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Volumn 487, Issue C, 2011, Pages 279-317

Probing the inputoutput behavior of biochemical and genetic systems: System identification methods from control theory

Author keywords

[No Author keywords available]

Indexed keywords

GUANINE NUCLEOTIDE BINDING PROTEIN;

EID: 78650908729     PISSN: 00766879     EISSN: None     Source Type: Book Series    
DOI: 10.1016/B978-0-12-381270-4.00010-X     Document Type: Chapter
Times cited : (17)

References (50)
  • 1
    • 33745454125 scopus 로고    scopus 로고
    • Synthetic biology: New engineering rules for an emerging discipline
    • Andrianantoandro, E., Basu, S., Karig, D. K., and Weiss, R. (2006). Synthetic biology: New engineering rules for an emerging discipline. Mol. Syst. Biol. 2, 2006-2028.
    • (2006) Mol. Syst. Biol. , vol.2 , pp. 2006-2028
    • Andrianantoandro, E.1    Basu, S.2    Karig, D.K.3    Weiss, R.4
  • 4
    • 0036407229 scopus 로고    scopus 로고
    • Physics and applications of microfluidics in biology
    • Beebe, D. J., Mensing, G. A., and Walker, G. M. (2002). Physics and applications of microfluidics in biology. Annu. Rev. Biomed. Eng. 4, 261-286.
    • (2002) Annu. Rev. Biomed. Eng. , vol.4 , pp. 261-286
    • Beebe, D.J.1    Mensing, G.A.2    Walker, G.M.3
  • 5
    • 68949215494 scopus 로고    scopus 로고
    • Microfluidic devices for measuring gene network dynamics in single cells
    • Bennett, M. R., and Hasty, J. (2009). Microfluidic devices for measuring gene network dynamics in single cells. Nat. Rev. Genet. 10, 628-638.
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 628-638
    • Bennett, M.R.1    Hasty, J.2
  • 7
    • 0001180444 scopus 로고
    • Transient response to chemotactic stimuli in Escherichia coli
    • Berg, H. C., and Tedesco, P. M. (1975). Transient response to chemotactic stimuli in Escherichia coli. Proc. Natl. Acad. Sci. USA 72, 3235-3239.
    • (1975) Proc. Natl. Acad. Sci. USA , vol.72 , pp. 3235-3239
    • Berg, H.C.1    Tedesco, P.M.2
  • 8
    • 0020398978 scopus 로고
    • Impulse responses in bacterial chemotaxis
    • Block, S. M., Segall, J. E., and Berg, H. C. (1982). Impulse responses in bacterial chemotaxis. Cell 31, 215-226.
    • (1982) Cell , vol.31 , pp. 215-226
    • Block, S.M.1    Segall, J.E.2    Berg, H.C.3
  • 9
    • 0020627869 scopus 로고
    • Adaptation kinetics in bacterial chemotaxis
    • Block, S. M., Segall, J. E., and Berg, H. C. (1983). Adaptation kinetics in bacterial chemotaxis. J. Bacteriol. 154, 312-323.
    • (1983) J. Bacteriol. , vol.154 , pp. 312-323
    • Block, S.M.1    Segall, J.E.2    Berg, H.C.3
  • 11
    • 0007671419 scopus 로고
    • Modelling and robust controller design using step response data
    • Cluett, W. R., and Wang, L. (1991). Modelling and robust controller design using step response data. Chem. Eng. Sci. 46, 2065-2077.
    • (1991) Chem. Eng. Sci. , vol.46 , pp. 2065-2077
    • Cluett, W.R.1    Wang, L.2
  • 12
    • 52949112270 scopus 로고    scopus 로고
    • Modeling molecular interaction networks with nonlinear ordinary differential equations
    • (Z. Szallasi, V. Periwal, and S. Jorg, eds.
    • Conrad, E. D., and Tyson, J. J. (2006). Modeling molecular interaction networks with nonlinear ordinary differential equations. In "System Modeling in Cellular Biology," (Z. Szallasi, V. Periwal, and S. Jorg, eds.), pp. 97-123.
    • (2006) System Modeling in Cellular Biology , pp. 97-123
    • Conrad, E.D.1    Tyson, J.J.2
  • 13
    • 0001144902 scopus 로고    scopus 로고
    • Efficient exact stochastic simulation of chemical systems with many species and many channels
    • MIT Press, Cambridge, MA
    • MIT Press, Cambridge, MA. Gibson, M. A., and Bruck, J. (2000). Efficient exact stochastic simulation of chemical systems with many species and many channels. J. Phys. Chem. A 104, 1876-1889.
    • (2000) J. Phys. Chem. A , vol.104 , pp. 1876-1889
    • Gibson, M.A.1    Bruck, J.2
  • 14
    • 33645429016 scopus 로고
    • Exact stochastic simulation of coupled chemical reactions
    • Gillespie, D. (1977). Exact stochastic simulation of coupled chemical reactions. J. Phys. Chem. 81, 2340-2361.
    • (1977) J. Phys. Chem. , vol.81 , pp. 2340-2361
    • Gillespie, D.1
  • 16
    • 34547607675 scopus 로고    scopus 로고
    • A synthetic gene network for tuning protein degradation in Saccharomyces cerevisiae
    • Grilly, C., Strickler, J., Pang, W. L., Bennett, M. R., and Hasty, J. (2007). A synthetic gene network for tuning protein degradation in Saccharomyces cerevisiae. Mol. Syst. Biol. 3, 127.
    • (2007) Mol. Syst. Biol. , vol.3 , pp. 127
    • Grilly, C.1    Strickler, J.2    Pang, W.L.3    Bennett, M.R.4    Hasty, J.5
  • 17
    • 0035319006 scopus 로고    scopus 로고
    • Computational studies of gene regulatory networks: In numero molecular biology
    • Hasty, J., McMillen, D. R., Isaacs, F., and Collins, J. J. (2001). Computational studies of gene regulatory networks: In numero molecular biology. Nat. Rev. Genet. 2, 268-279.
    • (2001) Nat. Rev. Genet. , vol.2 , pp. 268-279
    • Hasty, J.1    McMillen, D.R.2    Isaacs, F.3    Collins, J.J.4
  • 18
    • 0037079012 scopus 로고    scopus 로고
    • Engineered gene circuits
    • Hasty, J., McMillen, D. R., and Collins, J. J. (2002). Engineered gene circuits. Nature 420, 224-230.
    • (2002) Nature , vol.420 , pp. 224-230
    • Hasty, J.1    McMillen, D.R.2    Collins, J.J.3
  • 23
    • 0742304058 scopus 로고    scopus 로고
    • A frequency domain approach to sensitivity analysis of biochemical networks
    • Ingalls, B. P. (2004). A frequency domain approach to sensitivity analysis of biochemical networks. J. Phys. Chem. B 108, 1143-1152.
    • (2004) J. Phys. Chem. B , vol.108 , pp. 1143-1152
    • Ingalls, B.P.1
  • 24
    • 35448933023 scopus 로고    scopus 로고
    • Using control theory to study biology
    • (Z. Szallasi, V. Periwal, and S. Jorg, eds.) MIT Press, Cambridge, MA
    • Ingalls, B. P., Yi, T.-M., and Iglesias, P. A. (2006). Using control theory to study biology. In "System Modeling in Cellular Biology," (Z. Szallasi, V. Periwal, and S. Jorg, eds.), pp. 243-267. MIT Press, Cambridge, MA.
    • (2006) System Modeling in Cellular Biology , pp. 243-267
    • Ingalls, B.P.1    Yi, T.-M.2    Iglesias, P.A.3
  • 25
    • 33750979409 scopus 로고    scopus 로고
    • Synthetic gene regulatory systems
    • (Z. Szallasi, J. Stelling, and V. Periwal, eds.) MIT Press, Cambridge
    • Kærn, M., and Weiss, R. (2006). Synthetic gene regulatory systems. In "System Modeling in Cellular Biology," (Z. Szallasi, J. Stelling, and V. Periwal, eds.), pp. 269-295. MIT Press, Cambridge.
    • (2006) System Modeling in Cellular Biology , pp. 269-295
    • Kærn, M.1    Weiss, R.2
  • 26
  • 27
    • 77951107086 scopus 로고    scopus 로고
    • Synthetic biology: Applications come of age
    • Khalil, A. S., and Collins, J. J. (2010). Synthetic biology: Applications come of age. Nat. Rev. Genet. 11, 367-379.
    • (2010) Nat. Rev. Genet. , vol.11 , pp. 367-379
    • Khalil, A.S.1    Collins, J.J.2
  • 29
    • 0037079054 scopus 로고    scopus 로고
    • Computational systems biology
    • Kitano, H. (2002). Computational systems biology. Nature 420, 206-210.
    • (2002) Nature , vol.420 , pp. 206-210
    • Kitano, H.1
  • 30
    • 38549124352 scopus 로고    scopus 로고
    • Enlightening rhythms
    • Lipan, O. (2008). Enlightening rhythms. Science 319, 417-418.
    • (2008) Science , vol.319 , pp. 417-418
    • Lipan, O.1
  • 31
    • 18844457339 scopus 로고    scopus 로고
    • The use of oscillatory signals in the study of genetic networks
    • Lipan, O., and Wong, W. H. (2005). The use of oscillatory signals in the study of genetic networks. Proc. Natl. Acad. Sci. USA 102, 7063-7068.
    • (2005) Proc. Natl. Acad. Sci. USA , vol.102 , pp. 7063-7068
    • Lipan, O.1    Wong, W.H.2
  • 33
    • 59449103620 scopus 로고    scopus 로고
    • In vivo measurement of signaling cascade dynamics
    • McClean, M. N., Hersen, P., and Ramanathan, S. (2009). In vivo measurement of signaling cascade dynamics. Cell Cycle 8, 373-376.
    • (2009) Cell Cycle , vol.8 , pp. 373-376
    • McClean, M.N.1    Hersen, P.2    Ramanathan, S.3
  • 35
    • 38549084632 scopus 로고    scopus 로고
    • The frequency dependence of osmo-adaptation in Saccharomyces cerevisiae
    • Mettetal, J. T., Muzzey, D., Gómez-Uribe, C., and van Oudenaarden, A. (2008). The frequency dependence of osmo-adaptation in Saccharomyces cerevisiae. Science 319, 482-484.
    • (2008) Science , vol.319 , pp. 482-484
    • Mettetal, J.T.1    Muzzey, D.2    Gómez-Uribe, C.3    Van Oudenaarden, A.4
  • 36
    • 0242574982 scopus 로고    scopus 로고
    • Parameter estimation in biochemical pathways: A comparison of global optimization methods
    • Moles, C. G., Mendes, P., and Banga, J. R. (2003). Parameter estimation in biochemical pathways: A comparison of global optimization methods. Genome Res. 13, 2467-2474.
    • (2003) Genome Res , vol.13 , pp. 2467-2474
    • Moles, C.G.1    Mendes, P.2    Banga, J.R.3
  • 37
    • 37549016836 scopus 로고    scopus 로고
    • Heterotrimeric G protein activation by Gprotein- coupled receptors
    • Oldham, W. M., and Hamm, H. E. (2008). Heterotrimeric G protein activation by Gprotein- coupled receptors. Nat. Rev. Mol. Cell Biol. 9, 60-71.
    • (2008) Nat. Rev. Mol. Cell Biol. , vol.9 , pp. 60-71
    • Oldham, W.M.1    Hamm, H.E.2
  • 38
    • 66249088017 scopus 로고    scopus 로고
    • The second wave of synthetic biology: From modules to systems
    • Purnick, P. E. M., and Weiss, R. (2009). The second wave of synthetic biology: From modules to systems. Nat. Rev. Mol. Cell Biol. 10, 410-422.
    • (2009) Nat. Rev. Mol. Cell Biol. , vol.10 , pp. 410-422
    • Purnick, P.E.M.1    Weiss, R.2
  • 42
    • 77954024185 scopus 로고    scopus 로고
    • A modular gradient-sensing network for chemotaxis in Escherichia coli revealed by responses to time-varying stimuli
    • Shimizu, T. S., Tu, Y., and Berg, H. C. (2010). A modular gradient-sensing network for chemotaxis in Escherichia coli revealed by responses to time-varying stimuli. Mol. Syst. Biol. 6, 382.
    • (2010) Mol. Syst. Biol. , vol.6 , pp. 382
    • Shimizu, T.S.1    Tu, Y.2    Berg, H.C.3
  • 44
    • 85058201627 scopus 로고    scopus 로고
    • In vivo measurement by FRET of pathway activity in bacterial chemotaxis
    • Sourjik, V., Vaknin, A., Shimizu, T. S., and Berg, H. C. (2007). In vivo measurement by FRET of pathway activity in bacterial chemotaxis. Methods Enzymol. 423, 365-391.
    • (2007) Methods Enzymol. , vol.423 , pp. 365-391
    • Sourjik, V.1    Vaknin, A.2    Shimizu, T.S.3    Berg, H.C.4
  • 45
    • 54449097071 scopus 로고    scopus 로고
    • Modeling the chemotactic response of Escherichia coli to time-varying stimuli
    • Tu, Y., Shimizu, T. S., and Berg, H. C. (2008). Modeling the chemotactic response of Escherichia coli to time-varying stimuli. Proc. Natl. Acad. Sci. USA 105, 14855-14860.
    • (2008) Proc. Natl. Acad. Sci. USA , vol.105 , pp. 14855-14860
    • Tu, Y.1    Shimizu, T.S.2    Berg, H.C.3
  • 50
    • 0141703270 scopus 로고    scopus 로고
    • A quantitative characterization of the yeast heterotrimeric G protein cycle
    • Yi, T.-M., Kitano, H., and Simon, M. I. (2003). A quantitative characterization of the yeast heterotrimeric G protein cycle. Proc. Natl. Acad. Sci. USA 100, 10764-10769.
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 10764-10769
    • Yi, T.-M.1    Kitano, H.2    Simon, M.I.3


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