Optimal intervention strategies for therapeutic methods with fixed-length duration of drug effectiveness

IEEE Transactions on Signal Processing

Volumn 60, Issue 9, 2012, Pages 4930-4944

  Yousefi, Mohammadmahdi R ^a   Datta, Aniruddha ^a   Dougherty, Edward R ^a,b,c  

^a Texas A and M University   (United States)

^b TRANSLATIONAL GENOMICS RESEARCH INSTITUTE   (United States)

^c UNIVERSITY OF TEXAS MD ANDERSON CANCER CENTER   (United States)

Author keywords

Acyclic intervention; cyclic intervention; drug scheduling; gene regulatory network; genomic signal processing; optimal control

Indexed keywords

ACYCLIC INTERVENTION; CYCLIC INTERVENTION; DRUG SCHEDULING; GENE REGULATORY NETWORKS; GENOMIC-SIGNAL-PROCESSING; OPTIMAL CONTROLS;

COMPUTER SYSTEM RECOVERY; CONTROL; GENES; MARKOV PROCESSES; OPTIMIZATION; PATIENT REHABILITATION; PROBABILITY DISTRIBUTIONS; SIGNAL PROCESSING;

PATIENT TREATMENT;

EID: 84865216801     PISSN: 1053587X     EISSN: None     Source Type: Journal    
DOI: 10.1109/TSP.2012.2202114     Document Type: Article

References (23)

1. R. Simon and L. Norton, "The Norton-Simon hypothesis: Designing more effective and less toxic chemotherapeutic regimens," Nature Clin. Practice Oncol., vol. 3, no. 8, pp. 406-407, 2006. (Pubitemid 44203808)
2. L. S. Goodman, L. L. Brunton, and B. Chabner, Goodman & Gilman's The Pharmacological Basis of Therapeutics. New York: McGraw-Hill Medical, 2010, ser. Goodman and Gilman's the Pharmacol. Basis of Therapeut.
3. I. Shmulevich, E. R. Dougherty, S. Kim, and W. Zhang, "Probabilistic boolean networks: A rule-based uncertainty model for gene regulatory networks," Bioinformatics, vol. 18, no. 2, pp. 261-274, 2002. (Pubitemid 34183104)
4. D. P. Bertsekas, Dynamic Programming and Optimal Control. New York: Athena Scientific, 2007, ser. Athena scientific optimization and computation series.
5. R. Pal, A. Datta, and E. R. Dougherty, "Optimal infinite-horizon control for probabilistic Boolean networks," IEEE Trans. Signal Process., vol. 54, no. 6, pp. 2375-2387, Jun. 2006. (Pubitemid 43805580)
6. G. Vahedi, B. Faryabi, J.-F. Chamberland, A. Datta, and E. R. Dougherty, "Optimal intervention strategies for cyclic therapeutic methods," IEEE Trans. Biomed. Eng., vol. 56, no. 2, pp. 281-291, Feb. 2009.
7. D. J. White, Finite Dynamic Programming: An Approach to Finite Markov Decision Processes. New York: Wiley-Interscience, 1978.
8. B. Faryabi, G. Vahedi, J.-F. Chamberland, A. Datta, and E. R. Dougherty, "Intervention in context-sensitive probabilistic boolean networks revisited," EURASIP J. Bioinformat. Syst. Biol., vol. 2009, pp. 5:1-5:13, Jan. 2009.
9. M. Brun, E. R. Dougherty, and I. Shmulevich, "Steady-state probabilities for attractors in probabilistic Boolean networks," Signal Process., vol. 85, pp. 1993-2013, Oct. 2005. (Pubitemid 41260387)
10. R. Pal, A. Datta, M. L. Bittner, and E. R. Dougherty, "Intervention in context-sensitive probabilistic boolean networks," Bioinformat., vol. 21, no. 7, pp. 1211-1218, 2005. (Pubitemid 40467947)
11. M. L. Littman, T. L. Dean, and L. P. Kaelbling, "On the complexity of solving Markov decision problems," in Proc. 11th Conf. Uncertainty in Artif. Intell., 1995, pp. 394-402, ser. UAI'95.
12. I. Shmulevich and E. R. Dougherty, Genomic Signal Processing. Princeton, NJ: Princeton Univ. Press, 2007, ser. Princeton series in applied mathematics.
13. A. Faure, A. Naldi, C. Chaouiya, and D. Thieffry, "Dynamical analysis of a generic boolean model for the control of the mammalian cell cycle," Bioinformatics, vol. 22, no. 14, pp. e124-e131, 2006. (Pubitemid 44288280)
14. B. Faryabi, J.-F. Chamberland, G. Vahedi, A. Datta, and E. R. Dougherty, "Optimal intervention in asynchronous genetic regulatory networks," IEEE J. Sel. Topics in Signal Process., vol. 2, no. 3, pp. 412-423, Jun. 2008.
15. B. Faryabi, G. Vahedi, J.-F. Chamberland, A. Datta, and E. R. Dougherty, "Optimal constrained stationary intervention in gene regulatory networks," EURASIP J. Bioinformat. Syst. Biol., vol. 2008, 2008, article ID 620767, 10 pages.
16. W.-K. Ching, S.-Q. Zhang, Y. Jiao, T. Akutsu, N.-K. Tsing, and A. S. Wong, "Optimal control policy for probabilistic boolean networks with hard constraints," IET Syst. Biol., vol. 3, no. 2, pp. 90-99, Mar. 2009.
17. R. Pal, A. Datta, and E. R. Dougherty, "Robust intervention in probabilistic Boolean networks," IEEE Trans. Signal Process., vol. 56, no. 3, pp. 1280-1294, Mar. 2008. (Pubitemid 351386284)
18. R. Pal, A. Datta, and E. R. Dougherty, "Bayesian robustness in the control of gene regulatory networks," IEEE Trans. Signal Process., vol. 57, no. 9, pp. 3667-3678, Sep. 2009.
19. M. K. Ng, S.-Q. Zhang, W.-K. Ching, and T. Akutsu, "A control model for markovian genetic regulatory networks," Trans. Computat. Syst. Biol. V, vol. 4070, pp. 36-48, 2006. (Pubitemid 351150254)
20. T. Akutsu, M. Hayashida, W.-K. Ching, and M. K. Ng, "Control of boolean networks: Hardness results and algorithms for tree structured networks," J. Theoret. Biol., vol. 244, no. 4, pp. 670-679, 2007. (Pubitemid 46148979)
21. B. Faryabi, A. Datta, and E. R. Dougherty, "On approximate stochastic control in genetic regulatory networks," IET Syst. Biol., vol. 1, no. 6, pp. 361-368, Nov. 2007. (Pubitemid 351278457)
22. G. Vahedi, B. Faryabi, J.-F. Chamberland, A. Datta, and E. R. Dougherty, "Intervention in gene regulatory networks via a stationary mean-first-passage-time control policy," IEEE Trans. Biomed. Eng., vol. 55, no. 10, pp. 2319-2331, Oct. 2008.
23. I. Ivanov, P. Simeonov, N. Ghaffari, X. Qian, and E. R. Dougherty, "Selection policy-induced reduction mappings for boolean networks," IEEE Trans. Signal Process., vol. 58, no. 9, pp. 4871-4882, Sep. 2010.