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Team:SUSTC-Shenzhen-A/Modeling
From 2013.igem.org
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'''Abstract''' | '''Abstract''' | ||
<p>Our model is to simulate a cell-cell mutual help system that is inspired by the classic prisoner's dilemma. we use two kinds of operated cells to act as the two prisoners. Both of them are facing the same problem comes from the environment, if they do not help each other, both of them will get into a terrible situation. Even they choose to collaborate, one may also take the risk that another man would turn traitor to him. So it’s a complex problem that how do our prisoners to choose their strategy to make themselves survival. Here are all equations and variables we have worked out.</p> | <p>Our model is to simulate a cell-cell mutual help system that is inspired by the classic prisoner's dilemma. we use two kinds of operated cells to act as the two prisoners. Both of them are facing the same problem comes from the environment, if they do not help each other, both of them will get into a terrible situation. Even they choose to collaborate, one may also take the risk that another man would turn traitor to him. So it’s a complex problem that how do our prisoners to choose their strategy to make themselves survival. Here are all equations and variables we have worked out.</p> | ||
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'''So, how can our system perform this prisoner’s dilemma? ''' | '''So, how can our system perform this prisoner’s dilemma? ''' | ||
<p>We use the growth rate and the concentration of the cells to describe the living status of two prisoners, use Zeocin in our system to represent the punishment on our prisoners, and use the tetA(which will translate companying with the expressing of AHL) to bring Ni into the cells referring to the risk the as telling the lie. And if one receive the shield from another as sufficient AHL, he will start to produce ZeoR protein which can make him survive the Zeocin. </p> | <p>We use the growth rate and the concentration of the cells to describe the living status of two prisoners, use Zeocin in our system to represent the punishment on our prisoners, and use the tetA(which will translate companying with the expressing of AHL) to bring Ni into the cells referring to the risk the as telling the lie. And if one receive the shield from another as sufficient AHL, he will start to produce ZeoR protein which can make him survive the Zeocin. </p> | ||
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<p>We put our prisoners into a person to see what will happen to this pool man, this will help us understand how powerful the punishment is as well as tell us how much Zeocin we should use to create a temperate environment stress. | <p>We put our prisoners into a person to see what will happen to this pool man, this will help us understand how powerful the punishment is as well as tell us how much Zeocin we should use to create a temperate environment stress. | ||
As we can see from this figure, this antibiotic leads to a quick death of our prisoner. Without help one man can hardly get out of this problem.</p> | As we can see from this figure, this antibiotic leads to a quick death of our prisoner. Without help one man can hardly get out of this problem.</p> | ||
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<p>This media liked the whole modeling of our project.</p> | <p>This media liked the whole modeling of our project.</p> | ||
[[Media:modelingsustc.pdf]] | [[Media:modelingsustc.pdf]] | ||
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<p>This EC can tell us some important things such as whether there exists any sensitivity difference of AHL between the two cells, it can help us have a better understading of the coporation between these two cells. | <p>This EC can tell us some important things such as whether there exists any sensitivity difference of AHL between the two cells, it can help us have a better understading of the coporation between these two cells. | ||
As we can see there is a cliffy slope in our data, which give us the idea that the relationship between the AHL and cell concentration is not simply linear, so we should concider twise before we change this influential variable.</p> | As we can see there is a cliffy slope in our data, which give us the idea that the relationship between the AHL and cell concentration is not simply linear, so we should concider twise before we change this influential variable.</p> | ||
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'''3.the show begins''' | '''3.the show begins''' | ||
Result 1:Good Cooperation | Result 1:Good Cooperation | ||
<p>If both of our prisoners try to help each other things will be much better</p> | <p>If both of our prisoners try to help each other things will be much better</p> | ||
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Result 2: a Traitor | Result 2: a Traitor | ||
<p>If one of our prisoner wants to get others help without offering any reward, he may be well benefit at first, but as his partner get into the trouble, he will lose his lucky. This though go against the realistic, we can also take well advantage of this flaw in our safety idea. (In the four cases of prisoners’ dilemma there are three cases that the bad man can escape but in our model only if they are well cooperate with each other then they will have chance to run away, but such a good cooperate cannot be easily achieved especially outside the Lab)</p> | <p>If one of our prisoner wants to get others help without offering any reward, he may be well benefit at first, but as his partner get into the trouble, he will lose his lucky. This though go against the realistic, we can also take well advantage of this flaw in our safety idea. (In the four cases of prisoners’ dilemma there are three cases that the bad man can escape but in our model only if they are well cooperate with each other then they will have chance to run away, but such a good cooperate cannot be easily achieved especially outside the Lab)</p> | ||
| - | [[File: | + | [[File:Examp.jpg]] |
'''Result 3: The Egoists''' | '''Result 3: The Egoists''' | ||
If the both guy are imaginary smart, and have a strong believe that his partner will forswear for him, it’s obviously that they will get deserved penalty. | If the both guy are imaginary smart, and have a strong believe that his partner will forswear for him, it’s obviously that they will get deserved penalty. | ||
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'''Some more interesting results''' | '''Some more interesting results''' | ||
<p>The results all above are just considering the same situation that both the prisoners have a similar personality, that says our two cells have a very symmetry structure, their physiological parameter are nearly the same. Basing on this, every cell can act the same behavior when meet the same change in the environment.</p> | <p>The results all above are just considering the same situation that both the prisoners have a similar personality, that says our two cells have a very symmetry structure, their physiological parameter are nearly the same. Basing on this, every cell can act the same behavior when meet the same change in the environment.</p> | ||
<p>However, two pieces of leaves will never coincide in the world. We can’t adjust everything to meet our plan and this considerable material difference gives us the opportunity to have a sight of the real prisoner’s dilemma.</p> | <p>However, two pieces of leaves will never coincide in the world. We can’t adjust everything to meet our plan and this considerable material difference gives us the opportunity to have a sight of the real prisoner’s dilemma.</p> | ||
<p>What will happen if we put two people with different sensibility of other’s goodwill into this dilemma? To achieve this we can simply adjust the Hill coefficient of the differential equation of Zeor, to see what have found.</p> | <p>What will happen if we put two people with different sensibility of other’s goodwill into this dilemma? To achieve this we can simply adjust the Hill coefficient of the differential equation of Zeor, to see what have found.</p> | ||
| - | [[File: | + | [[File:Examp.jpg]] |
<p>There appears a clear game between our prisoners, and unlike other result this dynamic equilibrium crashed at last. It’s usually a common sense that the damped oscillation may lead to a stable equilibrium, , but you can hardly tell which people made the mistake. How our prisoners can performed such clumsy play, maybe we can have a farther study.</p> | <p>There appears a clear game between our prisoners, and unlike other result this dynamic equilibrium crashed at last. It’s usually a common sense that the damped oscillation may lead to a stable equilibrium, , but you can hardly tell which people made the mistake. How our prisoners can performed such clumsy play, maybe we can have a farther study.</p> | ||
Revision as of 04:17, 27 September 2013
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Modeling
Abstract
Our model is to simulate a cell-cell mutual help system that is inspired by the classic prisoner's dilemma. we use two kinds of operated cells to act as the two prisoners. Both of them are facing the same problem comes from the environment, if they do not help each other, both of them will get into a terrible situation. Even they choose to collaborate, one may also take the risk that another man would turn traitor to him. So it’s a complex problem that how do our prisoners to choose their strategy to make themselves survival. Here are all equations and variables we have worked out.
File:Examp.jpg So, how can our system perform this prisoner’s dilemma?
We use the growth rate and the concentration of the cells to describe the living status of two prisoners, use Zeocin in our system to represent the punishment on our prisoners, and use the tetA(which will translate companying with the expressing of AHL) to bring Ni into the cells referring to the risk the as telling the lie. And if one receive the shield from another as sufficient AHL, he will start to produce ZeoR protein which can make him survive the Zeocin.
Here are also some Differences
However our cell-cell mutual help system also do not all obey the classic prisoners’ dilemma, first of all, one prisoner can only have two certain choices in this traditional question, be honest or crafty. But as we have mentioned before, in our system two cells use AHL to help each other, namely the concentration here stands for the attitude of our cell, well it is right the concentration not the existence of AHL makes sense in our system, so our prisoner have a chance to make an elastic choice, they can decide to what level the cooperation will be put into effect. This important difference make our system more close to the realistic.
Then one prisoner will never really die in a classic situation, but in ours there exist some possibility that one cell can actually die out which will result in a big crash. This is what we should put our eyes on.
Test
To confirm whether our simulations can work out a good result, we want test some important parameters to see whether our subsystem can work properly,
1.the effect of Zeocin
We put our prisoners into a person to see what will happen to this pool man, this will help us understand how powerful the punishment is as well as tell us how much Zeocin we should use to create a temperate environment stress. As we can see from this figure, this antibiotic leads to a quick death of our prisoner. Without help one man can hardly get out of this problem.
This media liked the whole modeling of our project.
Media:modelingsustc.pdf 2.separate cell in the environment contain AHL
To test our relationship between the concentration of AHL and the concentration of our cells, we conduct this test. We put one of our prisoner into AHL concentration gradients to make sure where the efficient concentration of AHL lies, and we get the final cell concentration for each AHL gradients.
This EC can tell us some important things such as whether there exists any sensitivity difference of AHL between the two cells, it can help us have a better understading of the coporation between these two cells. As we can see there is a cliffy slope in our data, which give us the idea that the relationship between the AHL and cell concentration is not simply linear, so we should concider twise before we change this influential variable.
File:Examp.jpg 3.the show begins Result 1:Good Cooperation
If both of our prisoners try to help each other things will be much better
File:Examp.jpg Result 2: a Traitor
If one of our prisoner wants to get others help without offering any reward, he may be well benefit at first, but as his partner get into the trouble, he will lose his lucky. This though go against the realistic, we can also take well advantage of this flaw in our safety idea. (In the four cases of prisoners’ dilemma there are three cases that the bad man can escape but in our model only if they are well cooperate with each other then they will have chance to run away, but such a good cooperate cannot be easily achieved especially outside the Lab)
File:Examp.jpg Result 3: The Egoists If the both guy are imaginary smart, and have a strong believe that his partner will forswear for him, it’s obviously that they will get deserved penalty. File:Examp.jpg Some more interesting results
The results all above are just considering the same situation that both the prisoners have a similar personality, that says our two cells have a very symmetry structure, their physiological parameter are nearly the same. Basing on this, every cell can act the same behavior when meet the same change in the environment.
However, two pieces of leaves will never coincide in the world. We can’t adjust everything to meet our plan and this considerable material difference gives us the opportunity to have a sight of the real prisoner’s dilemma.
What will happen if we put two people with different sensibility of other’s goodwill into this dilemma? To achieve this we can simply adjust the Hill coefficient of the differential equation of Zeor, to see what have found.
There appears a clear game between our prisoners, and unlike other result this dynamic equilibrium crashed at last. It’s usually a common sense that the damped oscillation may lead to a stable equilibrium, , but you can hardly tell which people made the mistake. How our prisoners can performed such clumsy play, maybe we can have a farther study.
