Phase tracking and restoration of circadian rhythms by model-based optimal control
Phase tracking and restoration of circadian rhythms by model-based optimal control
- Author(s): O.S. Shaik ; S. Sager ; O. Slaby ; D. Lebiedz
- DOI: 10.1049/iet-syb:20070016
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- Author(s): O.S. Shaik 1 ; S. Sager 1 ; O. Slaby 1 ; D. Lebiedz 2
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View affiliations
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Affiliations:
1: Interdisciplinary Center for Scientific Computing, University of Heidelberg, Germany
2: Center for Biosystem Analysis, University of Freiburg, Germany
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Affiliations:
1: Interdisciplinary Center for Scientific Computing, University of Heidelberg, Germany
- Source:
Volume 2, Issue 1,
January 2008,
p.
16 – 23
DOI: 10.1049/iet-syb:20070016 , Print ISSN 1751-8849, Online ISSN 1751-8857
Periodic cellular processes and especially circadian rhythms governed by the oscillating expression of a set of genes based on feedback regulation by their products have become an important issue in biology and medicine. The central circadian clock is an autonomous biochemical oscillator with a period close to 24 h. Research in chronobiology demonstrated that light stimuli can be used to delay or advance the phase of the oscillator, allowing it to influence the underlying physiological processes. Phase shifting and restoration of altered rhythms can generally be viewed as open-loop control problems that may be used for therapeutic purposes in diseases. A circadian oscillator model of the central clock mechanism is studied for the fruit fly Drosophila and show how model-based mixed-integer optimal control allows for the design of chronomodulated pulse-stimuli schemes achieving circadian rhythm restoration in mutants and optimal phase synchronisation between the clock and its environment.
Inspec keywords: physiology; biocontrol; circadian rhythms; optimal control; open loop systems
Other keywords:
Subjects: Optimal control; Systems theory applications in biology and medicine; General, theoretical, and mathematical biophysics; Bio-optics (effects of microwaves, light, laser and other electromagnetic waves)
References
-
-
1)
- M.E. Jewett , R.E. Kronauer , C.A. Czeisler . Light-induced suppression of endogenous circadian amplitude in humans. Nature , 59 - 62
-
2)
- D.B. Leineweber , I. Bauer , H.G. Bock , J.P. Schlöder . An efficient multiple shooting based reduced SQP strategy for large-scale dynamic process optimization. Part I: theoretical aspects. Comput. Chem. Eng. , 157 - 166
-
3)
- H. Alper , C. Fischer , E. Nevoigt , G. Stephanopoulos . Tuning genetic control through promoter engineering. Proc. Natl Acad. Sci. USA , 12678 - 12683
-
4)
- J.-C. Leloup , A. Goldbeter . A model for circadian rhythms in Drosophila incorporating the formation of a complex between the PER and TIM proteins. J. Biol. Rhythms , 70 - 87
-
5)
- B. Laroche , D. Claude . Flatness-based control of PER protein oscillations in a Drosophila model. IEEE Trans. Autom. Control , 175 - 183
-
6)
- A. Goldbeter . Computational approaches to cellular rhythms. Nature , 238 - 245
-
7)
- S. Sager . (2005) Numerical methods for mixed-integer optimal control problems.
-
8)
- Z. Boulos , M.M. Macchi , M.P. Stürchler , K.T. Stewart , G.C. Brainard , A. Suhner , G. Wallace , R. Steffen . Light visor treatment for jet lag after westward travel across six time zones. Aviat. Space. Environ. Med. , 953 - 963
-
9)
- J.K. Ronald , B. Seymonr . Clock mutants of Drosophila melanogaster. Proc. Natl Acad. Sci. USA , 2112 - 2116
-
10)
- S. Reppert , D. Weaver . Coordination of circadian timing in mammals. Nature , 935 - 941
-
11)
- D. Lebiedz , S. Sager , H.G. Bock , P. Lebiedz . Annihilation of limit cycle oscillations by identification of critical perturbing stimuli via mixed-integer optimal control. Phys. Rev. Lett.
-
12)
- N. Bagheri , J. Stelling , F.J. Doyle . Quantitative performance metrics for robustness in circadian rhythms. Bioinformatics , 358 - 364
-
13)
- I. Iurisci , E. Filipski , J. Reinhardt , S. Bach , A. Gianella-Borradori , S. Iacobelli , L. Meijer , F. Levi . Improved tumor control through circadian clock induction by seliciclib, a cyclin-dependent kinase inhibitor. Cancer Res. , 10720 - 10728
-
14)
- D. Lebiedz , U. Brandt-Pollmann . Manipulation of self-aggregation patterns and waves in a reaction–diffusion system by optimal boundary control strategies. Phys. Rev. Lett.
-
15)
- C.D. Smolke , T.A. Carrier , J.D. Keasling . Coordinated, differential expression of two genes through directed mRNA cleavage and stabilization by secondary structures. Appl. Environ. Microbiol. , 5399 - 5405
-
16)
- D. Claude , J. Clairambault . Period shift induction by intermittent stimulation in a Drosophila model of per protein oscillations. Chronobiol. Int. , 1 - 14
-
17)
- Albersmeier, J., Bock, H.G.: `Efficient derivative generation in an adaptive BDF method', Proc. HPSC, 2006, Springer Verlag.
-
18)
- A. Goldbeter , D. Claude . Time-patterned drug administration:insights from a modeling approach. Chronobiol. Int. , 157 - 175
-
19)
- M.C. Mormont , J. Waterhouse , P. Bleuzen , S. Giachetti , A. Jami , A. Bogdan , J. Lellouch , J.L. Misset , Y. Touitou , F. Levi . Marked 24 h rest/activity rhythms are associated with better quality of life, better response, and longer survival in patients with metastatic colorectal cancer and good performance status. Clin. Cancer Res. , 3038 - 3045
-
20)
- M.H. de Smit , J. van Duin . Secondary structure of the ribosome binding site determines translational efficiency: a quantitative analysis. Proc. Natl Acad. Sci. USA , 7668 - 7672
-
21)
- M.W. Young . The molecular control of circadian behavioral rhythms and their entrainment in Drosophila. Annu. Rev. Biochem. , 135 - 152
-
22)
- M.P. Myers , K. Wager-Smith , A. Rothenfluh-Hilfiker , Y.M. Young . Light-induced degradation of TIMELESS and entrainment of the Drosophila circadian clock. Science , 1736 - 1740
-
23)
- J.C. Leloup , A. Goldbeter . Toward a detailed computational model for the mammalian circadian clock. Proc. Natl Acad. Sci. USA , 7051 - 7056
-
24)
- D.J. Dijk , S.W. Lockley . Integration of human sleep–wake regulation and circadian rhythmicity. J. Appl. Physiol. , 852 - 62
-
25)
- F. Levi . Cancer chronotherapy. Lancet Oncol. , 307 - 315
-
26)
- Bock, H.G., Plitt, K.J.: `A multiple shooting algorithm for direct solution of optimal control problems', Proc. 9th IFAC World Congress, Budapest, 1984, Pergamon, p. 243–247.
-
27)
- P. Ruoff , M. Vinsjevik , C. Monnerjahn , L. Rensing . The Goodwin model: simulating the effect of light pulses on the circadian sporulation rhythm of neurospora crassa. J. Theor. Biol. , 29 - 42
-
28)
- F. Levi , U. Schibler . Circadian rhythms: mechanisms and therapeutic implications. Annu. Rev. Pharmacol. , 593 - 628
-
29)
- E.J. Doedel . A program for the automatic bifurcation analysis of autonomous systems. Congr. Num. , 265 - 284
-
30)
- F. Levi . Chronotherapeutics: the relevance of timing in cancer therapy. Cancer Causes Control , 611 - 621
-
31)
- J.C. Leloup , A. Goldbeter . Modeling the molecular regulatory mechanism of circadian rhythms in Drosophila. BioEssays , 84 - 93
-
32)
- L. Fu , C.C. Lee . The circadian clock: pacemaker and tumour suppressor. Nature , 350 - 361
-
33)
- A.T. Winfree . (2001) The geometry of biological time.
-
34)
- H. Zeng , Z. Qian , M.P. Myers , M. Rosbash . A lightentrainment mechanism for the Drosophila circadian clock. Nature , 129 - 135
-
35)
- O. Slaby , S. Sager , O. Shaik , U. Kummer , D. Lebiedz . Optimal control of self-organized dynamics in cellular signal transduction. Math. Comput. Model. Dyn. syst. , 5 , 487 - 502
-
36)
- J. Stelling , E.D. Gilles , F.J. Doyle . Robustness properties of circadian clock architectures. Proc. Natl Acad. Sci. USA , 13210 - 13215
-
37)
- S.M. Rajaratnam , J. Arendt . Health in a 24-h society. Lancet , 999 - 1005
-
1)
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