-
1
-
-
0036790975
-
Intrinsic and extrinsic contributions to stochasticity in gene expression
-
10.1073/pnas.162041399, 0027-8424
-
Swain, P.S., Elowitz, M.B., and Siggia, E.D.: 'Intrinsic and extrinsic contributions to stochasticity in gene expression', Proc. Natl. Acad. Sci. USA, 2002, 99, p. 1279510.1073/pnas.162041399 0027-8424
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 12795
-
-
Swain, P.S.1
Elowitz, M.B.2
Siggia, E.D.3
-
2
-
-
19544379881
-
Stochasticity in gene expression: from theories to phenotypes
-
10.1038/nrg1615
-
Kaern, M., Elston, T.C., Blake, W.J., and Collins, J.J.: 'Stochasticity in gene expression: from theories to phenotypes', Nat. Rev. Genet., 2005, 6, p. 45110.1038/nrg1615
-
(2005)
Nat. Rev. Genet.
, vol.6
, pp. 451
-
-
Kaern, M.1
Elston, T.C.2
Blake, W.J.3
Collins, J.J.4
-
3
-
-
49449090300
-
Using noise to probe and characterize gene circuits
-
10.1073/pnas.0804829105, 0027-8424
-
Cox, C.D., McCollum, J.M., Allen, M.S., Dar, R.D., and Simpson, M.L.: 'Using noise to probe and characterize gene circuits', Proc. Natl. Acad. Sci. USA, 2008, 105, p. 1080910.1073/pnas.0804829105 0027-8424
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 10809
-
-
Cox, C.D.1
McCollum, J.M.2
Allen, M.S.3
Dar, R.D.4
Simpson, M.L.5
-
4
-
-
56749102636
-
Regulatory activity revealed by dynamic correlations in gene expression noise
-
10.1038/ng.281
-
Dunlop, M.J., Cox, R.S., Levine, J.H., Murray, R.M., and Elowitz, M.B.: 'Regulatory activity revealed by dynamic correlations in gene expression noise', Nat. Genet., 2008, 40, p. 149310.1038/ng.281
-
(2008)
Nat. Genet.
, vol.40
, pp. 1493
-
-
Dunlop, M.J.1
Cox, R.S.2
Levine, J.H.3
Murray, R.M.4
Elowitz, M.B.5
-
5
-
-
77955102352
-
Quantifying E. coli proteome and transcriptome with single-molecule sensitivity in single cells
-
10.1126/science.1188308, 0036-8075
-
Taniguchi, Y., Choi, P.J., and Li, G.W.: et al. 'Quantifying E. coli proteome and transcriptome with single-molecule sensitivity in single cells', Science, 2010, 329, p. 53310.1126/science.1188308 0036-8075
-
(2010)
Science
, vol.329
, pp. 533
-
-
Taniguchi, Y.1
Choi, P.J.2
Li, G.W.3
-
6
-
-
79551553749
-
Studying transcriptional interactions in single cells at sufficient resolution
-
10.1016/j.copbio.2010.10.004
-
Wallden, M., and Elf, J.: 'Studying transcriptional interactions in single cells at sufficient resolution', Curr. Opin. Biotech., 2011, 22, p. 8110.1016/j.copbio.2010.10.004
-
(2011)
Curr. Opin. Biotech.
, vol.22
, pp. 81
-
-
Wallden, M.1
Elf, J.2
-
7
-
-
77951652652
-
Reverse-engineering of biochemical reaction networks from spatio-temporal correlations of fluorescence fluctuations
-
10.1016/j.jtbi.2010.02.022
-
Tanaka, N., and Papoian, G.A.: 'Reverse-engineering of biochemical reaction networks from spatio-temporal correlations of fluorescence fluctuations', J. Theor. Biol., 2010, 264, p. 49010.1016/j.jtbi.2010.02.022
-
(2010)
J. Theor. Biol.
, vol.264
, pp. 490
-
-
Tanaka, N.1
Papoian, G.A.2
-
8
-
-
27744447482
-
Predator-prey cycles from resonant amplification of demographic stochasticity
-
10.1103/PhysRevLett.94.218102, 0031-9007
-
McKane, A.J., and Newman, T.J.: 'Predator-prey cycles from resonant amplification of demographic stochasticity', Phys. Rev. Lett., 2005, 94, p. 21810210.1103/PhysRevLett.94.218102 0031-9007
-
(2005)
Phys. Rev. Lett.
, vol.94
, pp. 218102
-
-
McKane, A.J.1
Newman, T.J.2
-
9
-
-
0001601301
-
Stochastic approach to chemical kinetics
-
10.2307/3212214
-
McQuarrie, D.A.: 'Stochastic approach to chemical kinetics', J. Appl. Prob., 1967, 4, p. 41310.2307/3212214
-
(1967)
J. Appl. Prob.
, vol.4
, pp. 413
-
-
McQuarrie, D.A.1
-
10
-
-
0242490781
-
Fast evaluation of fluctuations in biochemical networks with the linear noise approximation
-
10.1101/gr.1196503
-
Elf, J., and Ehrenberg, M.: 'Fast evaluation of fluctuations in biochemical networks with the linear noise approximation', Genome Res., 2003, 13, p. 247510.1101/gr.1196503
-
(2003)
Genome Res.
, vol.13
, pp. 2475
-
-
Elf, J.1
Ehrenberg, M.2
-
11
-
-
33645429016
-
Exact stochastic simulation of coupled chemical reactions
-
10.1021/j100540a008, 0022-3654
-
Gillespie, D.T.: 'Exact stochastic simulation of coupled chemical reactions', J. Phys. Chem., 1977, 81, p. 234010.1021/j100540a008 0022-3654
-
(1977)
J. Phys. Chem.
, vol.81
, pp. 2340
-
-
Gillespie, D.T.1
-
12
-
-
0000599342
-
A power series expansion of the master equation
-
10.1139/p61-056, 0008-4204
-
van Kampen, N.G.: 'A power series expansion of the master equation', Can. J. Phys., 1961, 39, p. 55110.1139/p61-056 0008-4204
-
(1961)
Can. J. Phys.
, vol.39
, pp. 551
-
-
van Kampen, N.G.1
-
13
-
-
34249950625
-
Stochastic simulation of chemical kinetics
-
10.1146/annurev.physchem.58.032806.104637
-
Gillespie, D.T.: 'Stochastic simulation of chemical kinetics', Ann. Rev. Phys. Chem., 2007, 58, p. 3510.1146/annurev.physchem.58.032806.104637
-
(2007)
Ann. Rev. Phys. Chem.
, vol.58
, pp. 35
-
-
Gillespie, D.T.1
-
14
-
-
0000270019
-
Laplace and the origin of the Ornstein-Uhlenbeck process
-
10.2307/3318524
-
Jacobsen, M.: 'Laplace and the origin of the Ornstein-Uhlenbeck process', Bernoulli, 1996, 2, p. 27110.2307/3318524
-
(1996)
Bernoulli
, vol.2
, pp. 271
-
-
Jacobsen, M.1
-
15
-
-
0011181722
-
Non-linear Brownian movement of a generalized Rayleigh model
-
10.1098/rspa.1963.0029
-
Alkemade, C.T.J., van Kampen, N.G., and MacDonald, D.K.C.: 'Non-linear Brownian movement of a generalized Rayleigh model', Proc. Roy. Soc. Lond A, 1963, 271, p. 44910.1098/rspa.1963.0029
-
(1963)
Proc. Roy. Soc. Lond A
, vol.271
, pp. 449
-
-
Alkemade, C.T.J.1
van Kampen, N.G.2
MacDonald, D.K.C.3
-
16
-
-
0001340421
-
The expansion of the master equation
-
10.1002/9780470142530.ch5
-
van Kampen, N.G.: 'The expansion of the master equation', Adv. Chem. Phys., 1976, 34, p. 24510.1002/9780470142530.ch5
-
(1976)
Adv. Chem. Phys.
, vol.34
, pp. 245
-
-
van Kampen, N.G.1
-
17
-
-
0034225547
-
The chemical Langevin equation
-
10.1063/1.481811, 0021-9606
-
Gillespie, D.T.: 'The chemical Langevin equation', J. Chem. Phys., 2000, 113, p. 29710.1063/1.481811 0021-9606
-
(2000)
J. Chem. Phys.
, vol.113
, pp. 297
-
-
Gillespie, D.T.1
-
18
-
-
3342958404
-
On the application of truncated generalized Fokker-Planck equations
-
10.1007/BF01319854
-
Risken, H., and Vollmer, H.D.: 'On the application of truncated generalized Fokker-Planck equations', Z. Physik. B, 1979, 35, p. 31310.1007/BF01319854
-
(1979)
Z. Physik. B
, vol.35
, pp. 313
-
-
Risken, H.1
Vollmer, H.D.2
-
19
-
-
83255181695
-
Construction and accuracy of partial differential equation approximations to the chemical master equation
-
10.1103/PhysRevE.84.056109
-
Grima, R.: 'Construction and accuracy of partial differential equation approximations to the chemical master equation', Phys. Rev. E, 2011, 84, p. 05610910.1103/PhysRevE.84.056109
-
(2011)
Phys. Rev. E
, vol.84
, pp. 056109
-
-
Grima, R.1
-
20
-
-
77956247381
-
An effective rate equation approach to reaction kinetics in small volumes: theory and application to biochemical reactions in nonequilibrium steady-state conditions
-
10.1063/1.3454685, 0021-9606
-
Grima, R.: 'An effective rate equation approach to reaction kinetics in small volumes: theory and application to biochemical reactions in nonequilibrium steady-state conditions', J. Chem. Phys., 2010, 133, p. 03510110.1063/1.3454685 0021-9606
-
(2010)
J. Chem. Phys.
, vol.133
, pp. 035101
-
-
Grima, R.1
-
21
-
-
78650646338
-
Stochastic theory of large-scale enzyme-reaction networks: finite copy number corrections to rate equation models
-
10.1063/1.3505552, 0021-9606
-
Thomas, P., Straube, A.V., and Grima, R.: 'Stochastic theory of large-scale enzyme-reaction networks: finite copy number corrections to rate equation models', J. Chem. Phys., 2010, 133, p. 19510110.1063/1.3505552 0021-9606
-
(2010)
J. Chem. Phys.
, vol.133
, pp. 195101
-
-
Thomas, P.1
Straube, A.V.2
Grima, R.3
-
22
-
-
82355194836
-
Non-Gaussian fluctuations in stochastic models with absorbing barriers
-
10.1209/0295-5075/96/50011
-
Cianci, C., DiPatti, F., and Fanelli, D.: 'Non-Gaussian fluctuations in stochastic models with absorbing barriers', Europhys. Lett., 2011, 96, p. 5001110.1209/0295-5075/96/50011
-
(2011)
Europhys. Lett.
, vol.96
, pp. 50011
-
-
Cianci, C.1
DiPatti, F.2
Fanelli, D.3
-
23
-
-
0003015738
-
Fluctuation and relaxation of macrovariables
-
10.1007/BF01016797, 0022-4715
-
Kubo, R., Matsuo, K., and Kitahara, K.: 'Fluctuation and relaxation of macrovariables', J. Stat. Phys., 1973, 9, p. 5110.1007/BF01016797 0022-4715
-
(1973)
J. Stat. Phys.
, vol.9
, pp. 51
-
-
Kubo, R.1
Matsuo, K.2
Kitahara, K.3
-
24
-
-
33644877313
-
Optimal observability of sustained stochastic competitive inhibition oscillations at organellar volumes
-
10.1111/j.1742-4658.2005.05043.x
-
Davis, K.L., and Roussel, M.R.: 'Optimal observability of sustained stochastic competitive inhibition oscillations at organellar volumes', FEBS J., 2006, 273, p. 8410.1111/j.1742-4658.2005.05043.x
-
(2006)
FEBS J.
, vol.273
, pp. 84
-
-
Davis, K.L.1
Roussel, M.R.2
-
25
-
-
66049138052
-
Fluctuations and oscillations in a simple epidemic model
-
10.1103/PhysRevE.79.041922
-
Rozhnova, G., and Nunes, A.: 'Fluctuations and oscillations in a simple epidemic model', Phys. Rev. E, 2009, 79, p. 04192210.1103/PhysRevE.79.041922
-
(2009)
Phys. Rev. E
, vol.79
, pp. 041922
-
-
Rozhnova, G.1
Nunes, A.2
-
26
-
-
0002720219
-
The validity of nonlinear Langevin equations
-
10.1007/BF01010798, 0022-4715
-
van Kampen, N.G.: 'The validity of nonlinear Langevin equations', J. Stat. Phys., 1981, 25, p. 43110.1007/BF01010798 0022-4715
-
(1981)
J. Stat. Phys.
, vol.25
, pp. 431
-
-
van Kampen, N.G.1
-
27
-
-
0003392158
-
Handbook of stochastic methods: for physics, chemistry and the natural sciences
-
3rd(Springer )
-
Gardiner, C.W.: 'Handbook of stochastic methods: for physics, chemistry and the natural sciences', 3rd(Springer 2004)
-
(2004)
-
-
Gardiner, C.W.1
-
28
-
-
85010985264
-
Stochastic processes in physics and chemistry
-
North Holland )
-
van Kampen, N.G.: 'Stochastic processes in physics and chemistry', (North Holland 1992)
-
(1992)
-
-
van Kampen, N.G.1
-
29
-
-
0024962892
-
Sustained and damped pH oscillation in the periodate-thiosulfate reaction in a continuous-flow stirred tank reactor
-
10.1021/j100344a030, 0022-3654
-
Rabai, G., Beck, M.T., Kustin, K., and Epstein, I.R.: 'Sustained and damped pH oscillation in the periodate-thiosulfate reaction in a continuous-flow stirred tank reactor', J. Phys. Chem., 1989, 93, p. 285310.1021/j100344a030 0022-3654
-
(1989)
J. Phys. Chem.
, vol.93
, pp. 2853
-
-
Rabai, G.1
Beck, M.T.2
Kustin, K.3
Epstein, I.R.4
-
30
-
-
79551508890
-
Noise-induced modulation of the relaxation kinetics around a non-equilibrium steady state of non-linear chemical reaction networks
-
e1604510.1371/journal.pone.0016045
-
Ramaswamy, R., Sbalzarini, I.F., and González-Segredo, N.: 'Noise-induced modulation of the relaxation kinetics around a non-equilibrium steady state of non-linear chemical reaction networks', PLoS ONE, 2011, 6, p. e1604510.1371/journal.pone.0016045
-
(2011)
PLoS ONE
, vol.6
-
-
Ramaswamy, R.1
Sbalzarini, I.F.2
González-Segredo, N.3
-
31
-
-
80052396994
-
How accurate are the nonlinear chemical Fokker-Planck and chemical Langevin equations?
-
10.1063/1.3625958, 0021-9606
-
Grima, R., Thomas, P., and Straube, A.V.: 'How accurate are the nonlinear chemical Fokker-Planck and chemical Langevin equations?', J. Chem. Phys., 2011, 135, p. 08410310.1063/1.3625958 0021-9606
-
(2011)
J. Chem. Phys.
, vol.135
, pp. 084103
-
-
Grima, R.1
Thomas, P.2
Straube, A.V.3
-
32
-
-
81255149550
-
The effect of loss of immunity on noise-induced sustained oscillations in epidemics
-
10.1007/s11538-011-9635-7, 0092-8240
-
Chaffee, J., and Kuske, R.: 'The effect of loss of immunity on noise-induced sustained oscillations in epidemics', Bull. Math. Biol., 2011, 73, p. 255210.1007/s11538-011-9635-7 0092-8240
-
(2011)
Bull. Math. Biol.
, vol.73
, pp. 2552
-
-
Chaffee, J.1
Kuske, R.2
-
33
-
-
79952325917
-
Approximating intrinsic noise in continuous multispecies models
-
10.1098/rspa.2010.0275
-
Scott, M., Poulin, F.J., and Tang, H.: 'Approximating intrinsic noise in continuous multispecies models', Proc. R. Soc. A, 2011, 467, p. 71810.1098/rspa.2010.0275
-
(2011)
Proc. R. Soc. A
, vol.467
, pp. 718
-
-
Scott, M.1
Poulin, F.J.2
Tang, H.3
-
34
-
-
0004261332
-
Perturbation methods
-
Cambridge University Press )
-
Hinch, H.J.: 'Perturbation methods', (Cambridge University Press 1991)
-
(1991)
-
-
Hinch, H.J.1
-
35
-
-
0004245243
-
Matrix perturbation theory
-
Academic Press )
-
Stewart, G.W., and Sun, J.: 'Matrix perturbation theory', (Academic Press 1990)
-
(1990)
-
-
Stewart, G.W.1
Sun, J.2
-
36
-
-
20444416059
-
Perturbed spectra of defective matrices
-
10.1155/S1110757X0320512X
-
Konstantinov, M., Mehrmann, V., and Petkov, P.: 'Perturbed spectra of defective matrices', J. Appl. Math., 2003, 3, p. 11510.1155/S1110757X0320512X
-
(2003)
J. Appl. Math.
, vol.3
, pp. 115
-
-
Konstantinov, M.1
Mehrmann, V.2
Petkov, P.3
|