On approximate stochastic control in genetic regulatory networks

IET Systems Biology

Volumn 1, Issue 6, 2007, Pages 361-368

  Faryabi, B ^a   Datta, A ^a   Dougherty, E R ^a,b  

^a Texas A and M University   (United States)

^b TRANSLATIONAL GENOMICS RESEARCH INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

APPROXIMATION THEORY; BOOLEAN FUNCTIONS; DYNAMIC PROGRAMMING; ESTIMATION; MATHEMATICAL MODELS; OPTIMAL CONTROL SYSTEMS; PROBABILITY DISTRIBUTIONS; STOCHASTIC CONTROL SYSTEMS;

BOOLEAN NETWORK; GENETIC REGULATORY NETWORK; OPTIMAL STOCHASTIC CONTROL;

GENETIC ENGINEERING;

ARTICLE; BIOINFORMATICS; GENE EXPRESSION; GENETIC REGULATION; HUMAN; INFORMATION SCIENCE; LEARNING ALGORITHM; PROBABILITY; REINFORCEMENT; STATISTICAL ANALYSIS; SYSTEMS BIOLOGY; TASK PERFORMANCE; ANIMAL; BIOLOGICAL MODEL; COMPUTER SIMULATION; GENE EXPRESSION REGULATION; MELANOMA; METABOLISM; SIGNAL TRANSDUCTION; STATISTICAL MODEL; STATISTICS;

TUMOR PROTEIN;

ANIMALS; COMPUTER SIMULATION; GENE EXPRESSION REGULATION, NEOPLASTIC; HUMANS; MELANOMA; MODELS, BIOLOGICAL; MODELS, STATISTICAL; NEOPLASM PROTEINS; SIGNAL TRANSDUCTION; STOCHASTIC PROCESSES;

EID: 38949144494     PISSN: 17518849     EISSN: None     Source Type: Journal    
DOI: 10.1049/iet-syb:20070015     Document Type: Article

References (20)

1. Shmulevich, I., Dougherty, E.R., and Zhang, W.: 'Gene perturbation and intervention in probabilistic Boolean networks', Bioinformatics, 2002, 18, (10), p. 1319-1331
2. Shmulevich, I., Dougherty, E.R., and Zhang, W.: 'Control of stationary behavior in probabilistic Boolean networks by means of structural intervention', Biol. Syst., 2002, 10, (4), p. 431-446
3. Datta, A., Choudhary, A., Bittner, M., and Dougherty, E.R.: 'External control in Markovian genetic regulatory networks', Mach. Learning, 2003, 52, (1/2), p. 169-191
4. Datta, A., Pal, R., and Dougherty, E.R.: 'Intervention in probabilistic gene regulatory networks', Current Bioinformatics, 2006, 1, (2), p. 167-184
5. Shmulevich, I., Dougherty, E.R., Kim, S., and Zhang, W.: 'Probabilistic Boolean networks: A rule-based uncertainty model for gene regulatory networks', Bioinformatics, 2002, 18, (2), p. 261-274
6. Kauffman, S.A.: 'Metabolic stability and epigenesis in randomly constructed genetic nets', J. Theor. Biol., 1969, 22, (3), p. 437-467
7. Kauffman, S.A.: 'She origins of order: self-organization and selection in evolution', 1st (Oxford University Press 1993)
8. Kauffman, S.A., and Levin, S.: 'Towards a general theory of adaptive walks on rugged landscapes', J. Theor. Biol., 1987, 128, (1), p. 11-45
9. Pal, R., Datta, A., Bittner, M., and Dougherty, E.R.: 'Intervention in context-sensitive probabilistic Boolean networks', Bioinformatics, 2005, 21, (7), p. 1211-1218
10. Akutsu, T., Hayashida, M., Ching, W.-K., and Ng, M.K.: 'Control of Boolean networks: Hardness results and algorithms for tree structured networks', J. Theor. Biol., 2007, 244, (4), p. 670-679 J. Theor. Biol.
11. Bertsekas, D.P.: 'Dynamic programming and optimal control', 3rd (Athena Scientific 1995, 2005)
12. Ng, M.K., Zhang, S.-Q., Ki Ching, W., and Akutsu, T.: 'A control model for Markovian genetic regulatory networks', Trans. Comput. Syst. Biol., 2006, V, (LNBI 4070), p. 36-48
13. Pal, R., Datta, A., and Dougherty, E.R.: 'Optimal infinite-horizon control for probabilistic Boolean networks', IEEE Trans. Signal Process., 2006, 54, (6), p. 2375-2387 10.1109/TSP.2006.873740 1053-587X
14. Bertsekas, D.P., and Tsitsiklis, J.N.: 'Neuro-dynamic programming', 1st (Athena Scientific 1996)
15. Kim, S., Li, H., Dougherty, E.R., Cao, N.W., Chen, Y.D., Bittner, M., and Suh, E.B.: 'Can Markov chain models mimic biological regulation?', J. Biol. Syst., 2002, 10, (4), p. 337-357
16. Tsitsiklis, J.N.: 'Asynchronous stochastic approximation and Q-learning', Mach. Learning, 1994, 16, (3), p. 185-202
17. Datta, A., Pal, R., Choudhary, A., and Dougherty, E.R.: 'Control approaches for probabilistic gene regulatory networks', IEEE Signal Process. Mag., 2007, 24, (1), p. 54-63 10.1109/MSP.2007.273057 1053-5888
18. Bittner, M., and Meltzer, P.: Et al. 'Molecular classification of cutaneous malignant melanoma by gene expression profiling', Nature, 2000, 406, (6795), p. 450-536 0028-0836
19. Weeraratna, A.T., Jiang, Y., Hostetter, G., Rosenblatt, K., Duray, P., Bittner, M., and Trent, J.M.: 'Wnt5a signalling directly affects cell motility and invasion of metastatic melanoma', Cancer Cell, 2002, 1, p. 279-288
20. Pal, R., Ivanov, I., Datta, A., Bittner, M., and Dougherty, E.R.: 'Generating Boolean networks with a prescribed attractor structure', Bioinformatics, 2005, 21, (21), p. 4021-4025