Difference between revisions of "Team:BIT-China/FluorescentProbesModel"

 
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<body>
  
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    <ul id="left-nav">
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          <ul id="left-nav">
 
         <li>
 
         <li>
 
             <a>PROJECT</a>
 
             <a>PROJECT</a>
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                 <li><a href="https://2018.igem.org/Team:BIT-China/ExperimentsFeedback">Feedback</a></li>
 
                 <li><a href="https://2018.igem.org/Team:BIT-China/ExperimentsFeedback">Feedback</a></li>
 
                 <li><a href="https://2018.igem.org/Team:BIT-China/ExperimentsOutput">Output</a></li>
 
                 <li><a href="https://2018.igem.org/Team:BIT-China/ExperimentsOutput">Output</a></li>
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                 <li><a href="https://2018.igem.org/Team:BIT-China/ExperimentsInput">Input</a></li>
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                 <li><a href="https://2018.igem.org/Team:BIT-China/Results">Results</a></li>
 
             </ul>
 
             </ul>
 
         </li>
 
         </li>
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             <ul>
 
             <ul>
 
                 <li><a href="https://2018.igem.org/Team:BIT-China/Model">Overview</a></li>
 
                 <li><a href="https://2018.igem.org/Team:BIT-China/Model">Overview</a></li>
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                 <li><a href="https://2018.igem.org/Team:BIT-China/FluorescentProbesModel">Fluorescent Probes Model </a></li>
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                 <li><a href="https://2018.igem.org/Team:BIT-China/FluorescentProbesModel">Fluorescent Probe Model </a></li>
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                 <li><a href="https://2018.igem.org/Team:BIT-China/H<sub>2</sub>O<sub>2</sub>DecompositionModel">H<sub>2</sub>O<sub>2</sub>
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                 <li><a href="https://2018.igem.org/Team:BIT-China/H2O2DecompositionModel">H<sub>2</sub>O<sub>2</sub>
 
                         Decomposition Model</a></li>
 
                         Decomposition Model</a></li>
  
 
                 <li><a href="https://2018.igem.org/Team:BIT-China/roGFP2-Orp1MichaelisEquationModel">roGFP2-Orp1
 
                 <li><a href="https://2018.igem.org/Team:BIT-China/roGFP2-Orp1MichaelisEquationModel">roGFP2-Orp1
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                         Michaelis equations Model</a></li>
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                         Michaelis equation Model</a></li>
 
             </ul>
 
             </ul>
 
         </li>
 
         </li>
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     <div id="MD-content-all" class="MD-content-container" style="margin-top:calc(25vh - 30px);">
 
     <div id="MD-content-all" class="MD-content-container" style="margin-top:calc(25vh - 30px);">
 
         <div class="MD-title">
 
         <div class="MD-title">
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             <a style="border-bottom-style: solid;text-decoration: none;color: #131313;">Fluorescent Probe Model</a>
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             <a style="border-bottom-style: solid;text-decoration: none;color: #131313;">FLUORESCENT PROBE MODEL</a>
 
         </div>
 
         </div>
  
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                 <p class="MD-content-p">
 
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                     From the chart, it is clear that the FOD is in proportion to theH<sub>2</sub>O<sub>2</sub>, only
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                     From the chart, it is clear that the FOD is in proportion to the H<sub>2</sub>O<sub>2</sub>, only
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                     whenH<sub>2</sub>O<sub>2</sub> is between
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                     when H<sub>2</sub>O<sub>2</sub> is between
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                     0-2.5 mM. The data in the points thatH<sub>2</sub>O<sub>2</sub> is 5 are obviously not obeying
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                     0-2.5 mM. The data in the points that H<sub>2</sub>O<sub>2</sub> is 5 are obviously not obeying
 
                     linear model. Thus, we
 
                     linear model. Thus, we
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                     consider to building a linear model between 0 and 2.5mM ofH<sub>2</sub>O<sub>2</sub>. The new
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                     consider to building a linear model between 0 and 2.5mM of H<sub>2</sub>O<sub>2</sub>. The new
 
                     Scatter Plot of this part
 
                     Scatter Plot of this part
 
                     of data is showed below.
 
                     of data is showed below.
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                     The scatter plot witnessed a significant linearity of between FOD and H2O2, so we tend to use a
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                     The scatter plot witnessed a significant linearity of between FOD and H<sub>2</sub>O<sub>2</sub>,
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                    so we tend to use a
 
                     linear model to predict and explain the results.
 
                     linear model to predict and explain the results.
 
                 </p>
 
                 </p>
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                     With the criteria of the least square, we construct following linear model
 
                     With the criteria of the least square, we construct following linear model
 
                 </p>
 
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                 <p class="MD-formula">$$FOD_{i}=\beta_{0}+\beta_{1}\ H_{2}O_{2_{i}}+\epsilon_{i},\epsilon_{i} \sim
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                    N(0,\sigma^2)$$</p>
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                    $$
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                    FOD_{i}=\beta_{0}+\beta_{1}\ H_{2}O_{2_{i}}+\epsilon_{i},\epsilon_{i} \sim N(0,\sigma^2)
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                    $$
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                 <p class="MD-formula">$$FOD_{i}=4752+1214.48\ H_{2}O_{2_{i}}+\epsilon_{i},\epsilon_{i} \sim
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                    $$
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                    N(0,425.9)$$</p>
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                    FOD_{i}=4752+1214.48\ H_{2}O_{2_{i}}+\epsilon_{i},\epsilon_{i} \sim N(0,425.9)
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                    $$
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                 <p class="MD-content-p MD-margin-toP">
 
                 <p class="MD-content-p MD-margin-toP">
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                     The linear model we constructed validates the linearity between the concentration of H2O2 and the
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                     The linear model we constructed validates the linearity between the concentration of H<sub>2</sub>O<sub>2</sub>
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                     fluorescence intensity divided by the OD value, which the H2O2 is in the interval from 0 to 2.5mM.
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                    and the
 +
                     fluorescence intensity divided by the OD value, which the H<sub>2</sub>O<sub>2</sub> is in the
 +
                    interval from 0 to 2.5mM.
 
                     And we also analyzed the residuals of the model to ensure it works well. With this model, we can
 
                     And we also analyzed the residuals of the model to ensure it works well. With this model, we can
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                     properly predict the output when the concentration of H2O2 is in certain interval.
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                     properly predict the output when the concentration of H<sub>2</sub>O<sub>2</sub> is in certain
 +
                    interval.
 
                 </p>
 
                 </p>
 
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Latest revision as of 00:43, 18 October 2018

FLUORESCENT PROBE MODEL
Background

It can be seen from the reaction pathway that when the probe is excessive, the fluorescence intensity should be linear with the hydrogen peroxide content at a specific time. The model validates this linear relationship through experimental data and predicts future possible outcomes by constructing a linear regression model. Linear regression analysis

Definition

H2O2: The concentration of H2O2, units in mM.

FOD: Florescence intensity / OD.

Scatter Plot

The Scatter Plot of data are demonstrated below.

Fig.1

From the chart, it is clear that the FOD is in proportion to the H2O2, only when H2O2 is between 0-2.5 mM. The data in the points that H2O2 is 5 are obviously not obeying linear model. Thus, we consider to building a linear model between 0 and 2.5mM of H2O2. The new Scatter Plot of this part of data is showed below.

Fig.2

The scatter plot witnessed a significant linearity of between FOD and H2O2, so we tend to use a linear model to predict and explain the results.

Model Construction

With the criteria of the least square, we construct following linear model

$$FOD_{i}=\beta_{0}+\beta_{1}\ H_{2}O_{2_{i}}+\epsilon_{i},\epsilon_{i} \sim N(0,\sigma^2)$$

The property of the model are demonstrated below

Fig.3

It is obvious that the data fits linear model well and the parameters are following

$$FOD_{i}=4752+1214.48\ H_{2}O_{2_{i}}+\epsilon_{i},\epsilon_{i} \sim N(0,425.9)$$

The data along with the fitted values of the model and the confidence interval are pictured below.

Fig.4
Residuals Analysis

We also run a residuals analysis to ensure this linear model is proper to fit the data. First, we draw histogram and QQ-plot of standard residuals.

Fig.5
Fig.6

From the histogram, the standard residuals equally drop in the two sides of zero, which means that the residuals are possibly independent. Also, the QQ-plot implies the significant normality of residuals.

Results and Inspirations

The linear model we constructed validates the linearity between the concentration of H2O2 and the fluorescence intensity divided by the OD value, which the H2O2 is in the interval from 0 to 2.5mM. And we also analyzed the residuals of the model to ensure it works well. With this model, we can properly predict the output when the concentration of H2O2 is in certain interval.

Contact

Institute of Biotransformation and synthetic biosystem School of Chemistry and Chemical Engineering.

Beijing Institute of Technology

100081, Beijing

Email:lichun@bit.edu.cn

Copyright © 2018 BIT-China