Intervention in context-sensitive probabilistic Boolean networks

Bioinformatics

Volumn 21, Issue 7, 2005, Pages 1211-1218

  Pal, Ranadip ^a   Datta, Aniruddha ^a   Bittner, Michael L ^b   Dougherty, Edward R ^a,c  

^a TEXAS A AND M UNIVERSITY   (United States)

^b The Transl Genomics Research Inst   (United States)

^c UNIVERSITY OF TEXAS   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

WNT PROTEIN;

ARTICLE; AUTOMATION; CONTROL; EVOLUTION; GENE ACTIVITY; GENE CONTROL; GENE DISRUPTION; GENE EXPRESSION; GENE VECTOR; INFORMATION SCIENCE; MATHEMATICAL MODEL; MELANOMA; METASTASIS; PHASE TRANSITION; PRIORITY JOURNAL; PROBABILITY; PROCESS DESIGN; PROCESS OPTIMIZATION; RANDOMIZATION; REGULATORY MECHANISM; STEADY STATE; TYPES OF STUDY;

EID: 16344368806     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/bti131     Document Type: Article

References (16)

1. Bertsekas,D.P. (1976). Dynamic Programming and Stochastic Control, Academic Press.
2. Bittner,M., Meltzer,P., Chen,Y., Jiang,Y., Seftor,E., Hendrix,M., Radmacher,M., Simon,R., Yakhini,Z., Ben-Dor,A. et al. (2000). Molecular classification of cutaneous malignant melanoma by gene expression profiling. Nature, 406, 536-540.
3. Datta,A., Choudhary,A., Bittner,M.L. and Dougherty,E.R.(2003) External control in markovian genetic regulatory networks. Machine learning, 52, 169-191.
4. Datta,A., Choudhary,A., Bittner,M.L. and Dougherty,E.R. (2004) External control in markovian genetic regulatory networks: the imperfect information case. Bioinformatics, 20, 924-930.
5. Gartel,A.L. and Tyner,A.L. (1999) Transcriptional regulation of p21 (WAF1/CIp1) gene. Exp. Cell Res., 246, 280-289.
6. Glass,L. and Kauffman,S. (1973) The logical analysis of continuous non-linear biochemical control networks. J. Theor. Biol. 39, 103-129.
7. Huang,S. (1999) Gene expression profiling, genetic networks, and cellular states: An integrating concept for tumorigenesis and drug discovery. J. Mol. Med., 77, 469-480.
8. Kauffman,S.A. (1969) Metabolic stability and epigenesis in randomly constructed genetic nets. Theoret. Biol., 22, 437-467.
9. Kauffman,S.A. (1993) The Origins of Order: Self-Organization and Selection in Evolution. Oxford University Press, New York.
10. Shmulevich,I., Dougherty,E.R., Kim,S. and Zhang,W. (2002a) Probabilistic Boolean networks: a rule-based uncertainty model for gene regulatory networks. Bioinformatics, 18, 261-274.
11. Shmulevich,I., Dougherty,E.R. and Zhang,W. (2002b) From Boolean to probabilistic Boolean networks as models of genetic regulatory networks. Proc. IEEE, 90, 1778-1792.
12. Shmulevich,I., Dougherty,E.R. and Zhang,W. (2002c) Gene perturbation and intervention in probabilistic boolean networks. Bioinformatics, 18, 1319-1331.
13. Shmulevich,I., Dougherty,E.R. and Zhang,W. (2002d) Control of stationary behavior in probabilistic Boolean networks by means of structural intervention. Biol. Syst., 10, 431-446.
14. Somogyi,R. and Sniegoski,C.A. (1996) Modeling the complexity of genetic networks: understanding multigenic and pleiotropic regulation. Complexity, 1, 45-63.
15. Weeraratna,A.T., Jiang,Y., Hostetter,G., Rosenblatt,K., Duray,P., Bittner,M. and Trent,J.M. (2002) Wnt5a signaling directly affects cell motility and invasion of metastatic melanoma. Cancer Cell 1, 279-288.
16. Zhou,X., Wang,X. Pal,R. Ivanov,I. Bittner,M. and Dougherty,E. (2004) A Bayesian connectivity-based approach to constructing probabilistic gene regulatory networks. Bioinformatics, 20, 2918-2927.