1
tap-tag	1
teaching	1
thermophiles	1
usage	1

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