Difference between revisions of "Team:JNFLS/Model"
Zhuangpeiyue (Talk | contribs) |
Zhuangpeiyue (Talk | contribs) |
||
| Line 11: | Line 11: | ||
<p>We linked the fdhF promoter to E0849(gene of gfp and terminator). After construction of targeted plasmid, we transformed it into Ecoli-DH5a and shaked the bacteria to the appropriate concentration. Then, we took bacteria to go to Qilu Hospital of Shandong University and detected PCO2 and P02 with Blood-gas Analyzer. The result is shown below:</p> | <p>We linked the fdhF promoter to E0849(gene of gfp and terminator). After construction of targeted plasmid, we transformed it into Ecoli-DH5a and shaked the bacteria to the appropriate concentration. Then, we took bacteria to go to Qilu Hospital of Shandong University and detected PCO2 and P02 with Blood-gas Analyzer. The result is shown below:</p> | ||
<img class="medium" src="https://static.igem.org/mediawiki/2017/e/e9/JNFLS-Model-1.png" /> | <img class="medium" src="https://static.igem.org/mediawiki/2017/e/e9/JNFLS-Model-1.png" /> | ||
| − | <em>Table 1：The GFP fluorescence intensity in different PCO2 condition.</em> | + | <em style="text-align:center;">Table 1：The GFP fluorescence intensity in different PCO2 condition.</em> |
<h2>Model</h2> | <h2>Model</h2> | ||
<p>We had the experiment about fdhF with different CO2 concentration, and fitted it as Hill equation. It can be seen from the Fig. 5 intuitively that the data fitting result completely consistents with the expected results, and the positive feedback regulation of the Hill equation fully reflects the experimental content.</p> | <p>We had the experiment about fdhF with different CO2 concentration, and fitted it as Hill equation. It can be seen from the Fig. 5 intuitively that the data fitting result completely consistents with the expected results, and the positive feedback regulation of the Hill equation fully reflects the experimental content.</p> | ||
| Line 20: | Line 20: | ||
<em>Fig. 5. fdhF</em> | <em>Fig. 5. fdhF</em> | ||
<em>where A = 129.8, α=-2694, δ=-39.24, m=-26.12, XM=75.61, ε=2717.</em> | <em>where A = 129.8, α=-2694, δ=-39.24, m=-26.12, XM=75.61, ε=2717.</em> | ||
| − | |||
</div> | </div> | ||
| + | <p>In order to verify the result of fitting, we have some parameters about it: SSE is 3.52e+6, R-square is 0.9337, Adjusted R-square is 0.8674, and RMDE is 839.1. These numbers show that we got a pretty fitting result.</p> | ||
</div> | </div> | ||
</div> | </div> | ||
</html> | </html> | ||
Revision as of 16:17, 1 November 2017
JNFLS
Model
Motivation
With the trend of more and more accurate trend in the field of synthetic biology, there is an increasing requirement of an accurate quantitative regulation of gene expression. Moreover, researchers can provide insight into how the quantitative regulation system can be improved with the application of mathematical model.
As we know, many kinds of tumors have characteristic anaerobic and necrotic areas, which is one of important reasons that tumors are resistant to radiotherapy and chemotherapy. The fdhF promoter is an anaerobic promoter that initiates expression only in an oxygen-deficient environment，which has great potential to be used as an important regulatory element for gene therapy. So, it is of great significance to understand how the promoter precisely activated under hypoxic conditions.
Introduction
We linked the fdhF promoter to E0849(gene of gfp and terminator). After construction of targeted plasmid, we transformed it into Ecoli-DH5a and shaked the bacteria to the appropriate concentration. Then, we took bacteria to go to Qilu Hospital of Shandong University and detected PCO2 and P02 with Blood-gas Analyzer. The result is shown below:
Table 1：The GFP fluorescence intensity in different PCO2 condition.
Model
We had the experiment about fdhF with different CO2 concentration, and fitted it as Hill equation. It can be seen from the Fig. 5 intuitively that the data fitting result completely consistents with the expected results, and the positive feedback regulation of the Hill equation fully reflects the experimental content.
The expression of this experiment is
Fig. 5. fdhF
where A = 129.8, α=-2694, δ=-39.24, m=-26.12, XM=75.61, ε=2717.
In order to verify the result of fitting, we have some parameters about it: SSE is 3.52e+6, R-square is 0.9337, Adjusted R-square is 0.8674, and RMDE is 839.1. These numbers show that we got a pretty fitting result.
