michaelbarton's gene-expression [38 articles] Export

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	Automated design of synthetic ribosome binding sites to control protein expression. [My Copy] Nature biotechnology, Vol. 27, No. 10. (04 October 2009), pp. 946-950. by Howard M. Salis, Ethan A. Mirsky, Christopher A. Voigt posted to gene-expression ecoli by michaelbarton on 2009-10-05 16:05:07 as along with 4 people and 1 group pmalkus johntheap mhamidi dbikard BergmanLab
	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
	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
	Why highly expressed proteins evolve slowly. [My Copy] Proceedings of the National Academy of Sciences (21 September 2005), pp. 14338-14343. by D. A. A. Drummond, Jesse D. D. Bloom, Christoph Adami, Claus O. O. Wilke, Frances H. H. Arnold posted to evolutionary-rate gene-expression mdb-thesis prote-evolution by michaelbarton on 2009-06-15 11:45:50 as along with 17 people and 5 groups codonusage allmaya rklancer stevanspringer bjorns imouthesmp aprasad dayjm Einat marcius xwbcn penka balabu malcook balicea RamuAnandakrishnan wilbur structural_bioinformatics Nie FAB-lab BioinfoCIPF SGU-CIPF
	Highly Expressed Genes in Yeast Evolve Slowly [My Copy] Genetics, Vol. 158, No. 2. (1 June 2001), pp. 927-931. by Csaba Pal, Balazs Papp, Laurence D. Hurst posted to evolutionary-rate gene-expression mdb-thesis by michaelbarton on 2009-06-15 11:38:37 as along with 6 people and 1 group pablocarb bjorns penka lewbin balicea skumagai Nie
	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
	Coding-sequence determinants of gene expression in Escherichia coli [My Copy] Science, Vol. 324, No. 5924. (10 April 2009), pp. 255-258. by Grzegorz Kudla, Andrew W. Murray, David Tollervey, Joshua B. Plotkin posted to rna-structure protein-production mdb-manuscript-1 gene-expression gc-content ecoli codon-usage by michaelbarton on 2009-04-22 10:15:15 as along with 33 people and 1 group codonusage balabu yyfwuhan dbikard kinestetika samgj dswan bpcusack emptyhb sameersoi dpsuslo8 anwazo Vincent_Rouilly kintoki erel10 fenghezi VGreiff ramanuja austin twatanab coela polivares rpatward lizbiogen jdbowes operon jasontsai absterga jbhiatt jjray kshundyak zwang friendpine BergmanLab
	Comparative proteome analysis of Saccharomyces cerevisiae grown in chemostat cultures limited for glucose or ethanol. [My Copy] Molecular & cellular proteomics : MCP, Vol. 4, No. 1. (January 2005), pp. 1-11. by A. Kolkman, M. M. Olsthoorn, C. E. Heeremans, A. J. Heck, M. Slijper posted to diauxic-shift gene-expression mdb-thesis transcription translation yeast by michaelbarton on 2009-01-29 20:07:41 as
	Proteome analysis of yeast response to various nutrient limitations [My Copy] Mol Syst Biol, Vol. 2 (2006), pp. msb4100069-E1-msb4100069-E16. by Annemieke Kolkman, Pascale Daran-Lapujade, Asier Fullaondo, et al.Maurien M. Olsthoorn, Jack T. Pronk, Monique Slijper, Albert J. Heck posted to diauxic-shift gene-expression mdb-thesis proteome yeast by michaelbarton on 2009-01-29 20:06:41 as along with 4 people and 2 groups Retchless okarsligil pau roys Bioinformatics RNAtransport
	Do amino acid biosynthetic costs constrain protein evolution in Saccharomyces cerevisiae? [My Copy] Journal of Molecular Evolution (21 October 2008), pp. 621-630. by Douglas W. Raiford, Esley M. Heizer, Robert V. Miller, Hiroshi Akashi, Michael L. Raymer, Dan E. Krane posted to yeast translation transcription mdb-thesis mdb-manuscript-1 gene-expression evolutionary-rate amino-acid-usage amino-acid-cost by michaelbarton on 2009-01-16 16:49:34 as along with 1 group BergmanLab
	Protein material costs: single atoms can make an evolutionary difference [My Copy] Trends in Genetics, Vol. 25, No. 1. (January 2009), pp. 5-8. by J. Bragg, A. Wagner posted to amino-acid-substitution amino-acid-usage cost-benefit-analysis cost-minimisation evolutionary-rate fitness gene-expression insertion-deletion nutrient-limitation proteins by michaelbarton on 2009-01-14 14:26:12 as along with 1 group BergmanLab
	Sulfur sparing in the yeast proteome in response to sulfur demand. [My Copy] Molecular cell, Vol. 9, No. 4. (April 2002), pp. 713-723. by M. Fauchon, G. Lagniel, J. C. Aude, et al.L. Lombardia, P. Soularue, C. Petat, G. Marguerie, A. Sentenac, M. Werner, J. Labarre posted to amino-acid-usage cost-minimisation gene-duplication gene-expression isoenzymes mdb-thesis nutrient-limitation reviewed sulfur by michaelbarton on 2008-10-17 15:17:09 as
	Genome-scale analysis of the uses of the Escherichia coli genome: model-driven analysis of heterogeneous data sets. [My Copy] Journal of bacteriology, Vol. 185, No. 21. (November 2003), pp. 6392-6399. by T. E. Allen, M. J. Herrgård, M. Liu, et al.Y. Qiu, J. D. Glasner, F. R. Blattner, Palsson posted to translation transcription systems-biology ribosomal reviewed promoters nutrient-limitation mrn-degradation metabolism mdb-thesis mdb-manuscript-1 gene-length gene-expression-degradation gene-expression flux-balance-analysis energy-production ecoli density cost-benefit-analysis amino-acid-usage by michaelbarton on 2008-10-17 14:55:43 as
	Is transcriptional regulation of metabolic pathways an optimal strategy for fitness? [My Copy] PLoS ONE, Vol. 2, No. 9. (2007) by C. Troein, D. Ahrén, M. Krogh, C. Peterson posted to environment fitness gene-expression systems-biology by michaelbarton on 2008-07-04 16:57:02 as
	Optimality and evolutionary tuning of the expression level of a protein. [My Copy] Nature, Vol. 436, No. 7050. (28 July 2005), pp. 588-592. by Erez Dekel, Uri Alon posted to reviewed lactose lac-operon gene-expression cost-minimisation cost-benefit-analysis by michaelbarton on 2008-07-03 10:36:06 as along with 5 people bpcusack rklancer guyshinar comb marcio
	Evolvability and hierarchy in rewired bacterial gene networks [My Copy] Nature, Vol. 452, No. 7189. (17 April 2008), pp. 840-845. by Mark Isalan, Caroline Lemerle, Konstantinos Michalodimitrakis, et al.Carsten Horn, Pedro Beltrao, Emanuele Raineri, Mireia Garriga-Canut, Luis Serrano posted to ecoli evolution evolutionary-systems-biology fitness gene-duplication gene-expression reviewed transcription-factors transcription-network by michaelbarton on 2008-06-30 13:49:56 as along with 26 people and 4 groups Asclepius yyfwuhan biomcgary megraw chica jimineep balabu kaarsinogen aalibes tmmurali dullhunk neils cmzmasek AbnerCYH josedavid biehl caseybrown Garamonfok austin hryk dbikard cactus margaritis chad_davis aheilbut zwang GEB Centre de Recherches Interdisciplinaires SynBioSys BergmanLab
	Population genomics of domestic and wild yeasts : Nature Precedings [My Copy] posted to codon-usage environment evolution gene-expression genetic-variation genomics insertion-deletion mutation population-genetics reviewed snp yeast by michaelbarton on 2008-06-25 18:03:04 as along with 1 person and 1 group stajich Mycology
	A genome-wide survey of changes in protein evolutionary rates across four closely related species of Saccharomyces sensu stricto group [My Copy] BMC Evolutionary Biology, Vol. 7 (29 January 2007), 9. by Yoshihiro Kawahara, Tadashi Imanishi posted to yeast synonymous-substitutions reviewed non-synonymous-substitutions multiple-sequence-alignment genomics gene-expression gene-duplication functional-constaint evolutionary-rate evolution amino-acid-substitution by michaelbarton on 2008-04-29 11:55:34 as
	Homeostatic adjustment and metabolic remodeling in glucose-limited yeast cultures. [My Copy] Mol Biol Cell, Vol. 16, No. 5. (May 2005), pp. 2503-2517. by M. J. Brauer, A. J. Saldanha, K. Dolinski, D. Botstein posted to yeast mdb-manuscript-1 gene-expression diauxic-shift by michaelbarton on 2008-04-22 13:39:59 as along with 1 person dbenn
	Functional genomic analysis of the rates of protein evolution. [My Copy] Proceedings of the National Academy of Sciences, Vol. 102, No. 15. (12 April 2005), pp. 5483-5488. by D. P. Wall, A. E. Hirsh, H. B. Fraser, et al.J. Kumm, G. Giaever, M. B. Eisen, M. W. Feldman posted to yeast synonymous-substitutions reviewed non-synonymous-substitutions noise mdb-thesis mdb-manuscript-1 gene-knockout gene-expression gene-dispensability evolutionary-rate evolution amino-acid-substitution by michaelbarton on 2008-04-22 12:32:12 as along with 7 people and 1 group mgomes phoenixzxl bjorns balajis opheliav penka RamuAnandakrishnan Nie
	Exploring the metabolic and genetic control of gene expression on a genomic scale. [My Copy] Science, Vol. 278, No. 5338. (24 October 1997), pp. 680-686. by J. L. DeRisi, V. R. Iyer, P. O. Brown posted to yeast mdb-manuscript-1 gene-expression diauxic-shift by michaelbarton on 2008-04-14 10:33:42 as along with 8 people and 3 groups thomaskelder macowell lfriedl lyongu fisherp raiyar incovoma dbenn kdl BUiGEM steinmetzlab
	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
	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
	Post-transcriptional Expression Regulation in the Yeast Saccharomyces cerevisiae on a Genomic Scale [My Copy] Mol Cell Proteomics, Vol. 3, No. 11. (1 November 2004), pp. 1083-1092. by Andreas Beyer, Jens Hollunder, Heinz-Peter Nasheuer, Thomas Wilhelm posted to gene-characteristics gene-expression mrna-degradation translation yeast by michaelbarton on 2008-03-11 13:27:46 as along with 3 people cgaugain schwartzjmc roys
	Genome-wide analysis of mRNA translation profiles in Saccharomycescerevisiae [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 100, No. 7. (1 April 2003), pp. 3889-3894. by Yoav Arava, Yulei Wang, John D. Storey, Chih L. Liu, Patrick O. Brown, Daniel Herschlag posted to gene-expression ribosomal-density translation yeast by michaelbarton on 2008-03-11 13:25:56 as along with 2 people mqbphcw3 lshaw
	Dissecting the Regulatory Circuitry of a Eukaryotic Genome [My Copy] Cell, Vol. 95, No. 5. (25 November 1998), pp. 717-728. by Frank C. Holstege, Ezra G. Jennings, John J. Wyrick, et al.Tong I. Lee, Christoph J. Hengartner, Michael R. Green, Todd R. Golub, Eric S. Lander, Richard A. Young posted to gene-expression yeast by michaelbarton on 2008-03-11 13:22:53 as along with 1 person mapplab
	Quantification of protein half-lives in the budding yeast proteome [My Copy] PNAS, Vol. 103, No. 35. (29 August 2006), pp. 13004-13009. by Archana Belle, Amos Tanay, Ledion Bitincka, Ron Shamir, Erin K. O'Shea posted to yeast translation reviewed protein-degradation gene-expression-degradation gene-expression by michaelbarton on 2008-03-11 11:47:27 as along with 6 people stefanorb reidw balabu lshaw nicoleq roys
	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 amino-acid-usage codon-usage cost-minimisation gene-characteristics gene-expression translational-selection by michaelbarton on 2008-03-10 12:02:12 as along with 2 people bjorns Saby2000
	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
	Analysis of the yeast transcriptome with structural and functional categories: characterizing highly expressed proteins [My Copy] Nucl. Acids Res., Vol. 28, No. 6. (15 March 2000), pp. 1481-1488. by Ronald Jansen, Mark Gerstein posted to yeast reviewed protein-structure gene-length gene-expression gene-characteristics cost-minimisation amino-acid-usage by michaelbarton on 2008-03-10 11:02:33 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
	Selection to minimise noise in living systems and its implications for the evolution of gene expression [My Copy] Mol Syst Biol, Vol. 4 (4 March 2008) by Ben Lehner posted to gene-expression noise yeast by michaelbarton on 2008-03-04 17:17:46 as along with 9 people jjray grahamc zwang bootsy biomcgary wilbur caseybrown austin bpcusack

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mdb-thesis	112
yeast	65
amino-acid-usage	50
mdb-manuscript-1	46
gene-expression	38
flux-balance-analysis	34
genome-scale-model	34
evolutionary-rate	29
evolution	25
cost-minimisation	24
codon-usage	23
reviewed	21
ecoli	20
gene-dispensability	20
metabolism	20
srs	17
systems-biology	15
amino-acid-substitution	13
environment	13
gene-characteristics	10
metabolic-control-analysis	10
metagenomics	10
nutrient-limitation	10
translation	10
diauxic-shift	8
genomics	8
gc-content	7
gene-duplication	7
transcription	7
evolutionary-systems-biology	6
phylogenomics	6
srs-resequencing	6
statistics	6
amino-acid-cost	5
atomic-content	5
comparative-genomics	5
fitness	5
gene-length	5
genome-annotation	5
genome-sequencing	5
glycolysis	5
haploinsufficiency	5
mutation	5
prote-evolution	5
srs-assembly	5
translational-selection	5
database	4
energy-production	4
extremophile	4
insertion-deletion	4
proteins	4
sequence-alignment	4
snp	4
thermophile	4
trna	4
cost-benefit-analysis	3
enzyme	3
gene-expression-degradation	3
metabolomics	3
pharmacology	3
phylogeny	3
population-genetics	3
protein-structure	3
sequence-homology	3
trna-copy	3
alignment-concatenation	2
classification	2
clustering	2
data-mining	2
drosophila	2
gene-knockout	2
genetic-code	2
genetic-variation	2
gene-transfer	2
genome-scale-model-construction	2
kinetic-modelling	2
model-fitting	2
moma	2
mrna-degradation	2
multiple-sequence-alignment	2
noise	2
non-synonymous-substitutions	2
proteome	2
regulation	2
software	2
srs-challenges	2
standards	2
suboptimal-solution	2
synonymous-substitutions	2
transcription-factors	2
transcriptome	2
translational-accuracy	2
akaike-information-criterion	1
alignment	1
bibliometrics	1
binding-sites	1
bioruby	1
bloggging	1
blogging	1
buchnera	1
chemicals	1
citation-analysis	1
collaboration	1
density	1
drug	1
endosymbiotic	1
eubacteria	1
functional-constaint	1
functional-constraint	1
gene-prediction	1
genome-annoation	1
genome-duplication	1
hiv	1
insertions-deletions	1
instance-rate-matrix	1
isoenzymes	1
lac-operon	1
lactose	1
linear-optimisation	1
log-likelihood	1
metabolic_efficiency	1
metabolic-engineering	1
metabolite	1
metabolome	1
microarray	1
modelling	1
mrna-stability	1
mrn-degradation	1
multivariate	1
network-analysis	1
non-coding-dna	1
normalisation	1
ontology	1
open-science	1
page-rank	1
paralogs	1
paramter-scanning	1
phenotype-prediction	1
promoters	1
protein-atomic-content	1
protein-degradation	1
protein-production	1
purifying-selection	1
regression	1
research	1
review	1
ribosomal	1
ribosomal-density	1
rna-structure	1
room	1
ruby	1
sequence	1
shadow-prices	1
solexa	1
species-tree	1
srs-deep	1
srs-simulation	1
strain-design	1
structural-constraint	1
sulfur	1
symbiosis	1
tap-tag	1
thermophiles	1
tiling-array	1
trace-metals	1
transcription-network	1
transposable-elements	1
virus	1

michaelbarton's gene-expression [38 articles] Export

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