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jjray's stochastic [67 articles]

当前文献位于 jjray's 文献库 标签分类为 stochastic. You can also see everyone's stochastic.
  • 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
  • The mean and noise of stochastic gene transcription
    Journal of Theoretical Biology, Vol. 253, No. 2. (21 July 2008), pp. 271-280.
    by Moxun Tang
    posted to transcription stochastic noise mathematical_model gene_expression by jjray on 2008-06-30 16:19:47 as ** along with 1 person balicea
  • Stochastic coherence in an oscillatory gene circuit model
    Journal of Theoretical Biology, Vol. 253, No. 2. (21 July 2008), pp. 349-354.
    by Robert C Hilborn, Jessie D Erwin
    posted to stochastic oscillation noise feedback adiabatic_elimination by jjray on 2008-06-30 16:13:24 as ** along with 1 person balicea
  • Systematic adiabatic elimination for stochastic processes
    Zeitschrift für Physik B Condensed Matter, Vol. 48, No. 1. (1982), pp. 31-35.
    by Fritz Haake
    posted to stochastic brownian_motion adiabatic_elimination by jjray on 2008-06-30 16:11:29 as **
  • Efficient attenuation of stochasticity in gene expression through post-transcriptional control.
    J Mol Biol, Vol. 344, No. 4. (3 December 2004), pp. 965-976.
    by PS Swain
    posted to stochastic noise mathematical_model gene_expression by jjray on 2008-06-25 15:27:57 as ** along with 3 people and 1 group cudmore Jporci kfm9876 APprecision
  • Engineering stochasticity in gene expression.
    Molecular bioSystems, Vol. 4, No. 7. (July 2008), pp. 754-761.
    by JJ Tabor, TS Bayer, ZB Simpson, M Levy, AD Ellington
    posted to synthetic_biology stochastic review gene_expression by jjray on 2008-06-25 15:24:51 as ** along with 1 person austin
  • Inferring the conditional mean
    (19 Oct 2007)
    by Gusztav Morvai, Benjamin Weiss
    posted to time_series stochastic statistical_method by jjray on 2008-06-24 22:34:48 as ** along with 1 person ansobol
  • Stochastic simulation of chemical kinetics.
    Annu Rev Phys Chem, Vol. 58 (2007), pp. 35-55.
    by DT Gillespie
    posted to stochastic kinetics gillespie_algorithm by jjray on 2008-05-29 16:24:21 as ** along with 3 people and 3 groups dbikard pmendes carmaus Centre de Recherches Interdisciplinaires dIEMoSIRIS MoSi-Rostock
  • Nucleosome Retention and the Stochastic Nature of Promoter Chromatin Remodeling for Transcription
    Cell, Vol. 133, No. 4. (16 May 2008), pp. 716-726.
    by Hinrich Boeger, Joachim Griesenbeck, Roger D Kornberg
    posted to transcription stochastic nucleosome mathematical_model gillespie_algorithm gene_expression eukaryote chromatin by jjray on 2008-05-16 20:34:56 as **
  • Stochastic Receptor Expression Allows Sensitive Bacteria to Evade Phage Attack. Part II: Theoretical Analyses
    Biophys. J., Vol. 94, No. 11. (1 June 2008), pp. 4537-4548.
    by E Chapman-Mcquiston, XL Wu
    posted to stochastic receptor phenotypic_heterogeneity persister e_coli bacteria by jjray on 2008-05-14 22:45:00 as ** along with 1 person madhadron
  • Stochastic Receptor Expression Allows Sensitive Bacteria to Evade Phage Attack. Part I: Experiments
    Biophys. J., Vol. 94, No. 11. (1 June 2008), pp. 4525-4536.
    by E Chapman-Mcquiston, XL Wu
    posted to stochastic receptor phenotypic_heterogeneity persister e_coli bacteria by jjray on 2008-05-14 22:44:46 as ** along with 1 person madhadron
  • Colored extrinsic fluctuations and stochastic gene expression
    Mol Syst Biol, Vol. 4 (6 May 2008)
    by Vahid Shahrezaei, Julien F Ollivier, Peter S Swain
    posted to stochastic gene_expression feedforward extrinsic_noise by jjray on 2008-05-06 21:09:34 as ** along with 2 people Ema margaritis
  • Intrinsic noise, dissipation cost, and robustness of cellular networks: The underlying energy landscape of MAPK signal transduction
    Proceedings of the National Academy of Sciences (17 April 2008), 0708708105.
    by Saul Lapidus, Bo Han, Jin Wang
    posted to mathematical_model network noise robustness signaling statistical_method stochastic by jjray on 2008-04-18 19:37:09 as ** along with 4 people cactus ddcttrl margaritis biehl
  • Stochastic switching as a survival strategy in fluctuating environments
    Nat Genet, Vol. 40, No. 4. (April 2008), pp. 471-475.
    by Murat Acar, Jerome T Mettetal, Alexander van Oudenaarden
    posted to bistability gene_expression saccharomyces_cerevisiae stochastic survival_strategy by jjray on 2008-03-27 14:56:06 as ** along with 10 people and 1 group brianb A_Olympia operon gokhan dbikard margaritis bootsy qwermish fjvico osilander GEB
  • Transcriptional control of noise in gene expression
    Proceedings of the National Academy of Sciences (19 March 2008), 0707904105.
    by Alvaro Sanchez, Jane Kondev
    posted to gene_expression noise stochastic transcription by jjray on 2008-03-20 15:18:58 as ** along with 6 people austin sbottani ddcttrl balabu margaritis lambda
  • Selection to minimise noise in living systems and its implications for the evolution of gene expression
    Mol Syst Biol, Vol. 4 (4 March 2008)
    by Ben Lehner
    posted to evolution evolvability gene_expression noise stochastic by jjray on 2008-03-05 15:28:53 as ** along with 8 people austin grahamc zwang bootsy biomcgary wilbur caseybrown michaelbarton
  • Transcriptional stochasticity in gene expression
    Journal of Theoretical Biology, Vol. 238, No. 2. (21 January 2006), pp. 348-367.
    by Tomasz Lipniacki, Pawel Paszek, Anna Marciniak-Czochra, Allan R Brasier, Marek Kimmel
    posted to mathematical_model stochastic transcription transcriptional_burst by jjray on 2008-02-27 22:03:27 as ** along with 4 people bayesian bh2 balabu cottrell
  • Lectures in Theoretical Biophysics
    (23 April 2000)
    by K Schulten, Kosztin
    posted to biophysics notes stochastic by jjray on 2008-02-13 17:32:46 as ***
  • Sensitivity Analysis in Chemical Kinetics
    Annual Review of Physical Chemistry, Vol. 34, No. 1. (1983), pp. 419-461.
    by H Rabitz, M Kramer, D Dacol
    posted to kinetics review sensitivity_analysis stochastic by jjray on 2008-02-13 17:27:27 as ** along with 1 person arne
  • 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
  • Memoirs of My Research on Stochastic Analysis
    Stochastic Analysis and Applications (2007), pp. 1-6.
    by Kiyosi Itô
    posted to analysis history mathematics stochastic by jjray on 2008-01-29 16:09:18 as ** along with 1 person ansobol
  • 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
  • Potential in stochastic differential equations: novel construction
    Journal of Physics A: Mathematical and General, Vol. 37, No. 3. (2004), pp. L25-L30.
    by P Ao
    posted to mathematical_model potential stochastic by jjray on 2008-01-17 17:55:51 as **
  • 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
  • Tunability and Noise Dependence in Differentiation Dynamics
    Science, Vol. 315, No. 5819. (23 March 2007), pp. 1716-1719.
    by Gurol M Suel, Rajan P Kulkarni, Jonathan Dworkin, Jordi Garcia-Ojalvo, Michael B Elowitz
    posted to bacillus_subtilis competence noise stochastic by jjray on 2008-01-15 20:10:13 as ** along with 3 people and 2 groups dbikard margaritis zwang Centre de Recherches Interdisciplinaires SynBioSys
  • Molecular level stochastic model for competence cycles in Bacillus subtilis
    Proceedings of the National Academy of Sciences, Vol. 104, No. 45. (6 November 2007), pp. 17582-17587.
    by Daniel Schultz, Ben, Jose N Onuchic, Peter G Wolynes
    posted to bacillus_subtilis competence mathematical_model stochastic by jjray on 2008-01-15 20:00:36 as ** along with 3 people balabu lshaw margaritis
  • 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 **
  • Time accelerated Monte Carlo simulations of biological networks using the binomial tau-leap method.
    Bioinformatics, Vol. 21, No. 9. (1 May 2005), pp. 2136-2137.
    by A Chatterjee, K Mayawala, JS Edwards, DG Vlachos
    posted to gillespie_algorithm simulation stochastic tau_leap by jjray on 2007-12-13 16:14:12 as read
  • Binomial distribution based tau-leap accelerated stochastic simulation.
    J Chem Phys, Vol. 122, No. 2. (8 January 2005)
    by A Chatterjee, DG Vlachos, MA Katsoulakis
    posted to gillespie_algorithm simulation stochastic tau_leap by jjray on 2007-12-13 16:13:54 as read
  • Stochastic approaches for modelling in vivo reactions
    Computational Biology and Chemistry, Vol. 28, No. 3. (July 2004), pp. 165-178.
    by TE Turner, S Schnell, K Burrage
    posted to gillespie_algorithm mathematical_model review stochastic tau_leap by jjray on 2007-12-13 15:50:19 as ** along with 5 people and 3 groups brain balabu schnell roland_ewald insectopalo IU_Informatics_CX dIEMoSIRIS MoSi-Rostock
  • Approximate simulation of coupled fast and slow reactions for stochastic chemical kinetics
    The Journal of Chemical Physics, Vol. 117, No. 15. (2002), pp. 6959-6969.
    by Eric L Haseltine, James B Rawlings
    posted to gillespie_algorithm kinetics simulation stochastic by jjray on 2007-12-11 22:31:52 as ** along with 3 people and 1 group jstajic ner25 dagmar compneur
  • Efficient Exact Stochastic Simulation of Chemical Systems with Many Species and Many Channels
    J. Phys. Chem. A, Vol. 104, No. 9. (9 March 2000), pp. 1876-1889.
    by MA Gibson, J Bruck
    posted to algorithm simulation stochastic by jjray on 2007-12-11 22:30:52 as ** along with 5 people and 1 group petermilner jstajic jberro matthewhflamm rcaze Projet_ENSIMAG
  • Stochasticity in transcriptional regulation: origins, consequences, and mathematical representations.
    Biophys J, Vol. 81, No. 6. (December 2001), pp. 3116-3136.
    by TB Kepler, TC Elston
    posted to biophysics mathematical_model stochastic transcription by jjray on 2007-12-10 17:12:45 as ** along with 2 people monod margaritis
  • 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 **
  • Living with noisy genes: how cells function reliably with inherent variability in gene expression.
    Annu Rev Biophys Biomol Struct, Vol. 36 (2007), pp. 413-434.
    by N Maheshri, EK O'Shea
    posted to gene_expression mathematical_model noise stochastic transcriptional_burst by jjray on 2007-10-19 02:41:38 as ** along with 2 people madhadron margaritis
  • Heritable Stochastic Switching Revealed by Single-Cell Genealogy
    PLoS Biology, Vol. 5, No. 9. (1 September 2007), e239.
    by Benjamin B Kaufmann, Qiong Yang, Jerome T Mettetal, Alexander van Oudenaarden
    posted to inhertiance poisson_process stochastic transcriptional_burst by jjray on 2007-09-17 16:13:57 as ** along with 2 people and 1 group dpollard madhadron EisenLab
  • 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
  • Space as the final frontier in stochastic simulations of biological systems
    FEBS Letters, Vol. 579, No. 8. (21 March 2005), pp. 1789-1794.
    by Caroline Lemerle, Barbara Di Ventura, Luis Serrano
    posted to mathematical_model simulation spatial stochastic by jjray on 2007-08-12 19:39:50 as *** along with 1 person arne
  • Effect of feedback regulation on stochastic gene expression
    Journal of Theoretical Biology, Vol. 247, No. 4. (21 August 2007), pp. 827-836.
    by Yi Tao, Xiudeng Zheng, Yuehua Sun
    posted to feedback gene_expression mathematical_model noise stochastic by jjray on 2007-07-31 15:30:16 as ***
  • Noise in Gene Expression Determines Cell Fate in Bacillus subtilis.
    Science (14 June 2007)
    by Hédia Maamar, Arjun Raj, David Dubnau
    posted to development gene_expression phenotypic_heterogeneity stochastic by jjray on 2007-07-27 17:46:52 as *** along with 4 people sebastien_vigneau margaritis cjeans cabbagezs
  • Combinatorial promoter design for engineering noisy gene expression
    PNAS (24 July 2007), 0608451104.
    by Kevin F Murphy, Gabor Balazsi, James J Collins
    posted to biology_as_engineering gene_expression gillespie_algorithm mathematical_model noise stochastic by jjray on 2007-07-25 15:29:52 as *** along with 1 person margaritis
  • Stochastic gene expression in switching environments
    Journal of Mathematical Biology, Vol. 55, No. 2. (2007), pp. 249-269.
    by Martin Gander, Christian Mazza, Hansklaus Rummler
    posted to gene_expression mathematical_model stochastic by jjray on 2007-07-23 15:02:55 as ***
  • 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
  • Quantifying noise levels of intercellular signals
    Physical Review E (Statistical, Nonlinear, and Soft Matter Physics), Vol. 75, No. 6. (2007)
    by Kai Wang, Wouter J Rappel, Rex Kerr, Herbert Levine
    posted to biophysics mathematical_model monte_carlo noise stochastic by jjray on 2007-06-25 23:21:30 as ***
  • It's a noisy business! Genetic regulation at the nanomolar scale
    Trends in Genetics, Vol. 15, No. 2. (1 February 1999), pp. 65-69.
    by Harley H Mcadams, Adam Arkin
    posted to e_coli gene_regulation gillespie_algorithm mathematical_model network noise review stochastic by jjray on 2007-06-04 18:18:49 as read along with 1 person rflrob
  • Computational methods for diffusion-influenced biochemical reactions.
    Bioinformatics (30 May 2007)
    by Maciej Dobrzynski, Jordi Vidal Rodríguez, Jaap A A Kaandorp, Joke G G Blom
    posted to biochemistry mathematical_model noise review simulation stochastic by jjray on 2007-06-04 16:47:09 as *** along with 2 people balabu dagmar
  • Diffusion of transcription factors can drastically enhance the noise in gene expression.
    Biophys J, Vol. 91, No. 12. (15 December 2006), pp. 4350-4367.
    by JS van Zon, MJ Morelli, S Tănase-Nicola, PR ten Wolde
    posted to gene_regulation gillespie_algorithm mathematical_model noise stochastic transcription by jjray on 2007-05-30 19:23:39 as *** along with 3 people ddcttrl balabu margaritis
  • Stochastic fluctuations in metabolic pathways
    PNAS, Vol. 104, No. 22. (29 May 2007), pp. 9224-9229.
    by Erel Levine, Terence Hwa
    posted to biochemistry mathematical_model metabolism noise stochastic by jjray on 2007-05-30 19:20:03 as *** along with 1 person balabu
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