OptCircuit: An optimization based method for computational design of genetic circuits

Additional file 1:

Supplementary material. This file provides the following information. i) List of promoters, transcripts and inducer molecules employed in this study. ii) A description of the activating and inhibiting interactions employed in this work. iii) The set of ordinary differential equations used for the genetic toggle switch example. In addition a brief description of the mechanistic detail embedded in these equations is provided. iv) List of nominal parameter values that were used for the genetic toggle switch example (1^st example). v) Equations describing the production terms for the promoters used for the genetic decoder and concentration band detector examples. vi) List of nominal parameter values that were used for the genetic decoder and concentration band detector examples (2^nd/3^rd examples). vii) The sensitivity of the reporter proteins to varying levels of input signals in the genetic decoder example. viii) Legend describing the representation adopted for the logic gates. ix) A brief description of the main ideas behind the outer approximation procedure.

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