Biomod/2012/UTokyo/UT-Komaba/Simulation: Difference between revisions
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[[image:Komaba2012-bistable.jpg|500px]] | [[image:Komaba2012-bistable.jpg|500px]] | ||
Using the bistable system, you can realize two different states, state"A" and state"B". | |||
State"A"has many staple strands of type A and few staple strands of type B. | |||
In contrast, "B"has few staple strands of type A and many staple strands of type B. | |||
We'll represent state"X" as "X", and staple strands of type X as X. | |||
So, how do concentrations of A and B change? | |||
In this section, we will show you the results of the simulations. | |||
All the reactions are here. | |||
But as you see later, these are simplified. | |||
If you have no idea about these reactions, please refer to"Idea" section. | |||
[[Image:Biomod-2012-UTokyo-UTKomaba-math1.png|300px]] | [[Image:Biomod-2012-UTokyo-UTKomaba-math1.png|300px]] | ||
For example, first reaction formula shows A is doubled by template <math>T_{A}</math> | |||
You should care that, A, B, iA, and iB naturally decreases because exonuclease decomposits these staple strands. | |||
To set up equations, let's close up some reactions. | |||
First of all, let's consider the reactions among A, iA and <math>T_{A}</math> | |||
<math>T_{A}</math>has three states. | |||
You can consider A increases in proportion to <math>T_{A}/n</math> | |||
So, let's find the value of <math>T_{A}</math> | |||
[[Image:Biomod-2012-UTokyo-UTKomaba-math3.png|300px]] | |||
[[Image:Biomod-2012-UTokyo-UTKomaba-math4.png|300px]] | |||
By these equations, you can get this conclusion. | |||
[[Image:Biomod-2012-UTokyo-UTKomaba-math5.png|300px]] | |||
==DNA tablet== | ==DNA tablet== | ||
Revision as of 22:03, 29 August 2012
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<li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba">Home</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Idea">Idea</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Simulation">Simulation</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Experiment">Experiment</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Progress">Progress</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Episode">Episode</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Team">Team</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Supplementary">Supplementary</a></li>
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Bistable system
Using the bistable system, you can realize two different states, state"A" and state"B".
State"A"has many staple strands of type A and few staple strands of type B. In contrast, "B"has few staple strands of type A and many staple strands of type B.
We'll represent state"X" as "X", and staple strands of type X as X.
So, how do concentrations of A and B change? In this section, we will show you the results of the simulations.
All the reactions are here. But as you see later, these are simplified. If you have no idea about these reactions, please refer to"Idea" section.
For example, first reaction formula shows A is doubled by template [math]\displaystyle{ T_{A} }[/math] You should care that, A, B, iA, and iB naturally decreases because exonuclease decomposits these staple strands.
To set up equations, let's close up some reactions.
First of all, let's consider the reactions among A, iA and [math]\displaystyle{ T_{A} }[/math]
[math]\displaystyle{ T_{A} }[/math]has three states.
You can consider A increases in proportion to [math]\displaystyle{ T_{A}/n }[/math]
So, let's find the value of [math]\displaystyle{ T_{A} }[/math]
By these equations, you can get this conclusion.
DNA tablet
5×5 origami simulation
- {{#widget:YouTube|id=BLX8pDfZ2Ek}}
15×15 origami simulation
- {{#widget:YouTube|id=5PmS2_7T44A}}
