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jjrays gene_regulation [98 articles]

Neue Publikationen in jjrays Bibliothek eingetragen unter dem Bezeichner: gene_regulation. You can also see everyone's gene_regulation.
  • Intrinsic and extrinsic contributions to stochasticity in gene expression.
    Proc Natl Acad Sci U S A, Vol. 99, No. 20. (1 October 2002), pp. 12795-12800.
    by PS Swain, MB Elowitz, ED Siggia
    posted to stochastic noise mathematical_model gene_regulation gene_expression by jjray on 2008-07-01 18:08:59 as ** along with 5 people JKelly555 madhadron balabu timflutre margaritis
  • Stochastic gene expression in a single cell.
    Science, Vol. 297, No. 5584. (16 August 2002), pp. 1183-1186.
    by MB Elowitz, AJ Levine, ED Siggia, PS Swain
    posted to stochastic noise gene_regulation gene_expression by jjray on 2008-07-01 18:08:23 as ** along with 14 people and 3 groups dylanwalker tvdbulck balicea jiny wilvc madhadron cottrell mmt litam mhucka timflutre margaritis roland_ewald ptupper UWNICU dIEMoSIRIS MoSi-Rostock
  • Intrinsic noise in gene regulatory networks.
    Proc Natl Acad Sci U S A, Vol. 98, No. 15. (17 July 2001), pp. 8614-8619.
    by M Thattai, A van Oudenaarden
    posted to noise network mathematical_model gene_regulation by jjray on 2008-07-01 18:07:54 as ** along with 3 people bayesian timflutre margaritis
  • Comparative analyses of bidirectional promoters in vertebrates.
    BMC bioinformatics, Vol. 9 Suppl 6 (2008)
    by MQ Yang, J Taylor, L Elnitski
    posted to promoter phylogeny gene_regulation evolution chromosome_organization by jjray on 2008-06-30 23:20:37 as ** along with 1 person bootsy
  • Rate constants rather than biochemical mechanism determine behaviour of genetic clocks
    Journal of The Royal Society Interface
    by Emery Conrad, Avraham E Mayo, Alexander J Ninfa, Daniel B Forger
    posted to parameter oscillation mathematical_model kinetics gene_regulation gene_network feedback by jjray on 2008-06-23 20:00:00 as **
  • Signal-dependent Binding of the Response Regulators PhoP and PmrA to Their Target Promoters in Vivo
    J. Biol. Chem., Vol. 280, No. 6. (11 February 2005), pp. 4089-4094.
    by Dongwoo Shin, Eduardo A Groisman
    posted to two-component_system signaling phosphorylation gene_regulation bacteria by jjray on 2008-06-20 20:19:28 as read
  • Integration of External Signaling Pathways with the Core Transcriptional Network in Embryonic Stem Cells
    Cell, Vol. 133, No. 6. (13 June 2008), pp. 1106-1117.
    by Xi Chen, Han Xu, Ping Yuan, Fang Fang, Mikael Huss, Vinsensius B Vega, Eleanor Wong, Yuriy L Orlov, Weiwei Zhang, Jianming Jiang, Yuin-Han Loh, Hock C Yeo, Zhen X Yeo, Vipin Narang, Kunde R Govindarajan, Bernard Leong, Atif Shahab, Yijun Ruan, Guillaume Bourque, Wing-Kin Sung, Neil D Clarke, Chia-Lin Wei, Huck-Hui Ng
    posted to transcriptional_regulation network gene_regulation es_cell by jjray on 2008-06-13 19:29:49 as ** along with 1 person caseybrown
  • The pleiotropic two-component regulatory system PhoP-PhoQ.
    Journal of bacteriology, Vol. 183, No. 6. (March 2001), pp. 1835-1842.
    by EA Groisman
    posted to two-component_system review gene_regulation by jjray on 2008-06-11 18:17:51 as read
  • A Positive Feedback Loop Promotes Transcription Surge That Jump-Starts Salmonella Virulence Circuit
    Science, Vol. 314, No. 5805. (8 December 2006), pp. 1607-1609.
    by Dongwoo Shin, Eun-Jin Lee, Henry Huang, Eduardo A Groisman
    posted to two-component_system gene_regulation gene_expression feedback bacteria by jjray on 2008-05-26 16:27:20 as read
  • Chromatin decouples promoter threshold from dynamic range
    Nature (16 April 2008)
    by Felix H Lam, David J Steger, Erin K O’shea
    posted to threshold_signal promoter gene_regulation dynamic_range dna_binding by jjray on 2008-05-07 21:30:41 as ** along with 1 person emptyhb
  • Co-regulation of metabolic genes is better explained by flux coupling than by network distance.
    PLoS Comput Biol, Vol. 4, No. 1. (January 2008)
    by RA Notebaart, B Teusink, RJ Siezen, B Papp
    posted to saccharomyces_cerevisiae network metabolism gene_regulation gene_order e_coli by jjray on 2008-04-29 23:25:04 as ** along with 1 person maralena
  • Crystal structure of the [lgr] repressor and a model for pairwise cooperative operator binding
    Nature, Vol. 452, No. 7190. (24 April 2008), pp. 1022-1025.
    by Steven Stayrook, Peera Jaru-Ampornpan, Jenny Ni, Ann Hochschild, Mitchell Lewis
    posted to transcription gene_regulation dna_binding cooperativity 3-dimensional_structure by jjray on 2008-04-23 23:37:03 as **
  • Global regulatory logic for specification of an embryonic cell lineage
    Proceedings of the National Academy of Sciences (14 April 2008), 0711220105.
    by Paola Oliveri, Qiang Tu, Eric H Davidson
    posted to gene_network gene_regulation stem_cell by jjray on 2008-04-15 18:25:49 as ** along with 2 people brant Minty
  • Tandem DNA Recognition by PhoB, a Two-Component Signal Transduction Transcriptional Activator
    Structure, Vol. 10, No. 5. (May 2002), pp. 701-713.
    by Alexandre G Blanco, Maria Sola, Xavier F Gomis-Ruth, Miquel Coll
    posted to 3-dimensional_structure dna_binding gene_regulation promoter two-component_system by jjray on 2008-04-02 21:21:22 as **
  • On the specificity of DNA-protein interactions.
    Proc Natl Acad Sci U S A, Vol. 83, No. 6. (March 1986), pp. 1608-1612.
    by PH von Hippel, OG Berg
    posted to dna_binding gene_regulation thermodynamics by jjray on 2008-04-01 20:34:15 as ** along with 3 people and 1 group stsaft cisevol lambda cis-regulatory-evolution
  • PLoS Computational Biology: A Semi-Supervised Method for Predicting Transcription Factor–Gene Interactions in Escherichia coli
    posted to dna_binding gene_regulation transcriptional_regulation by jjray on 2008-04-01 20:32:53 as ** along with 1 person and 1 group nklee Motif Discovery
  • Statistical modeling of transcription factor binding affinities predicts regulatory interactions.
    PLoS Comput Biol, Vol. 4, No. 3. (March 2008)
    by T Manke, HG Roider, M Vingron
    posted to dna_binding gene_regulation statistical_model transcription by jjray on 2008-03-31 21:37:11 as ** along with 2 people eskay maximilianh
  • Transcription and noise in negative feedback loops
    Biosystems, Vol. 91, No. 1. (January 2008), pp. 76-82.
    by JC Nacher, T Ochiai
    posted to feedback gene_regulation noise transcription by jjray on 2008-03-31 18:54:43 as **
  • The OR control system of bacteriophage lambda. A physical-chemical model for gene regulation.
    J Mol Biol, Vol. 181, No. 2. (20 January 1985), pp. 211-230.
    by MA Shea, GK Ackers
    posted to biophysics gene_regulation statistical_mechanics thermodynamics by jjray on 2008-03-31 18:42:35 as ** along with 1 person lambda
  • On the Relationship between Genomic Regulatory Element Organization and Gene Regulatory Dynamics
    Journal of Theoretical Biology, Vol. 195, No. 2. (21 November 1998), pp. 167-186.
    by Denise M Wolf, Frank H Eeckman
    posted to gene_regulation mathematical_model statistical_mechanics thermodynamics by jjray on 2008-03-31 18:33:46 as **
  • Continuous control in bacterial regulatory circuits.
    J Bacteriol, Vol. 186, No. 22. (November 2004), pp. 7618-7625.
    by E Batchelor, TJ Silhavy, M Goulian
    posted to bacteria feedback gene_regulation by jjray on 2008-03-28 17:15:33 as **
  • Robust control in bacterial regulatory circuits.
    Curr Opin Microbiol, Vol. 7, No. 2. (April 2004), pp. 198-202.
    by M Goulian
    posted to feedback feedforward gene_regulation review robustness by jjray on 2008-03-28 17:12:37 as ** along with 2 people rklancer monod
  • The TorR high-affinity binding site plays a key role in both torR autoregulation and torCAD operon expression in Escherichia coli.
    J Bacteriol, Vol. 182, No. 4. (February 2000), pp. 961-966.
    by M Ansaldi, G Simon, M Lepelletier, V Méjean
    posted to e_coli gene_regulation tor two-component_system by jjray on 2008-03-27 21:03:43 as **
  • Binding of the TorR regulator to cis-acting direct repeats activates tor operon expression.
    Mol Microbiol, Vol. 17, No. 5. (September 1995), pp. 971-980.
    by G Simon, C Jourlin, M Ansaldi, MC Pascal, M Chippaux, V Méjean
    posted to e_coli gene_regulation tor two-component_system by jjray on 2008-03-27 21:03:28 as **
  • Anticipating an alkaline stress through the Tor phosphorelay system in Escherichia coli.
    Mol Microbiol, Vol. 48, No. 1. (April 2003), pp. 211-223.
    by C Bordi, L Théraulaz, V Méjean, C Jourlin-Castelli
    posted to e_coli gene_regulation tor two-component_system by jjray on 2008-03-27 20:53:18 as **
  • An unsuspected autoregulatory pathway involving apocytochrome TorC and sensor TorS in Escherichia coli.
    Proc Natl Acad Sci U S A, Vol. 98, No. 20. (25 September 2001), pp. 11615-11620.
    by S Gon, C Jourlin-Castelli, L Théraulaz, V Méjean
    posted to e_coli gene_regulation tor two-component_system by jjray on 2008-03-27 20:53:06 as **
  • Rapid Dephosphorylation of the TorR Response Regulator by the TorS Unorthodox Sensor in Escherichia coli
    J. Bacteriol., Vol. 183, No. 8. (15 April 2001), pp. 2691-2695.
    by Mireille Ansaldi, Cecile Jourlin-Castelli, Michele Lepelletier, Laurence Theraulaz, Vincent Mejean
    posted to e_coli gene_regulation tor two-component_system by jjray on 2008-03-27 20:52:42 as **
  • Stimulus-dependent differential regulation in the Escherichia coli PhoQ PhoP system
    Proceedings of the National Academy of Sciences, Vol. 104, No. 41. (9 October 2007), pp. 16305-16310.
    by Tim Miyashiro, Mark Goulian
    posted to e_coli gene_expression gene_regulation transcriptional_regulation two-component_system by jjray on 2008-03-26 22:00:05 as read
  • Identification of a novel regulatory protein (CsrD) that targets the global regulatory RNAs CsrB and CsrC for degradation by RNase E.
    Genes Dev, Vol. 20, No. 18. (15 September 2006), pp. 2605-2617.
    by K Suzuki, P Babitzke, SR Kushner, T Romeo
    posted to csra gene_order gene_regulation metabolism two-component_system by jjray on 2008-02-08 17:08:03 as ** along with 2 people dbikard martainn
  • Identification of UvrY as the cognate response regulator for the BarA sensor kinase in Escherichia coli.
    J Biol Chem, Vol. 276, No. 1. (5 January 2001), pp. 225-231.
    by AK Pernestig, O Melefors, D Georgellis
    posted to bara csra gene_order gene_regulation metabolism two-component_system by jjray on 2008-02-08 16:23:34 as read
  • pH-dependent activation of the BarA-UvrY two-component system in Escherichia coli.
    J Bacteriol, Vol. 188, No. 23. (December 2006), pp. 8303-8306.
    by V Mondragón, B Franco, K Jonas, K Suzuki, T Romeo, O Melefors, D Georgellis
    posted to bara csra gene_order gene_regulation metabolism two-component_system by jjray on 2008-02-08 16:22:00 as read
  • Identification of YhdA as a regulator of the Escherichia coli carbon storage regulation system.
    FEMS Microbiol Lett, Vol. 264, No. 2. (November 2006), pp. 232-237.
    by K Jonas, H Tomenius, U Römling, D Georgellis, O Melefors
    posted to bara csra gene_order gene_regulation metabolism two-component_system by jjray on 2008-02-08 16:21:35 as read
  • The Escherichia coli BarA-UvrY two-component system is needed for efficient switching between glycolytic and gluconeogenic carbon sources.
    J Bacteriol, Vol. 185, No. 3. (February 2003), pp. 843-853.
    by AK Pernestig, D Georgellis, T Romeo, K Suzuki, H Tomenius, S Normark, O Melefors
    posted to bara csra gene_order gene_regulation metabolism two-component_system by jjray on 2008-02-04 21:04:04 as read
  • Regulatory circuitry of the CsrA/CsrB and BarA/UvrY systems of Escherichia coli.
    J Bacteriol, Vol. 184, No. 18. (September 2002), pp. 5130-5140.
    by K Suzuki, X Wang, T Weilbacher, AK Pernestig, O Melefors, D Georgellis, P Babitzke, T Romeo
    posted to bara csra e_coli gene_order gene_regulation metabolism two-component_system by jjray on 2008-02-04 21:03:30 as read
  • Design of gene circuits: lessons from bacteria.
    Nat Rev Genet, Vol. 5, No. 1. (January 2004), pp. 34-42.
    by ME Wall, WS Hlavacek, MA Savageau
    posted to bacteria design_principles feedback gene_order gene_regulation review by jjray on 2008-01-30 15:15:54 as ** along with 4 people and 2 groups rklancer icases monod dbikard TNT SynBioSys
  • Regulated degradation is a mechanism for suppressing stochastic fluctuations in gene regulatory networks.
    Biophys J, Vol. 90, No. 10. (15 May 2006), pp. 3749-3761.
    by H El-Samad, M Khammash
    posted to degradation gene_order gene_regulation stochastic by jjray on 2008-01-29 21:19:16 as ** along with 1 person and 1 group dbikard SynBioSys
  • Selection of DNA binding sites by regulatory proteins. Statistical-mechanical theory and application to operators and promoters.
    J Mol Biol, Vol. 193, No. 4. (20 February 1987), pp. 723-750.
    by OG Berg, PH von Hippel
    posted to dna_binding gene_regulation statistical_mechanics by jjray on 2008-01-24 16:06:24 as ** along with 7 people and 2 groups zambujo brant indigoviolet lusk discreteonyxorb cisevol Ema EisenLab cis-regulatory-evolution
  • Robust filtering circuit design for stochastic gene networks under intrinsic and extrinsic molecular noises
    Mathematical Biosciences, Vol. 211, No. 2. (February 2008), pp. 342-355.
    by Bor-Sen Chen, Wei-Sheng Wu
    posted to gene_regulation noise robustness stochastic synthetic_biology by jjray on 2008-01-24 15:41:12 as ** along with 1 person austin
  • Gata2, Fli1, and Scl form a recursively wired gene-regulatory circuit during early hematopoietic development.
    Proc Natl Acad Sci U S A (25 October 2007)
    by John E E Pimanda, Katrin Ottersbach, Kathy Knezevic, Sarah Kinston, Wan Y I Y Chan, Nicola K K Wilson, Josette-Renée R Landry, Andrew D D Wood, Anja Kolb-Kokocinski, Anthony R R Green, David Tannahill, Georges Lacaud, Valerie Kouskoff, Berthold Göttgens
    posted to development gene_regulation stem_cell transcription triad by jjray on 2008-01-16 16:57:07 as read along with 2 people maximilianh idonaldson
  • An excitable gene regulatory circuit induces transient cellular differentiation
    Nature, Vol. 440, No. 7083., pp. 545-550.
    by Gã¼rol M Sã¼el, Jordi Garcia-Ojalvo, Louisa M Liberman, Michael B Elowitz
    posted to bacillus_subtilis competence gene_regulation noise stochastic by jjray on 2008-01-15 20:14:01 as ** along with 10 people and 1 group rklancer alexg madhadron balabu nickluscombe comb dbikard mhucka margaritis paurue EBI-regulation
  • Cost–benefit theory and optimal design of gene regulation functions
    Phys. Biol., Vol. 4, No. 4. (December 2007), 229.
    by Tomer Kalisky, Erez Dekel, Uri Alon
    posted to cost-benefit gene_regulation mathematical_model theory by jjray on 2008-01-15 19:40:58 as ** along with 2 people and 1 group dbikard Pascalichouchou SynBioSys
  • Gene regulation: Stochastic and deterministic effects in gene regulation
    Heredity, Vol. aop, No. current.
    by JR Edwards, TH Bestor
    posted to deterministic gene_regulation stochastic by jjray on 2008-01-10 16:59:50 as **
  • Bacillus subtilis sporulation and stationary phase gene expression
    Cellular and Molecular Life Sciences (CMLS), Vol. 59, No. 3. (6 March 2002), pp. 392-402.
    by ZEV Phillips, MA Strauch
    posted to bacillus_subtilis gene_expression gene_regulation review spooa by jjray on 2008-01-02 21:43:46 as **
  • Structure and function of the feed-forward loop network motif.
    Proc Natl Acad Sci U S A, Vol. 100, No. 21. (14 October 2003), pp. 11980-11985.
    by S Mangan, U Alon
    posted to design_principles feedforward gene_regulation motif_compositions by jjray on 2007-10-28 21:57:50 as ** along with 11 people and 3 groups marck camster rklancer korakot zqshen jstajic alexg balicea ddahlem jtaylor gcalda Philosophy_of_Information dbk-lab Blog_and_Wiki_Research
  • Transcription of individual genes in eukaryotic cells occurs randomly and infrequently.
    Immunol Cell Biol, Vol. 72, No. 2. (April 1994), pp. 177-185.
    by IL Ross, CM Browne, DA Hume
    posted to gene_regulation macrophage stochastic transcription by jjray on 2007-10-28 19:51:52 as read
  • Stochastic cooperativity in non-linear dynamics of genetic regulatory networks
    Mathematical Biosciences, Vol. 210, No. 1. (November 2007), pp. 121-142.
    by Simon Rosenfeld
    posted to biochemical_systems_theory biophysics gene_regulation mathematical_model s-system stochastic by jjray on 2007-10-26 22:17:00 as **
  • How gene order is influenced by the biophysics of transcription regulation
    PNAS (20 August 2007), 0700672104.
    by Grigory Kolesov, Zeba Wunderlich, Olga N Laikova, Mikhail S Gelfand, Leonid A Mirny
    posted to biophysics gene_order gene_regulation mathematical_model transcription by jjray on 2007-08-21 15:24:30 as *** along with 6 people madhadron margaritis zwang Jporci maximilianh lambda
  • Gene regulation at the single-cell level
    Science, Vol. 307, No. 5717. (Mar 2005), pp. 1962-5.
    by Nitzan Rosenfeld, Jonathan W Young, Uri Alon, Peter S Swain, Michael B Elowitz
    posted to gene_expression gene_regulation single_cell stochastic by jjray on 2007-08-19 20:47:02 as *** along with 1 person and 1 group macowell BUiGEM
  • Alternative sigma factors and their roles in bacterial virulence.
    Microbiol Mol Biol Rev, Vol. 69, No. 4. (December 2005), pp. 527-543.
    by MJ Kazmierczak, M Wiedmann, KJ Boor
    posted to bacteria gene_regulation global_regulator network network_motifs review sigma_factor by jjray on 2007-08-09 21:18:11 as read along with 2 people shana gcarbajosa
  • Genetic Properties Influencing the Evolvability of Gene Expression.
    Science (24 May 2007)
    by Christian R R Landry, Bernardo Lemos, Scott A A Rifkin, W J J Dickinson, Daniel L L Hartl
    posted to evolution evolvability gene_expression gene_regulation stochastic by jjray on 2007-07-18 21:04:29 as *** along with 9 people and 3 groups brant balicea sebastien_vigneau grahamc emarker heliopais cisevol caseybrown emptyhb EisenLab ParkinsonLab_at_MaRS cis-regulatory-evolution
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