Modelling - Parameters

Here you can find our set of parameters and the study of the sensitivity to parameters of our system.

Parameters

PDF file (detailed explanation on parameters and how we deduced them) for Toggle Switch

kplac	pLac production rate	600 proteins/min	[1]
kpTet	pTet production rate	600 proteins/min	[1]
kpMer	pMer production rate	600 proteins/min	[1]
δLacI	LacI degradation rate	4.6E-2 min−1	PDF file
δTetR	TetR degradation rate	4.6E-2 min−1	PDF file
δMerR	MerR degradation rate	4.6E-2 min−1	PDF file
KpLac - LacI	plac - LacI dissociation constant	5.45E-7 M	Kyoto 10
KpMer - MerR	pMer - MerR dissociation constant	1.00E-8 M	[2]
KpTet - TerR	pTet - TetR dissociation constant	5.00E-8 M	[3]
KLacI - IPTG	LacI - IPTG dissociation constant	2.96E-5 M	[4]
KTetR - aTc	aTc - TetR dissociation constant	1.5E-8 M	[5]
KHg2+ - MerR	Hg2+ - MerR dissociation constant	1E-7 M	[2]
nplac	plac cooperativity number	2,3	[4]
npMer	pMer cooperativity number	2,5	[6]
npTet	pTet cooperativity number	3	[7]

Sensitivity to parameters

References

[1] Nature. 2000 Jan 20;403(6767):335-8. A synthetic oscillatory network of transcriptional regulators. Elowitz MB, Leibler S.

[2] Mol Gen Genet. 1999 Aug;262(1):154-62. Purification and characterization of MerR, the regulator of the broad-spectrum mercury resistance genes in Streptomyces lividans 1326. Rother D, Mattes R, Altenbuchner J.

[3] David Braun et al. Parameter estimation for two synthetic gene networks: A case study. IEEE 2005.

[4] Nature 403, 339-342 (20 January 2000) Construction of a genetic toggle switch in Escherichia coli. Timothy S. Gardner Charles R. Cantor & James J. Collins

[5] O. Scholz, P. Schubert, M. Kintrup and W. Hillen, Tet repressor induction without Mg2+, Biochemistry 39 (2000), pp. 10914–10920

[6] Ultrasensitivity and heavy-metal selectivity of the allosterically modulated MerR transcription complex. D M Ralston and T V O'Halloran

[7] Systems analysis of a quorum sensing network: design constraints imposed by the functional requirements, network topology and kinetic constants. Goryachev AB, Toh DJ, Lee T.