Difference between revisions of "Team:NYMU-Taipei/Model"
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| − | <h2 id=" | + | <h2 id="3" class="story-title subtitle">Promoter Selection Model</h2> |
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<h3>Objective</h3> | <h3>Objective</h3> | ||
| − | <p > | + | <p >Type I 5-alpha-reductase is presented in DP cells instead of type II when cultured in vitro, [1] but their efficiency in converting testosterone to DHT differ greatly. Since we want to simulate the in vivo behaviors of DP cells, we transfect an extra plasmid containing type II 5-alpha-reductase gene. The promoter should be chosen to produce the exact activity of type II 5-alpha-reductase we want. Therefore, we use a model to find out which promoter should be chosen.</p> |
<h3>Method</h3> | <h3>Method</h3> | ||
| − | <p > | + | <p >We compare the strength of a variety of promoters, determined the strength we need and find the corresponding promoter.</p> |
<h3>Result</h3> | <h3>Result</h3> | ||
| − | <p >The | + | <p >The strength we want is _______, and the corresponding promoter is _______.</p> |
| − | + | <p class="detailtrigger" id="3t" onclick="detail(event)">Click Here For More Info</p> | |
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| − | <p class="detailtrigger" id=" | + | |
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| − | <div class="detail story" id=" | + | <div class="detail story" id="3d"> |
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Revision as of 03:39, 26 September 2018
FRET Model
Objective
This model aims to find out how much FRET protein should be added into our screening system.
Method
Chemical equilibrium is used to determine the florescence level and the minimal FRET protein activity required to produce the florescence that can be detected. We assume the portion of active protein in all protein is constant.
Result
The optimal ratio of the amount of one FRET protein to that of the other is the following:
The figures in the table indicates the optimal ratio of the protein on the top over the protein on the left.
Click Here For More Info
mCherry Expression Model
Objective
We made a gene that connects DKK1 promoter to mCherry. The gene expression rate of DKK1 promoter is affected by testosterone activity and affects the expression level of mCherry. The expression level of mCherry should be greater than a threshold so that its florescence can be detected by devices. In order to achieve this threshold, sufficient amount of testosterone should be in our screening system; this is the sensitivity of our screening system. This model aims to find out the sensitivity of our screening system.
Method
We simulate the kinetics of transcription signal and then simulate the expression of DKK1. Testosterone efficiency is used in this model instead of testosterone activity. Florescence decay is not considered in this model because ……..
Result
[DKK1] = 5 + 0.006 [DHT]^2 where [DKK1] indicate activity in ng/ml and [DHT] indicates activity in nM. [mCherry] = c_1 + c_2 [Testosterone]^2 where square brackets indicate activity in M, and c_1 and c_2 are constants to be determined. Note: This model is accurate only when [DHT] is less than 50 nM.
Click Here For More Info
Promoter Selection Model
Objective
Type I 5-alpha-reductase is presented in DP cells instead of type II when cultured in vitro, [1] but their efficiency in converting testosterone to DHT differ greatly. Since we want to simulate the in vivo behaviors of DP cells, we transfect an extra plasmid containing type II 5-alpha-reductase gene. The promoter should be chosen to produce the exact activity of type II 5-alpha-reductase we want. Therefore, we use a model to find out which promoter should be chosen.
Method
We compare the strength of a variety of promoters, determined the strength we need and find the corresponding promoter.
Result
The strength we want is _______, and the corresponding promoter is _______.
Click Here For More Info