-
2
-
-
0017030517
-
A General Method for Numerically Simulating the Stochastic Time Evolution of Coupled Chemical Reactions
-
D. T. Gillespie, "A General Method for Numerically Simulating the Stochastic Time Evolution of Coupled Chemical Reactions", J. Computational Physics, vol. 22, no. 4, pp. 403-434, 1976.
-
(1976)
J. Computational Physics
, vol.22
, Issue.4
, pp. 403-434
-
-
Gillespie, D.T.1
-
3
-
-
33645429016
-
Exact stochastic simulation of coupled chemical reactions
-
D. T. Gillespie, "Exact Stochastic Simulation of Coupled Chemical Reactions", J. Physical Chemistry, vol. 81, no. 25, pp. 2340-2361, 1977.
-
(1977)
J. Physical Chemistry
, vol.81
, Issue.25
, pp. 2340-2361
-
-
Gillespie, D.T.1
-
4
-
-
0001144902
-
Efficient exact stochastic simulation of chemical systems with many species and many channels
-
M. A. Gibson and J. Bruck, "Efficient Exact Stochastic Simulation of Chemical Systems with Many Species and Many Channels", J. Physical Chemistry A, vol. 104, no. 9, pp. 1876-1889, 2000.
-
(2000)
J. Physical Chemistry A
, vol.104
, Issue.9
, pp. 1876-1889
-
-
Gibson, M.A.1
Bruck, J.2
-
5
-
-
34249950625
-
Stochastic simulation of chemical kinetics
-
D. T. Gillespie, "Stochastic Simulation of Chemical Kinetics", Ann. Rev. of Physical Chemistry, vol. 58, pp. 35-55, 2007.
-
(2007)
Ann. Rev. of Physical Chemistry
, vol.58
, pp. 35-55
-
-
Gillespie, D.T.1
-
6
-
-
0031599142
-
Mersenne twister: A 623-dimensionally equidistributed uniform pseudorandom number generator
-
Jan
-
M. Matsumoto and T. Nishimura, "Mersenne Twister: A 623-Dimensionally Equidistributed Uniform Pseudorandom Number Generator", ACM Trans. Modelling and Computer Simulation, vol. 8, no. 1, pp. 3-30, http://www.math.sci.hiroshima-u.ac.jp/m-mat/MT/emt.html, Jan. 1998.
-
(1998)
ACM Trans. Modelling and Computer Simulation
, vol.8
, Issue.1
, pp. 3-30
-
-
Matsumoto, M.1
Nishimura, T.2
-
7
-
-
0040833010
-
The ziggurat method for generating random variables
-
G. Marsaglia and W. W. Tsang, "The Ziggurat Method for Generating Random Variables", J. Statistical Software, vol. 5, no. 8, pp. 1-7, http://www.jstatsoft.org/v05/i08/, 2000.
-
(2000)
J. Statistical Software
, vol.5
, Issue.8
, pp. 1-7
-
-
Marsaglia, G.1
Tsang, W.W.2
-
8
-
-
33744987421
-
Efficient generation of exponential and normal deviates
-
H. Rubin and B. Johnson, "Efficient Generation of Exponential and Normal Deviates", J. Statistical Computation and Simulation, vol. 76, no. 6, pp. 509-518, 2006.
-
(2006)
J. Statistical Computation and Simulation
, vol.76
, Issue.6
, pp. 509-518
-
-
Rubin, H.1
Johnson, B.2
-
9
-
-
4644266081
-
Efficient formulation of the stochastic simulation algorithm for chemically reacting systems
-
Y. Cao, H. Li, and L. Petzold, "Efficient Formulation of the Stochastic Simulation Algorithm for Chemically Reacting Systems", J. Chemical Physics, vol. 121, no. 9, pp. 4059-4067, 2004.
-
(2004)
J. Chemical Physics
, vol.121
, Issue.9
, pp. 4059-4067
-
-
Cao, Y.1
Li, H.2
Petzold, L.3
-
10
-
-
31344458755
-
The sorting direct method for stochastic simulation of biochemical systems with varying reaction execution behavior
-
Feb
-
J. M. McCollum, G. D. Peterson, C. D. Cox, M. L. Simpson, and N. F. Samatova, "The Sorting Direct Method for Stochastic Simulation of Biochemical Systems with Varying Reaction Execution Behavior", Computational Biology and Chemistry, vol. 30, no. 1, pp. 39-49, Feb. 2006.
-
(2006)
Computational Biology and Chemistry
, vol.30
, Issue.1
, pp. 39-49
-
-
McCollum, J.M.1
Peterson, G.D.2
Cox, C.D.3
Simpson, M.L.4
Samatova, N.F.5
-
11
-
-
38949143852
-
Logarithmic direct method for discrete stochastic simulation of chemically reacting systems
-
Univ. of California, Santa Barbara
-
H. Li and L. Petzold, "Logarithmic Direct Method for Discrete Stochastic Simulation of Chemically Reacting Systems", technical report, Dept. of Computer Science, Univ. of California, Santa Barbara, http://www.engr.ucsb.edu/~cse, 2006.
-
(2006)
Technical Report, Dept. of Computer Science
-
-
Li, H.1
Petzold, L.2
-
12
-
-
44649178886
-
A constant-time kinetic monte carlo algorithm for simulation of large biochemical reaction networks
-
article no. 205101
-
A. Slepoy, A. P. Thompson, and S. J. Plimpton, "A Constant-Time Kinetic Monte Carlo Algorithm for Simulation of Large Biochemical Reaction Networks", J. Chemical Physics, vol. 128, no. 20, article no. 205101, 2008.
-
(2008)
J. Chemical Physics
, vol.128
, Issue.20
-
-
Slepoy, A.1
Thompson, A.P.2
Plimpton, S.J.3
-
13
-
-
0004116989
-
-
second ed. MIT Press
-
T. H. Cormen, C. E. Leiserson, R. L. Rivest, and C. Stein, Introduction to Algorithms, second ed. MIT Press, 2001.
-
(2001)
Introduction to Algorithms
-
-
Cormen, T.H.1
Leiserson, C.E.2
Rivest, R.L.3
Stein, C.4
-
15
-
-
29144488933
-
Accuracy limitations and the measurement of errors in the stochastic simulation of chemically reacting systems
-
Y. Cao and L. Petzold, "Accuracy Limitations and the Measurement of Errors in the Stochastic Simulation of Chemically Reacting Systems", J. Computational Physics, vol. 212, pp. 6-24, 2006.
-
(2006)
J. Computational Physics
, vol.212
, pp. 6-24
-
-
Cao, Y.1
Petzold, L.2
-
16
-
-
0036204115
-
STOCKS: STOchastic kinetic simulations of biochemical systems with the gillespie algorithm
-
A. M. Kierzek, "STOCKS: STOChastic Kinetic Simulations of Biochemical Systems with the Gillespie Algorithm", Bioinformatics, vol. 18, no. 3, pp. 470-481, 2002.
-
(2002)
Bioinformatics
, vol.18
, Issue.3
, pp. 470-481
-
-
Kierzek, A.M.1
-
17
-
-
10944269121
-
Modelling the actions of chaperones and their role in ageing
-
Jan
-
C. J. Proctor, C. Soti, R. J. Boys, C. S. Gillespie, D. P. Shanley, D. J. Wilkinson, and T. B. L. Kirkwood, "Modelling the Actions of Chaperones and Their Role in Ageing", Mechanisms of Ageing and Development, vol. 126, pp. 119-131, Jan. 2005.
-
(2005)
Mechanisms of Ageing and Development
, vol.126
, pp. 119-131
-
-
Proctor, C.J.1
Soti, C.2
Boys, R.J.3
Gillespie, C.S.4
Shanley, D.P.5
Wilkinson, D.J.6
Kirkwood, T.B.L.7
-
18
-
-
17644396339
-
Dizzy: Stochastic simulation of large-scale genetic regulatory networks
-
DOI 10.1142/S0219720005001132, PII S0219720005001132
-
S. Ramsey, D. Orrell, and H. Bolouri, "Dizzy: Stochastic Simulation of Large-Scale Genetic Regulatory Networks", J. Bioinformatics and Computational Biology, vol. 3, pp. 415-436, Apr. 2005. (Pubitemid 40561395)
-
(2005)
Journal of Bioinformatics and Computational Biology
, vol.3
, Issue.2
, pp. 415-436
-
-
Ramsey, S.1
Orrell, D.2
Bolouri, H.3
-
19
-
-
33845368513
-
COPASI-A complex pathway simulator
-
S. Hoops, S. Sahle, R. Gauges, C. Lee, J. Pahle, N. Simus, M. Singhal, L. Xu, P. Mendes, and U. Kummer, "COPASI-A COmplex PAthway SImulator", Bioinformatics, vol. 22, pp. 3067-3074, 2006.
-
(2006)
Bioinformatics
, vol.22
, pp. 3067-3074
-
-
Hoops, S.1
Sahle, S.2
Gauges, R.3
Lee, C.4
Pahle, J.5
Simus, N.6
Singhal, M.7
Xu, L.8
Mendes, P.9
Kummer, U.10
|