Translational science: Epistemology and the investigation process

Current Genomics

Volumn 10, Issue 2, 2009, Pages 102-109

  Dougherty, Edward ^a  

^a Texas AandM University   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

GENE PRODUCT;

CLINICAL MEDICINE; EPISTEMOLOGY; GENE CONTROL; GENE REGULATORY NETWORK; GENETIC ENGINEERING; GENETIC REGULATION; GENOMICS; HUMAN; MATHEMATICAL COMPUTING; MATHEMATICAL MODEL; MOLECULAR BIOLOGY; NONHUMAN; OPERATOR GENE; PROTEIN SYNTHESIS; PROTEOMICS; REVIEW; TRANSLATION REGULATION;

EID: 65949120704     PISSN: 13892029     EISSN: None     Source Type: Journal    
DOI: 10.2174/138920209787847005     Document Type: Review

References (29)

1. Levine, J. Lost in translation: facing up to translational research. Diabetes 2007, 56: 2841.
2. 2 Online 2009, 4.
3. Mehta, T., Murat., T., Allison, D.B. Towards sound epistemological foundations of statistical methods for high-dimensional biology. Nat. Genet. 2004, 36: 943-947.
4. Dougherty, E.R. On the epistemological crisis in genomics. Curr. Genomics 2008, 9: 69-79.
5. Dougherty, E.R., Braga-Neto, U. M. Epistemology of computational biology: mathematical models and experimental prediction as the basis of their validity. Biol. Syst. 2006, 14: 65-90.
6. Reichenbach, H. The Rise of Scientific Philosophy, University of California Press, Berkeley, 1971.
7. Kant, I. Critique of Pure Reason, second edition, originally published 1787, Great Books of the Western World, 42, eds. R.M. Hutchins and M.J. Adler, Encyclopedia Britannica, Chicago, 1952.
8. Rosenblueth, A., Wiener, N. The role of models in science. Philos. Sci. 1945, 12: 316-321.
9. Dougherty, E.R., Hua, J., Bittner, M.L. Validation of computational methods in genomics. Curr. Genomics 2007, 8: 1-19.
10. Webster's New Twentieth Century Dictionary, Unabridged, Second Edition, Collins, New York, 1978.
11. Qian, X., Dougherty, E.R. Effect of function perturbation on the steady-state distribution of genetic regulatory networks: optimal structural intervention. IEEE Trans. Signal Process 2008, 56: 4966-4975.
12. Kolmogorov, A. Stationary sequences in Hilbert space. Bulletin Math. University Moscow 1941, 2.
13. Wiener, N. Extrapolation, Interpolation, and Smoothing of Stationary Time Series, MIT Press, Cambridge, 1948.
14. Pugachev, V.S. Theory of Random Functions and Its Application to Control Problems, Pergamon Press, Oxford, 1965.
15. Datta, A., Dougherty, E.R. Introduction to Genomic Signal Processing with Control, CRC Press, New York, 2007.
16. Bellman, R. Dynamic Programming, Princeton University Press, Princeton, 1957.
17. Bertsekas, D.P. Dynamic Programming and Stochastic Control, Academic Press, 1976.
18. Shmulevich, I., Dougherty, E.R., Kim, S., Zhang, W. Probabilistic Boolean networks: a rule-based uncertainty model for gene regulatory networks. Bioinformatics 2002, 18: 261-274.
19. Weeraratna, A.T., Jiang, Y., Hostetter, G., Rosenblatt, K., Duray, P., Bittner, M.L., Trent, J.M. Wnt5a signaling directly affects cell motility and invasion of metastatic melanoma. Cancer Cell 2002, 1: 279-288.
20. Pal, R., Datta, A., Dougherty, E.R. Optimal infinite horizon control for probabilistic Boolean networks. IEEE Trans. Signal Process. 2006, 54: 2375-2387.
21. Vahedi, G., Faryabi, B., Chamberland, J-F., Datta, A, Dougherty, E. R. Intervention in gene regulatory networks via a stationary mean-first-passage-time control policy. IEEE Trans. Biomed. Eng. 2008, 15: 2319-2331.
22. Kumar, P.R., Lin, W. Optimal adaptive controller for unknown Markov chains. IEEE Trans. Automat. Contr. 1982, 27: 765-774.
23. Nilim, A., El Ghaoui, L. Robust control of Markov decision processes with uncertain transition matrices. Oper. Res. 2005, 53: 780-798.
24. Pal, R., Datta, A., Dougherty, E. R. Robust intervention in probabilistic Boolean networks. IEEE Trans. Signal Process. 2008, 56: 1280-1294.
25. Wiener, N. Cybernetics: or Control and Communication in the Animal and Machine, MIT Press, Cambridge, 1948.
26. Ivanov, I., Pal, R., Dougherty, E.R. Dynamics preserving size reduction mappings for probabilistic Boolean networks. IEEE Trans. Signal Process. 2007, 55: 2310-2322.
27. Feldman, A.M. CTS: a new discipline to catalyze the transfer of information. CTS Clin. Transl. Sci. 2008, 1: 1-2.
28. Wiener, N., Rosenblueth, A. The mathematical formation of the problem of conduction of impulses in a network of connected excitable elements, specifically in cardiac muscle. Arch. Inst. Cardiol Mexico 1946, 16: 204-265.
29. Hanczar, B., Hua, J., Dougherty, E.R. Decorrelation of the true and estimated classifier errors in high-dimensional settings. EURASIP J. Bioinform. Syst. Biol. 2007, Article ID 38473, 12 pages.