Team:Wash U/Biological Parts
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[[Image:pucBAModelDiagram.jpg|thumb|200px|pucBA Expression Model Diagram]] | [[Image:pucBAModelDiagram.jpg|thumb|200px|pucBA Expression Model Diagram]] | ||
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[[Image:pucBAModelEq.jpg|thumb|200px|pucBA Model Equations]] | [[Image:pucBAModelEq.jpg|thumb|200px|pucBA Model Equations]] | ||
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[[Image:pucBAModelRxn.jpg|thumb|200px|pucBA Model Reactions]] | [[Image:pucBAModelRxn.jpg|thumb|200px|pucBA Model Reactions]] | ||
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[[Image:pucBAModelTestSim.jpg|thumb|200px]] | [[Image:pucBAModelTestSim.jpg|thumb|200px]] | ||
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'''Modeling the Gene Regulatory Network''' | '''Modeling the Gene Regulatory Network''' | ||
:Our group seeks to assess the optimality of the synthetic system that modulates pucB/A gene expression and LH2 complex assembly in ''Rhodobacter sphaeroides''. Here we employ a mathematical model of this system to generate predictions about the behavior of the active system in response to light input. Features of the system that the model may help investigate include the time scale of response to light signals, the robustness of the system in response to fluctuations in light intensity, and the translation between changes in gene expression and the absorbance spectrum of the engineered cells. | :Our group seeks to assess the optimality of the synthetic system that modulates pucB/A gene expression and LH2 complex assembly in ''Rhodobacter sphaeroides''. Here we employ a mathematical model of this system to generate predictions about the behavior of the active system in response to light input. Features of the system that the model may help investigate include the time scale of response to light signals, the robustness of the system in response to fluctuations in light intensity, and the translation between changes in gene expression and the absorbance spectrum of the engineered cells. | ||
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- | + | :Component characterization steps and literature searches are underway in order to obtain quantitative parameters for the reaction rates. In order to simulate behavior of the system, putative values were included that exaggerate true concentrations and time scales. OmpR was given an initial concentration normalized to one, and all other components were assumed insignificant initially to this value. An ideal light pulse was introduced at an instant and removed thirty simulation seconds later. From this rudimentary simulation it can be drawn that the nonlinearities of the phosphorylation and transcription factor binding kinetics effectively smooth the sharp light input. | |
=== References === | === References === |
Revision as of 23:27, 6 July 2009