Biomod/2012/TeamSendaiA/Simulation
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<img src="http://openwetware.org/images/c/c2/Title-kai.png">
Tohoku University
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Simulation
Contents
- <a href="#Calculation">Calculation</a>
- <a href="#Model&Fomula">Model&Fomula</a>
- <a href="#Electric Potential">Electric Potential</a>
Calculation
A phosphodiester bond make up the backbone of each helical strand of DNA.
The phosphate groups in the phosphodiester bond are negatively-charged.
Because gate is produced by DNA, we can not ignore the influence of the Coulomb force.
So we calculate the electric potential near the gate.
Model&Fomula
Sets the coordinates as follows.
<img src="http://openwetware.org/images/9/90/Cy.png" width="350px" height="300px">
<img src="http://openwetware.org/images/6/66/Lin.jpg" width="420px" height="300px">
And we use follow fomula to calculate electric potential.
Debye–Hückel equation
<img src="http://openwetware.org/images/e/ec/Potential_fomula.png" width="300px" height="90px">
Debye length
<img src="http://openwetware.org/images/9/9f/Debye.png" width="330px" height="100px">
Electric Potential
Electric potential changing z-axis at x-axis and y-axis is 0.
<img src="http://openwetware.org/images/0/09/1014x0y0potential.png" width="620px" height="450px">
the length of the gate is 88bp, 30nm.
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- <a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendaiA/Top">Top</a>
- <a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendaiA/Project">Project</a>
- <a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendaiA/Simulation">Simulation</a>
- <a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendaiA/Results_%26_Discussion">Experiment</a>
- <a href=" http://openwetware.org/wiki/BIOMOD/2012/Team_Sendai/Movie">Diary</a>
- <a href="http://openwetware.org/wiki/Biomod/2012/TeamSendaiA/Member ">Team</a>
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