View source for An In Silico Modeling Toolbox for Rapid Prototyping of Circuits in a Biomolecular “Breadboard” System

{{Paper
|Title=An In Silico Modeling Toolbox for Rapid Prototyping of Circuits in a Biomolecular “Breadboard” System
|Authors=Zoltan A. Tuza, Vipul Singhal, Jongmin Kim, Richard M. Murray
|Source=2013 Conference on Decision and Control (CDC)
|Abstract=In this paper, we develop an experimentally val- idated MATLAB software toolbox as an accompaniment to an in vitro cell-free biomolecular “breadboard” system. The toolbox gives insight into the dynamics of unmeasured states in the cell-free system, accounting especially for the resource usage. Parameter lumping and the reduced order modeling are used to maintain computational tractability and to avoid ill-conditioning. The toolbox allows for most applications to be implemented with standard set of commands for ease of use. Due to the breadboarding nature of the underlying cell-free sys- tem, the toolbox provides a general framework for experiment planning and predictive modeling for synthetic biomolecular circuits cell-free systems, accelerating our capacity to rationally design circuits from well characterized parts.
|URL=http://www.cds.caltech.edu/~murray/preprints/tskm13-cdc_s.pdf
|Type=Conference paper
|ID=2013b
|Tag=tskm13-cdc
}}