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Team:Hong Kong HKU/project/modelling
From 2013.igem.org
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Before analyze the efficiency of PPK1 inside the MCP, and the maintenance of polyphosphate by MCP, it is necessary that the original distribution of the length of polyphosphate is determined. Let K0 denote the lower bound of poly-pi length above which poly-pi can be maintained in MCP. MCP will effectively deter poly-pi from being degraded by PPX in the cytoplasm IFF<br><br> | Before analyze the efficiency of PPK1 inside the MCP, and the maintenance of polyphosphate by MCP, it is necessary that the original distribution of the length of polyphosphate is determined. Let K0 denote the lower bound of poly-pi length above which poly-pi can be maintained in MCP. MCP will effectively deter poly-pi from being degraded by PPX in the cytoplasm IFF<br><br> | ||
| + | <img src="https://static.igem.org/mediawiki/2013/3/34/Asdfhkuequation.png"><br> | ||
| + | Where μ denotes the mean of discrete poly-pi length distribution PL(l), and ω denotes a certain coefficient, so that | ||
| + | <img src="https://static.igem.org/mediawiki/2013/d/d5/Asdfhkuequation2.png"><br>*Peffective is a proportion large enough to make E.capsi meaningful in production.<br><br> | ||
</font> | </font> | ||
| - | <br><br><br><br><br> | + | <font face=arial" size="3"> |
| + | Laboratory Results<br><br> | ||
| + | </font> | ||
| + | <font face="century gothic" size="3"> | ||
| + | Under the restriction of laboratory conditions, here we refer to Ryo Ohtomoa, Yoko Sekiguchib, Tetsuro Mimurac, Masanori Saitoe, Tatsuhiro Ezawaf assay results, 2004.<br> | ||
| + | (http://www.sciencedirect.com/science/article/pii/S0003269704002155) <br><br> | ||
| + | Since it’s hard to look at the precise results of PPK catalysis in laboratory, as our team has tried, the reverse reaction can be considered as a reference in computing the accumulation of poly-pi.<br> | ||
| + | Under Ohtomoa conditions, low-sensitivity of PPK to short-chain polyphosphate has been suggested, referring to Figure 3 in Ohtomoa paper. | ||
| + | <br><img src="https://static.igem.org/mediawiki/2013/9/95/Asdfhkuequation3.png"><br><br> | ||
| + | Time course analysis of PPK reaction using the fractions 1 and 7 as substrate | ||
| + | *The fraction 1, denoting poly-pi from from P10 to P40, diamonds; the fraction 7, denoting poly-pi from Pi to P32, circles. | ||
| + | <br><br> | ||
| + | Assay results manifest the following: | ||
| + | <img src="https://static.igem.org/mediawiki/2013/6/66/Asdfhkuequation4.png"> | ||
| + | <br><br></font><font face="arial" size="3"> | ||
| + | Statistical Test<br></font><font face="century gothic" size="3"> | ||
| + | Here we apply a Chi-square Test by hypothesizing L ~ Poi(θ), which could be verified through normalization of length L. | ||
| + | *Θ could be obtained by calculating from the sample.</font> | ||
| + | <font face="arial" size="3"> | ||
| + | Conclusion<br></font> | ||
| + | <font face="century gothic" size="3> | ||
| + | In experiment, if we could verify that the lower boundary of MCP maintained polyphosphate length is K0≤1.44θ, then it is ensured that E.capsi is highly effective at recycling rate of 80%. | ||
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| + | </font> | ||
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Revision as of 00:10, 28 September 2013
Modeling
Statistical analysis for Polyphosphate Quantification in PPK Reverse Action
Introduction
Before analyze the efficiency of PPK1 inside the MCP, and the maintenance of polyphosphate by MCP, it is necessary that the original distribution of the length of polyphosphate is determined. Let K0 denote the lower bound of poly-pi length above which poly-pi can be maintained in MCP. MCP will effectively deter poly-pi from being degraded by PPX in the cytoplasm IFF
Where μ denotes the mean of discrete poly-pi length distribution PL(l), and ω denotes a certain coefficient, so that
*Peffective is a proportion large enough to make E.capsi meaningful in production.
Laboratory Results
Under the restriction of laboratory conditions, here we refer to Ryo Ohtomoa, Yoko Sekiguchib, Tetsuro Mimurac, Masanori Saitoe, Tatsuhiro Ezawaf assay results, 2004.
(http://www.sciencedirect.com/science/article/pii/S0003269704002155)
Since it’s hard to look at the precise results of PPK catalysis in laboratory, as our team has tried, the reverse reaction can be considered as a reference in computing the accumulation of poly-pi.
Under Ohtomoa conditions, low-sensitivity of PPK to short-chain polyphosphate has been suggested, referring to Figure 3 in Ohtomoa paper.
Time course analysis of PPK reaction using the fractions 1 and 7 as substrate *The fraction 1, denoting poly-pi from from P10 to P40, diamonds; the fraction 7, denoting poly-pi from Pi to P32, circles.
Assay results manifest the following:
Statistical Test
Here we apply a Chi-square Test by hypothesizing L ~ Poi(θ), which could be verified through normalization of length L. *Θ could be obtained by calculating from the sample. Conclusion
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Statistical analysis for Polyphosphate Quantification in PPK Reverse Action
Introduction
Before analyze the efficiency of PPK1 inside the MCP, and the maintenance of polyphosphate by MCP, it is necessary that the original distribution of the length of polyphosphate is determined. Let K0 denote the lower bound of poly-pi length above which poly-pi can be maintained in MCP. MCP will effectively deter poly-pi from being degraded by PPX in the cytoplasm IFF
Where μ denotes the mean of discrete poly-pi length distribution PL(l), and ω denotes a certain coefficient, so that
*Peffective is a proportion large enough to make E.capsi meaningful in production.
Laboratory Results
Under the restriction of laboratory conditions, here we refer to Ryo Ohtomoa, Yoko Sekiguchib, Tetsuro Mimurac, Masanori Saitoe, Tatsuhiro Ezawaf assay results, 2004.
(http://www.sciencedirect.com/science/article/pii/S0003269704002155)
Since it’s hard to look at the precise results of PPK catalysis in laboratory, as our team has tried, the reverse reaction can be considered as a reference in computing the accumulation of poly-pi.
Under Ohtomoa conditions, low-sensitivity of PPK to short-chain polyphosphate has been suggested, referring to Figure 3 in Ohtomoa paper.
Time course analysis of PPK reaction using the fractions 1 and 7 as substrate *The fraction 1, denoting poly-pi from from P10 to P40, diamonds; the fraction 7, denoting poly-pi from Pi to P32, circles.
Assay results manifest the following:
Statistical Test
Here we apply a Chi-square Test by hypothesizing L ~ Poi(θ), which could be verified through normalization of length L. *Θ could be obtained by calculating from the sample. Conclusion
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