Tag e_coli [at least 200 articles] Export

Recent papers classified by the tag e_coli.

	Genome-scale in silico models of E. coli have multiple equivalent phenotypic states: assessment of correlated reaction subsets that comprise network states. [My Copy] Genome Res, Vol. 14, No. 9. (September 2004), pp. 1797-1805. by J. L. Reed, B. Ø. Palsson posted to variability_analysis regulatory_networks network_states fba expression_data environmental_conditions e_coli by JeremyZucker on 2009-11-25 00:01:26 as along with 4 people yujiangwang comb lylu michaelbarton
	Transcriptional polarity enhances the contribution of the internal promoter, ilvEp, in the expression of the ilvGMEDA operon in wild-type Escherichia coli K12. [My Copy] Molecular microbiology, Vol. 3, No. 8. (August 1989), pp. 1039-1051. by J. M. Lopes, N. Soliman, P. K. Smith, R. P. Lawther posted to salmonella polarity gene_expression e_coli bacteria by jjray on 2009-11-23 20:45:10 as
	Patterns of polarity in the Escherichia coli car AB gene cluster. [My Copy] Journal of bacteriology, Vol. 143, No. 2. (August 1980), pp. 914-920. by D. Gigot, M. Crabeel, A. Feller, et al.D. Charlier, W. Lissens, N. Glansdorff, A. Piérard posted to polarity phage gene_expression e_coli bacteria by jjray on 2009-11-23 20:40:38 as
	Mu-induced polarity in the unc operon of Escherichia coli. [My Copy] Journal of bacteriology, Vol. 134, No. 3. (June 1978), pp. 728-736. by F. Gibson, J. A. Downie, G. B. Cox, J. Radik posted to polarity phage gene_expression e_coli bacteria by jjray on 2009-11-23 20:40:24 as
	Mu-induced polarity in the Escherichia coli K-12 ent gene cluster: evidence for a gene (entG) involved in the biosynthesis of enterochelin. [My Copy] J. Bacteriol., Vol. 124, No. 1. (1 October 1975), pp. 1-6. by G. C. Woodrow, I. G. Young, F. Gibson posted to polarity phage gene_expression e_coli bacteria by jjray on 2009-11-23 20:24:44 as
	Polarity effect on Φ80 late gene expression caused by insertion of su+3-transducing fragment [My Copy] Molecular and General Genetics MGG, Vol. 155, No. 2. (1 January 1977), pp. 139-143. by Akira Murakami, Hachiro Inokuchi, Haruo Ozeki, Hideo Yamagishi posted to polarity phage gene_expression e_coli bacteria by jjray on 2009-11-23 20:23:10 as
	Characterization of a new <i>rho</i> mutation that relieves polarity of Mu insertions [My Copy] Molecular Microbiology, Vol. 17, No. 2. (1995), pp. 231-240. by Joseph E. Peters, Spencer A. Benson posted to polarity phage gene_expression e_coli bacteria by jjray on 2009-11-23 20:18:07 as
	RNA degradation in Escherichia coli regulated by 3' adenylation and 5' phosphorylation [My Copy] Nature, Vol. 374, No. 6518. (09 March 1995), pp. 180-183. by Fengfeng Xu, Stanley Cohen, N. posted to stability mrna e_coli degradation bacteria by jjray on 2009-11-19 22:03:07 as
	Differential mRNA stability controls relative gene expression within a polycistronic operon [My Copy] Cell, Vol. 51, No. 6. (24 December 1987), pp. 1131-1143. by S. F. Newbury, N. H. Smith, C. F. Higgins posted to stability operon mrna gene_expression e_coli bacteria by jjray on 2009-11-19 20:40:55 as
	Evidence against the physiological role of acetyl phosphate in the phosphorylation of the ArcA response regulator in Escherichia coli. [My Copy] Journal of microbiology (Seoul, Korea), Vol. 47, No. 5. (1 October 2009), pp. 657-662. by Xueqiao Liu, Gabriela R. Peña Sandoval, Barry L. Wanner, Won Seok S. Jung, Dimitris Georgellis, Ohsuk Kwon posted to two-component_system phosphorylation e_coli bacteria by jjray on 2009-11-19 18:15:43 as
	Regulation of ompA mRNA stability: the role of a small regulatory RNA in growth phase-dependent control. [My Copy] Molecular microbiology, Vol. 58, No. 5. (December 2005), pp. 1421-1429. by Anders Aamann A. Rasmussen, Maiken Eriksen, Kambiz Gilany, et al.Christina Udesen, Thomas Franch, Carsten Petersen, Poul Valentin-Hansen posted to stability mrna e_coli degradation bacteria by jjray on 2009-11-19 18:14:28 as
	The majority of Escherichia coli mRNAs undergo post-transcriptional modification in exponentially growing cells. [My Copy] Nucleic acids research, Vol. 34, No. 19. (November 2006), pp. 5695-5704. by Bijoy K. Mohanty, Sidney R. Kushner posted to stability mrna e_coli degradation bacteria by jjray on 2009-11-19 18:14:12 as
	Phenotype microarray analysis of Escherichia coli K-12 mutants with deletions of all two-component systems. [My Copy] Journal of bacteriology, Vol. 185, No. 16. (August 2003), pp. 4956-4972. by Lu Zhou, Xiang-He H. Lei, Barry R. Bochner, Barry L. Wanner posted to two-component_system phenotype e_coli bacteria by jjray on 2009-11-19 18:13:45 as
	The Sm-like protein Hfq regulates polyadenylation dependent mRNA decay in Escherichia coli. [My Copy] Molecular microbiology, Vol. 54, No. 4. (November 2004), pp. 905-920. by Bijoy K. Mohanty, Valerie F. Maples, Sidney R. Kushner posted to stability mrna e_coli degradation bacteria by jjray on 2009-11-19 18:13:15 as
	Global analysis of Escherichia coli RNA degradosome function using DNA microarrays. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 101, No. 9. (2 March 2004), pp. 2758-2763. by Jonathan A. Bernstein, Pei-Hsun H. Lin, Stanley N. Cohen, Sue Lin-Chao posted to stability mrna e_coli degradation bacteria by jjray on 2009-11-19 18:12:47 as
	Genomic analysis of mRNA decay in E. coli with DNA microarrays. [My Copy] Methods in enzymology, Vol. 447 (2008), pp. 47-64. by Pei-Hsun H. Lin, Dharam Singh, Jonathan A. Bernstein, Sue Lin-Chao posted to stability mrna e_coli degradation bacteria by jjray on 2009-11-19 18:11:44 as
	RNase E-based ribonucleoprotein complexes: mechanical basis of mRNA destabilization mediated by bacterial noncoding RNAs. [My Copy] Genes & development, Vol. 19, No. 18. (15 September 2005), pp. 2176-2186. by Teppei Morita, Kimika Maki, Hiroji Aiba posted to stability rnase mrna e_coli bacteria by jjray on 2009-11-19 18:11:11 as along with 2 people sglandt martainn
	Growth-rate dependent regulation of mRNA stability in Escherichia coli. [My Copy] Nature, Vol. 312, No. 5989. (7 1984), pp. 75-77. by G. Nilsson, J. G. Belasco, S. N. Cohen, A. von Gabain posted to stability mrna growth_rate e_coli bacteria by jjray on 2009-11-19 18:10:08 as
	The multi-step phosphorelay mechanism of unorthodox two-component systems in E. coli realizes ultrasensitivity to stimuli while maintaining robustness to noises. [My Copy] Computational biology and chemistry, Vol. 30, No. 6. (December 2006), pp. 438-444. by Jeong-Rae R. Kim, Kwang-Hyun H. Cho posted to two-component_system simulation sensitivity robustness phosphorylation noise mathematical_model e_coli bacteria by jjray on 2009-11-19 18:06:21 as
	Global analysis of mRNA decay and abundance in Escherichia coli at single-gene resolution using two-color fluorescent DNA microarrays [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 99, No. 15. (23 July 2002), pp. 9697-9702. by Jonathan A. Bernstein, Arkady B. Khodursky, Pei-Hsun Lin, Sue Lin-Chao, Stanley N. Cohen posted to stability mrna e_coli degradation bacteria by jjray on 2009-11-19 17:41:29 as along with 4 people athma bjorns balajis madhadron
	Structure of deviations from optimality in biological systems [My Copy] Proceedings of the National Academy of Sciences (16 November 2009) by Alfonso PÃ©rez-Escudero, Marta Rivera-Alba, Gonzalo G. de Polavieja posted to optimization metabolism evolution e_coli bacteria by jjray on 2009-11-17 16:55:23 as
	Genome evolution and adaptation in a long-term experiment with Escherichia coli. [My Copy] Nature, Vol. 461, No. 7268. (29 October 2009), pp. 1243-1247. by Jeffrey E. Barrick, Dong Su S. Yu, Sung Ho H. Yoon, et al.Haeyoung Jeong, Tae Kwang K. Oh, Dominique Schneider, Richard E. Lenski, Jihyun F. Kim posted to neutral_mutation mutation_rate mutation_accumulation genome evolution_rate e_coli adaptation by biomcgary on 2009-11-13 21:22:52 as along with 31 people and 5 groups pmalkus dokky samubernard ilyashl kintoki zwang jasontsai aaltenburger sawasthi nurban josepe tjandra venancio maren qayub Garamonfok yyfwuhan Asclepius dbikard nzm jjray djkt treangen lp2 codonusage operon diamantis michaelbarton druvus DrRichardBadge richardfranzese ronbun_2009au Pedro Martinez EvoDevo lab Barcelona iSEEM Journal picks BergmanLab
	Overexpression of the LexA-regulated tisAB RNA in E. coli inhibits SOS functions; implications for regulation of the SOS response [My Copy] Nucl. Acids Res., Vol. 36, No. 19. (1 November 2008), pp. 6249-6259. by Ragnhild Weel-Sneve, Magnar Bjoras, Knut I. Kristiansen posted to uv_sensitivity sos_response reca lexa e_coli by Asclepius on 2009-11-11 19:35:48 as
	Transcription, Translation, and the Evolution of Specialists and Generalists [My Copy] Mol Biol Evol, Vol. 26, No. 12. (1 December 2009), pp. 2661-2678. by Shaobin Zhong, Stephen P. Miller, Daniel E. Dykhuizen, Antony M. Dean posted to translation transcription stress_response gene_expression evolution e_coli bacteria by jjray on 2009-11-10 16:14:56 as
	The transcription unit architecture of the Escherichia coli genome. [My Copy] Nature biotechnology, Vol. 27, No. 11. (01 November 2009), pp. 1043-1049. by Byung-Kwan K. Cho, Karsten Zengler, Yu Qiu, et al.Young Seoub S. Park, Eric M. Knight, Christian L. Barrett, Yuan Gao, Bernhard Ø. Palsson posted to transcription mrna genome gene_regulation e_coli dna_binding chromosome_organization bacteria by jjray on 2009-11-09 03:49:20 as along with 5 people karthikraman venancio JeremyZucker dbikard rsaito
	Compensatory Evolution of Gene Regulation in Response to Stress by Escherichia coli Lacking RpoS [My Copy] PLoS Genet, Vol. 5, No. 10. (2 October 2009), e1000671. by Daniel M. Stoebel, Karsten Hokamp, Michael S. Last, Charles J. Dorman posted to stress_response sigma_factor evolution e_coli bacteria by jjray on 2009-11-03 23:33:51 as
	Invariant Distribution of Promoter Activities in Escherichia coli [My Copy] PLoS Comput Biol, Vol. 5, No. 10. (23 October 2009), e1000545. by Alon Zaslaver, Shai Kaplan, Anat Bren, et al.Adrian Jinich, Avi Mayo, Erez Dekel, Uri Alon, Shalev Itzkovitz posted to promoter gene_expression e_coli distribution bacteria by jjray on 2009-11-03 23:28:45 as along with 1 person dbikard
	The Modular Organization of Protein Interactions in Escherichia coli [My Copy] PLoS Comput Biol, Vol. 5, No. 10. (2 October 2009), e1000523. by José M. Peregrín-Alvarez, Xuejian Xiong, Chong Su, John Parkinson posted to protein_complex protein-protein_interaction network_evolution module modularity e_coli by biomcgary on 2009-10-13 22:47:39 as along with 6 people and 2 groups venancio CorinYeats grahamc kiekyon poirel dswan Orengo Group Journal Picks Bioinformatics
	Optimal cytoplasmatic density and flux balance model under macromolecular crowding effects [My Copy] (11 Oct 2009) by Alexei Vazquez posted to optimization metabolism e_coli diffusion cytoplasm bacteria by jjray on 2009-10-13 16:45:07 as along with 1 person apocapoc
	Induction Kinetics of a Conditional pH Stress Response System in Escherichia coli [My Copy] Journal of Molecular Biology (21 August 2009) by Georg Fritz, Christiane Koller, Korinna Burdack, et al.Larissa Tetsch, Ina Haneburger, Kirsten Jung, Ulrich Gerland posted to stress_response quantitative_data mathematical_model kinetics gene_expression e_coli bacteria by jjray on 2009-10-01 15:34:58 as
	Global Analysis of Extracytoplasmic Stress Signaling in Escherichia coli [My Copy] PLoS Genet, Vol. 5, No. 9. (18 September 2009), e1000651. by Stéphanie Bury-Moné, Yanoura Nomane, Nancie Reymond, et al.Romain Barbet, Eric Jacquet, Sandrine Imbeaud, Annick Jacq, Philippe Bouloc posted to stress_response signaling e_coli bacteria by jjray on 2009-09-26 23:21:21 as
	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 synthetic_biology gene_expression e_coli bacteria by jjray to the group Synthetic Biology on 2009-09-26 15:41:38 as along with 6 people dbikard RasmusJensen pala0088 Vincent_Rouilly michaelbarton bmduggan
	Network motifs in the transcriptional regulation network of Escherichia coli. [My Copy] Nature genetics, Vol. 31, No. 1. (22 May 2002), pp. 64-68. by Shai S. Shen-Orr, Ron Milo, Shmoolik Mangan, Uri Alon posted to network_motifs genetic gene_regulation e_coli biology by vtraag on 2009-09-25 13:02:22 as along with 19 people and 1 group antonkratz sergiun mtagaya kaarsinogen cswinburne jstajic jjray ssb nickluscombe gurkanbebek jtaylor jayster4 karfunkel blobbybirdman zibuyu maralena hannahrajasingh Borelli ethkim EBI-regulation
	Systematic identification and sequence analysis of the genomic islands of the enteropathogenic Escherichia coli strain B171-8 by the combined use of whole-genome PCR scanning and fosmid mapping. [My Copy] Journal of bacteriology, Vol. 190, No. 21. (November 2008), pp. 6948-6960. by Yoshitoshi Ogura, Hiroyuki Abe, Keisuke Katsura, et al.Ken Kurokawa, Md Asadulghani, Atsushi Iguchi, Tadasuke Ooka, Keisuke Nakayama, Atsushi Yamashita, Masahira Hattori, Toru Tobe, Tetsuya Hayashi posted to e_coli by jewel6621 on 2009-09-23 05:44:39 as
	Correlation between gene expression profiles and protein-protein interactions within and across genomes [My Copy] Bioinformatics, Vol. 21, No. 11. (1 June 2005), pp. 2730-2738. by Nitin Bhardwaj, Hui Lu posted to yeast protein_interactions gene_expression e_coli by jjray on 2009-09-10 19:44:28 as along with 2 people and 1 group jperkins lfriedl kdl
	Genomic transcriptional response to loss of chromosomal supercoiling in Escherichia coli [My Copy] Genome Biology, Vol. 5, No. 11. (2004), R87. by Brian Peter, Javier Arsuaga, Adam Breier, Arkady Khodursky, Patrick Brown, Nicholas Cozzarelli posted to transcription supercoiling gene_expression e_coli bacteria by jjray on 2009-09-10 17:07:30 as along with 2 people comb supercoiling
	Metabolic engineering of Escherichia coli for the production of putrescine, a four carbon diamine [My Copy] Biotechnology and Bioengineering (2009), pp. n/a-n/a. by Zhi-Gang Qian, Xiao-Xia Xia, Sang Y. Lee posted to synthetic_biology gmos e_coli by chriswillmott on 2009-09-03 15:26:06 as
	Recombination Speeds Adaptation by Reducing Competition between Beneficial Mutations in Populations of Escherichia coli [My Copy] PLoS Biol, Vol. 5, No. 9. (21 August 2007), e225. by Tim F. Cooper posted to recombination population_genetics evolution e_coli bacteria by jjray on 2009-08-31 18:42:53 as along with 1 person yuhc
	Autogenous and nonautogenous control of response in a genetic network [My Copy] Proceedings of the National Academy of Sciences, Vol. 103, No. 34. (22 August 2006), pp. 12718-12723. by Francisco M. Camas, Jesús Blázquez, Juan F. Poyatos posted to sos response_time gene_regulation feedback e_coli bacteria by jjray on 2009-08-29 06:21:22 as along with 1 person aalibes
	Genome-scale thermodynamic analysis of Escherichia coli metabolism. [My Copy] Biophysical journal, Vol. 90, No. 4. (15 February 2006), pp. 1453-1461. by Christopher S. Henry, Matthew D. Jankowski, Linda J. Broadbelt, Vassily Hatzimanikatis posted to thermodynamic stoichiometry flux fba e_coli by winterstream on 2009-08-24 13:19:36 as along with 4 people schwartzjmc csanford lylu JeremyZucker
	A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information. [My Copy] Molecular systems biology, Vol. 3 (26 June 2007) by Adam M. Feist, Christopher S. Henry, Jennifer L. Reed, et al.Markus Krummenacker, Andrew R. Joyce, Peter D. Karp, Linda J. Broadbelt, Vassily Hatzimanikatis, Bernhard Ø. Palsson posted to thermodynamic stoichiometry in_silico flux fba e_coli by winterstream on 2009-08-24 13:18:08 as along with 7 people aheilbut schwartzjmc alexg cjeans hryk michaelbarton JeremyZucker
	Genome-scale gene/reaction essentiality and synthetic lethality analysis [My Copy] Molecular Systems Biology, Vol. 5 (18 August 2009) by Patrick F. Suthers, Alireza Zomorrodi, Costas D. Maranas posted to systems_biology synthetic_rescue synthetic_lethal network metabolism flux_balance essentiality_conditional essentiality e_coli by biomcgary on 2009-08-18 22:57:41 as along with 2 people and 1 group robertrentzsch pinney Orengo Group Journal Picks
	Role of Translational Coupling in Robustness of Bacterial Chemotaxis Pathway [My Copy] PLoS Biol, Vol. 7, No. 8. (18 August 2009), e1000171. by Linda Løvdok, Kajetan Bentele, Nikita Vladimirov, et al.Anette Müller, Ferencz S. Pop, Dirk Lebiedz, Markus Kollmann, Victor Sourjik posted to systems_biology stochastic_variation signalling_cascade selection_positive robustness protein_translation pathway noise e_coli chemotaxis bacteria by biomcgary on 2009-08-18 20:18:21 as along with 2 people vladimirov jjray
	On the accessibility of adaptive phenotypes of a bacterial metabolic network [My Copy] (14 Aug 2009) by Wilfred Ndifon, Joshua B. Plotkin, Jonathan Dushoff posted to simulation network metabolism evolutionary_dynamics evolution e_coli bacteria adaptation by jjray on 2009-08-17 17:45:02 as along with 1 person apocapoc
	Programming cells by multiplex genome engineering and accelerated evolution [My Copy] Nature, Vol. 460, No. 7257. (26 July 2009), pp. 894-898. by Harris H. Wang, Farren J. Isaacs, Peter A. Carr, et al.Zachary Z. Sun, George Xu, Craig R. Forest, George M. Church posted to systems_engineering systems_biology synthetic_biology protein_engineering mutation metabolism homologous_recombination genome evolution e_coli directional_selection designed_mutations cellular_reprogramming by biomcgary on 2009-08-12 21:38:51 as along with 13 people and 2 groups abhishek_tiwari TorstenWaldminghaus jdoconnell dswan Annab badi druvus dayjm pkonings zwang phoenixzxl djkt dbikard Journal picks Synthetic Biology
	Relation of Intracellular Signal Levels and Promoter Activities in the gal Regulon of Escherichia coli [My Copy] Journal of Molecular Biology (23 June 2009) by Sandeep Krishna, László Orosz, Kim Sneppen, Sankar Adhya, Szabolcs Semsey posted to bacteria e_coli gene_regulation mathematical_model metabolism operon signaling by jjray on 2009-08-10 17:36:51 as
	Stabilized gene duplication enables long-term selection-free heterologous pathway expression [My Copy] Nat Biotech, Vol. 27, No. 8. (August 2009), pp. 760-765. by Keith E. J. Tyo, Parayil K. Ajikumar, Gregory Stephanopoulos posted to e_coli gene_duplication homologous_recombination selection systems_engineering by biomcgary on 2009-08-07 17:36:03 as along with 1 person abhishek_tiwari
	Horizontal gene transfer and the evolution of transcriptional regulation in Escherichia coli [My Copy] Genome Biology, Vol. 9, No. 1. (07 January 2008), R4. by Morgan Price, Paramvir Dehal, Adam Arkin posted to convergent_evolution e_coli gene_duplication horizontal_gene_transfer operon parallel_evolution paralog transcription_factor transcription_factor_binding_site by biomcgary on 2009-08-03 21:49:27 as along with 1 person erel10
	Dynamic Flux Balance Analysis of Diauxic Growth in Escherichia coli [My Copy] Biophysical Journal, Vol. 83, No. 3. (September 2002), pp. 1331-1340. by R. Mahadevan, J. Edwards, F. Doyleiii posted to balance dynamics e_coli fba flux growth in_silico network networks stoichiometry by winterstream on 2009-07-28 15:13:54 as along with 1 person yujiangwang
	Metabolic flux balance analysis and the in silico analysis of Escherichia coli K-12 gene deletions [My Copy] BMC Bioinformatics, Vol. 1, No. 1. (2000), pp. 1-1. by Jeremy S. Edwards, Bernhard O. Palsson posted to balance e_coli fba flux graph growth metabolic network networks by winterstream on 2009-07-23 20:12:49 as along with 2 people and 2 groups icases raiyar steinmetzlab TNT

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bacteria	120
two-component_system	42
gene_regulation	32
signaling	29
evolution	24
gene_expression	19
metabolism	17
network	16
mrna	14
transcription	14
feedback	13
mathematical_model	13
dna_binding	11
stability	11
bara	10
stochastic	10
transcription_factor	10
adaptation	8
genome	8
phopq	8
phosphorylation	8
synthetic_biology	8
campylobacter_jejuni	7
chemotaxis	7
csra	7
degradation	7
enterotoxin	7
bacterial_infections	6
electrostatics	6
fba	6
polarity	6
probiotics	6
stress_response	6
transcriptional_regulation	6
atp	5
crosstalk	5
flux	5
noise	5
operon	5
phage	5
systems_approach	5
tor	5
biophysics	4
ibd	4
mutation	4
network_motifs	4
promoter	4
protein-dna_interaction	4
quantitative_data	4
review	4
robustness	4
sigma_factor	4
stoichiometry	4
systems_biology	4
biochemistry	3
biofilm	3
chromosome_organization	3
dna	3
feedforward	3
gene_order	3
growth	3
kinetics	3
metabolic	3
persister	3
phenotypic_heterogeneity	3
positive_feedback	3
receptor	3
simulation	3
thermodynamics	3
translation	3
yeast	3
bacillus_subtilis	2
balance	2
bistability	2
demand_theory	2
dna_looping	2
evolutionary_dynamics	2
gene_duplication	2
gillespie_algorithm	2
glt-1	2
growth_rate	2
hela	2
homologous_recombination	2
in_silico	2
microarray	2
modularity	2
networks	2
optimization	2
palsson	2
phobr	2
population_genetics	2
protein_binding	2
salmonella	2
selection	2
sos	2
supercoiling	2
systems_engineering	2
thermodynamic	2
tk2420	2
transcriptional_regulatory_complex	2

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