Difference between revisions of "Team:ZJUT-China/Model"
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| − | Our ODE model of the light-controlled arg cutting system ver1.0 We | + | Our ODE model of the light-controlled arg cutting system ver1.0 . We assumed that the expression rate is proportional to the copy number of the vectors, and vm means the mixture rate of one vector express the cas9, [light signal] we use is a dimensionless parameter here, and the cut off rate of cas9 conform Michaelis-Menten equation. |
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Revision as of 14:19, 13 October 2018
Team:ZJUT-China
Abstract
In order to make sure that our system could be common used by the researchers who want to clean the arg after experiments, we developed a model to Calculate the point when all arg are cleaned and the bacteria suicide. We got test data of our parts and then built rate equations. And next we used those rate equations to simulate how our system work and tried to find a better ratio of the vector’s copy number.
System modeling Var1.0
d[cut off]/dt=kf*[sg]*[cas9]*[arg]/(km+[arg])
Result
This is the result we get by the ODE model of the light control arg cutting system var1.0
System modeling Var3.0
This presents an issue for researchers and factors who wish to make use of our system of the arg killing parts in a more complex environment. In order to address this issue, we decided to develop a mathematical model of how light signal effects influence the time of cut off all args and suicide of bacterial by our arg killing system.
In the light control arg cutting system var3.0 we want add 3 repressors, one more sgRNA and a lysin gene to let our cells can cut off all the args and suicide by the time order we designed.
d[degrade_r1]/t=vm*[repressor_1]/([repressor_1]+km)
d[express_r2]/t=kf*[vector_2]
d[degrade_r2]/t=vm*[repressor_2]/([repressor_2]+km)
d[express_r3]/t=kf*[vector_1]
d[degrade_r3]/t=vm*[repressor_3]/([repressor_3]+km)
d[express_cas]/t=kf*[vector_1]*(vm-[repressor_1])
d[express_sg1]/t=0
d[express_sg2]/t=kf*[vector_2]*(vm-[repressor_2])
d[express_ly]/t=kf*[chromosome]*(vm-[repressor_3])
d[cut off_1]/t=kf*[arg_1]*[sg_1]*[cas9]/(km+[arg_1])
d[cut off_2]/t=kf*[arg_2]*[sg_2]*[cas9]/(km+[arg_2])
Through change the copy number of two vectors in our system model, we can get a ratio of the copy number let our system do nothing before we give the light signal, while has a faster react rate when we want it work.
Result
Discussion
Our modeling and analysis was focused to achieve a better theoretical grounding of forecasting how our system work after we give the light signal. From the test of our ODE model of the light control arg cutting system var3.0, we find give a short pulse light signal can make almost same effect as we constant light signal, so we can find a plan to just give a short pulse light signal but make our system till response as fast as it, and save energy used to give the light signal.
