Developing Objective Sensitivity Analysis of Periodic Systems: Case Studies of Biological Oscillators

Acta Automatica Sinica - Tập 38 - Trang 1065-1073 - 2012
Bao-Yun LU1,2, Hong YUE1,3
1Key Laboratory of Complex Systems and Intelligence Science, Institute of Automation, Chinese Academy of Sciences, Beijing 100190, P.R. China
2College of Computer Science and Technology, Henan Polytechnic University, Jiaozuo 454000, P.R. China
3Department of Electronic and Electrical Engineering, University of Strathclyde, Glasgow, G1 1QE, UK

Tài liệu tham khảo

Goldbeter, 1995, A model for circadian oscillations in the Drosophila period protein (PER), Proceedings of the Royal Society B: Biological Sciences, 261, 319, 10.1098/rspb.1995.0153 Goldbeter, 1996 Kruse, 2005, Oscillations in cell biology, Current Opinion in Cell Biology, 17, 20, 10.1016/j.ceb.2004.12.007 Edery, 2000, Circadian rhythms in a nutshell, Physiological Genomics, 3, 59, 10.1152/physiolgenomics.2000.3.2.59 Klipp, 2005 Mirsky, 2009, Automatic control in systems biology, 1335 Varma, 1999 Tomovic, 1972 Larter, 1983, Sensitivity analysis of autonomous oscillators. Separation of secular terms and determination of structural stability, The Journal of Physical Chemistry, 87, 3114, 10.1021/j100239a032 Larter, 1984, Sensitivity analysis of limit cycles with application to the Brusselator, Journal of Chemical Physics, 80, 4120, 10.1063/1.447293 Ingalls, 2004, Autonomously oscillating biochemical systems: parametric sensitivity of extrema and period, IEE Proceedings-System Biology, 1, 62, 10.1049/sb:20045005 Bagheri, 2007, Quantitative performance metrics for robustness in circadian rhythms, Bioinformatics, 23, 358, 10.1093/bioinformatics/btl627 Wilkins, 2009, Sensitivity analysis for oscillating dynamical systems, SIAM Journal on Scientific Computing, 31, 2706, 10.1137/070707129 Nikolaev, 2007, Sensitivity and control analysis of periodically forced reaction networks using the Green's function method, Journal of Theoretical Biology, 247, 442, 10.1016/j.jtbi.2007.02.013 Taylor, 2008, Sensitivity measures for oscillating systems: application to mammalian circadian gene network, IEEE Transactions on Automatic Control, 53, 177, 10.1109/TAC.2007.911364 Gunawan, 2006, Isochron-based phase response analysis of circadian rhythms, Biophysical Journal, 91, 2131, 10.1529/biophysj.105.078006 Zak, 2005, Sensitivity analysis of oscillatory (bio) chemical systems, Computers and Chemical Engineering, 29, 663, 10.1016/j.compchemeng.2004.08.021 Turanyi, 1990, Sensitivity analysis of complex kinetic systems: tools and applications, Journal of Mathematical Chemistry, 5, 203, 10.1007/BF01166355 Lu, 2010, Sensitivity analysis of oscillatory biological systems with a SVD-based algorithm, Systemics and Informatics World Network, 10, 37 Kramer, 1984, Sensitivity analysis of oscillatory systems, Applied Mathematical Modelling, 8, 328, 10.1016/0307-904X(84)90146-X Stelling, 2004, Robustness properties of circadian clock architectures, Proceedings of the National Academy of Sciences of the United States of America, 101, 13210, 10.1073/pnas.0401463101 Hayden, 2008, Shared principles in NF-κB signaling, Cell, 132, 344, 10.1016/j.cell.2008.01.020 Hoffmann, 2002, The IκB-NF-κB signaling module: temporal control and selective gene activation, Science, 298, 1241, 10.1126/science.1071914 Ashall, 2009, Pulsatile stimulation determines timing and specificity of NF-κB-dependent transcription, Science, 324, 242, 10.1126/science.1164860 Lu, 2010, A systematic approach in analyzing sustained oscillations in an NF-κB signal transduction pathway system, Acta Biophysica Sinica, 26, 406 Yue, 2008, Sensitivity analysis and robust experimental design of a signal transduction pathway system, International Journal of Chemical Kinetics, 40, 730, 10.1002/kin.20369 Kearns, 2006, IκBɛ provides negative feedback to control NF-κB oscillations, signaling dynamics, and inflammatory gene expression, Journal of Cell Biology, 173, 659, 10.1083/jcb.200510155