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<a href="#introduction">Introduction</a> | <a href="#introduction">Introduction</a> | ||
</li> | </li> | ||
− | + | <li> | |
− | <a data-target="#First Part">Variation of Leptin | + | <a data-target="#First Part">Variation of Leptin Curve</a> |
</li> | </li> | ||
− | + | <li> | |
<a data-target="#Second Part">Stoichiometry Cell growth </a> | <a data-target="#Second Part">Stoichiometry Cell growth </a> | ||
</li> | </li> | ||
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<div class="container-fluid first-container" id="introduction"> | <div class="container-fluid first-container" id="introduction"> | ||
<div class="row" id="introduction"> | <div class="row" id="introduction"> | ||
− | <div class="col"> | + | <div class="col"> |
− | <p class="lead">As wound healing is a very complex and dynamic process there has always been an interest in predicting how cell types and growth factors would interact when treating a wound as it involves the relation of these elements.</p> | + | <p class="lead">As wound healing is a very complex and dynamic process there has always been an |
− | <p class="lead">Leptin stimulates the proliferation of several cell types like myofibroblast, which accept leptin into Ob receptors and when activated have been shown produce TGF-B1, a protein that controls proliferation and is also a regulator of leptin expression. Mesenchymal cells induce cell migration in a L929 fibroblast culture (Walter, Wright, Fuller, MacNeil, and Johnson, 2010) via the expression of TGF-B1, chemokines IL-6, IL-8, MCP-1, among other healing mediators, which keratinocytes and fibroblasts receive.</p> | + | interest in predicting how cell types and growth factors would interact when treating a wound |
− | + | as it involves the relation of these elements.</p> | |
− | + | <p class="lead">Leptin stimulates the proliferation of several cell types like myofibroblast, which | |
− | + | accept leptin into Ob receptors and when activated have been shown produce TGF-B1, a protein | |
− | + | that controls proliferation and is also a regulator of leptin expression. Mesenchymal cells | |
− | + | induce cell migration in a L929 fibroblast culture (Walter, Wright, Fuller, MacNeil, and | |
− | + | Johnson, 2010) via the expression of TGF-B1, chemokines IL-6, IL-8, MCP-1, among other healing | |
− | + | mediators, which keratinocytes and fibroblasts receive.</p> | |
− | + | <div class="col-12"> | |
+ | <div class="text-center"> | ||
+ | <figure class="figure text-center"> | ||
+ | <img style="max-height: 40vh;" src="https://static.igem.org/mediawiki/2018/c/c3/T--TecCEM--Fibroblastos.png" | ||
+ | class="figure-img img-fluid rounded" alt="IMP-1"> | ||
+ | <figcaption class="figure-caption"><strong>Figure 1. Fibroblast representation</strong></figcaption> | ||
+ | </figure> | ||
</div> | </div> | ||
+ | </div> | ||
− | <p>As it is of high importance to accurately predict how growth factors will affect the cells and the medium, iGEM TecCEM team proposed a mathematical model which aim was to predict the effect that leptin will have in cell proliferation after being released by chitosan nanoparticles, the amount of leptin that will be absorbed by the cells and the amount remaining in the medium.</p> | + | <p>As it is of high importance to accurately predict how growth factors will affect the cells and |
+ | the medium, iGEM TecCEM team proposed a mathematical model which aim was to predict the effect | ||
+ | that leptin will have in cell proliferation after being released by chitosan nanoparticles, the | ||
+ | amount of leptin that will be absorbed by the cells and the amount remaining in the medium.</p> | ||
</div> | </div> | ||
</div> | </div> | ||
<div class="row"> | <div class="row"> | ||
<div class="col"> | <div class="col"> | ||
− | + | <figure class="figure text-center"> | |
<img src="https://static.igem.org/mediawiki/2018/c/c4/T--TecCEM--DiagramaMathmodel.jpg" class="figure-img img-fluid rounded" | <img src="https://static.igem.org/mediawiki/2018/c/c4/T--TecCEM--DiagramaMathmodel.jpg" class="figure-img img-fluid rounded" | ||
alt="Scaffolddes1"> | alt="Scaffolddes1"> | ||
− | <figcaption class="figure-caption"><strong>Figure 2. Graphical illustration of the math modeling</strong></figcaption> | + | <figcaption class="figure-caption"><strong>Figure 2. Graphical illustration of the math |
+ | modeling</strong></figcaption> | ||
</figure> | </figure> | ||
− | <p></p> | + | <p></p> |
− | <h4 id="First Part">Variation of Leptin | + | <h4 id="First Part">Variation of Leptin Curve</h4> |
− | + | <p> A simple system of differential equations was used to model the above.</p> | |
− | + | <div class="col-12"> | |
+ | <figure class="figure text-center"> | ||
+ | <img style="max-height: 40vh;" src="https://static.igem.org/mediawiki/2018/c/cb/T--TecCEM--Eaqua.png" | ||
+ | class="figure-img img-fluid rounded" alt="IMP-1"> | ||
+ | </figure> | ||
+ | </div> | ||
+ | <p>Where</p> | ||
+ | <ul> | ||
+ | <li>k1= Degradation leptin</li> | ||
+ | <li>k2= Leptin adsorption fibroblast </li> | ||
+ | <li>x2= Concentration of leptin in chitosan </li> | ||
+ | <li>x1= Concentration of leptin inside the cell</li> | ||
+ | <p></p> | ||
+ | </ul> | ||
+ | <p>The employed equations were created based on the physical behavior of leptin's dispersion, as | ||
+ | shown next:</p> | ||
+ | <ul> | ||
+ | <li>Equation 1 represents the variation of concentration of leptin in time; the liberation of | ||
+ | leptin towards the medium at a constant velocity "k1" considering the amount of leptin left | ||
+ | on the medium and the leptin adsorbed by cells.</li> | ||
+ | <li>Equation 2 represents the amount of leptin adsorbed by the cells at a constant velocity | ||
+ | "k2" with an overall performance Yxs used to harmonize units.</li> | ||
+ | <p>In order to solve the equation system with the form y'= f(t,y) ODE Matlab Solver was | ||
+ | employed using the proposed algorithm and establishing initial conditions:</p> | ||
+ | <div class="col-12"> | ||
<div class="text-center"> | <div class="text-center"> | ||
− | <figure class="figure | + | <figure class="figure text-center"> |
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
<img style="max-height: 100vh;" src="https://static.igem.org/mediawiki/2018/f/f2/T--TecCEM--codigo3eq.png" | <img style="max-height: 100vh;" src="https://static.igem.org/mediawiki/2018/f/f2/T--TecCEM--codigo3eq.png" | ||
class="figure-img img-fluid rounded" alt="IMP-1"> | class="figure-img img-fluid rounded" alt="IMP-1"> | ||
Line 85: | Line 99: | ||
</div> | </div> | ||
</div> | </div> | ||
− | <p>The study of drug release dynamic aims to understand the process of drug characteristics in the human body.<p> | + | <p>The study of drug release dynamic aims to understand the process of drug characteristics in |
− | <p>Summary of the functions: </p> | + | the human body.<p> |
− | + | <p>Summary of the functions: </p> | |
− | + | <div class="col-12"> | |
− | + | <figure class="figure text-center"> | |
− | + | <img style="max-height: 40vh;" src="https://static.igem.org/mediawiki/2018/1/1e/T--TecCEM--Equations23.png" | |
− | + | class="figure-img img-fluid rounded" alt="IMP-1"> | |
+ | </figure> | ||
+ | </div> | ||
+ | <p>If we plot the system, the following graph represents the kinetics of leptin, | ||
+ | simulating the rate of reduction of the leptin in the nanoparticles a time x while | ||
+ | this rate is relating with the adsorption rate of the leptin by the cells. The blue | ||
+ | line represents the first event and the red line represents the adsorption rate. | ||
+ | </p> | ||
+ | <figure class="figure text-center"> | ||
+ | <img src="https://static.igem.org/mediawiki/2018/1/1b/T--TecCEM--grafica22.png" class="figure-img img-fluid rounded" | ||
+ | alt="Scaffolddes1"> | ||
+ | <figcaption class="figure-caption"><strong>Figure 4. Graphical representation of | ||
+ | the leptin adsorption: Change in concentration at different times with two | ||
+ | parameters </strong></figcaption> | ||
</figure> | </figure> | ||
− | + | <p></p> | |
− | + | <p>If we consider a third parameter, using the following equation: </p> | |
− | <p>If we | + | <div class="col-12"> |
− | <figure class="figure text-center"> | + | <figure class="figure text-center"> |
− | + | <img style="max-height: 40vh;" src="https://static.igem.org/mediawiki/2018/d/dc/T--TecCEM--equacion3.png" | |
− | + | class="figure-img img-fluid rounded" alt="IMP-1"> | |
− | + | </figure> | |
− | + | </div> | |
− | + | <p>Equation 3 represents the amount of leptin that is released at the medium at a | |
− | <p> | + | constant velocity "k3" and then remains static in the medium.</p> |
− | + | <p>The Matlab code is shows below </p> | |
− | + | <div class="col-12"> | |
− | <figure class="figure text- | + | <figure class="figure text-center"> |
− | <img | + | <img style="max-height: 100vh;" src="https://static.igem.org/mediawiki/2018/a/a7/T--TecCEM--codigo2eq.png" |
− | class="figure-img img-fluid rounded" alt=" | + | class="figure-img img-fluid rounded" alt="IMP-1"> |
+ | <figcaption class="figure-caption"><strong>Figure 5. Matlab code</strong></figcaption> | ||
+ | </figure> | ||
+ | </div> | ||
+ | <p>The graph presents the kinetics of leptin, representing the rate of reduction at | ||
+ | a time x while simulating at the same time the increase of leptin in the medium | ||
+ | and the rate of adsorption by the cells.</p> | ||
+ | <figure class="figure text-center"> | ||
+ | <img src="https://static.igem.org/mediawiki/2018/a/a4/T--TecCEM--GraficaMathModel.jpg" | ||
+ | class="figure-img img-fluid rounded" alt="Scaffolddes1"> | ||
+ | <figcaption class="figure-caption"><strong>Figure 6. Graphical representation | ||
+ | of the leptin adsorption: Change in concentration at different times | ||
+ | with three parameters</strong></figcaption> | ||
</figure> | </figure> | ||
− | + | <p>The blue line represents the decreasing rate of the leptin, the red line | |
− | + | represents the adsorption rate and the yellow one is the concentration of the | |
− | + | leptin in the medium. </p> | |
− | + | <p></p> | |
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | <p>The blue line represents the decreasing rate of the leptin, the red line represents the adsorption rate and the yellow one is the concentration of the leptin in the medium. </p> | + | |
− | <p></p> | + | |
− | <h4 id="Second Part">Stoichiometry Cell growth</h4> | + | <h4 id="Second Part">Stoichiometry Cell growth</h4> |
− | <p>Additionally, we sought to have the relationship between a measurable product to have a direct relationship with cell proliferation while in the presence and absence of leptin. For this, a general stoichiometric analysis was carried out for the cell growth reaction. This method was used because it is possible to follow the assertion of all the carbon, hydrogen, oxygen, nitrogen atoms and all the other elements that are consumed during the cell growth process, and then these atoms are incorporated again for the formation of new cells and products, that is to say, taking into account the matter and energy balances.</p> | + | <p>Additionally, we sought to have the relationship between a measurable product to |
− | + | have a direct relationship with cell proliferation while in the presence and | |
− | <p>If one considers the components that are present in greater quantities and there is a presence of unique products formed, the following aerobic cell growth reaction can be written:</p> | + | absence of leptin. For this, a general stoichiometric analysis was carried out |
− | <ul> | + | for the cell growth reaction. This method was used because it is possible to |
− | <li>Without leptin</li> | + | follow the assertion of all the carbon, hydrogen, oxygen, nitrogen atoms and |
− | <figure class="figure text-center"> | + | all the other elements that are consumed during the cell growth process, and |
− | + | then these atoms are incorporated again for the formation of new cells and | |
− | + | products, that is to say, taking into account the matter and energy balances.</p> | |
− | + | ||
− | <li>With leptin</li> | + | <p>If one considers the components that are present in greater quantities and there |
− | <figure class="figure text-center"> | + | is a presence of unique products formed, the following aerobic cell growth |
− | + | reaction can be written:</p> | |
− | + | <ul> | |
− | + | <li>Without leptin</li> | |
− | <p>Glucose was considered as the main source of carbon and glutamine as the main source of nitrogen. On the other hand, lactic acid and ammonia as unique products, in addition to carbon dioxide and water.</p> | + | <figure class="figure text-center"> |
− | <p>For the resolution of this system, the following parameters were considered:</p> | + | <img src="https://static.igem.org/mediawiki/2018/8/81/T--TecCEM--Withoutlep.png " |
− | <ul> | + | class="figure-img img-fluid rounded" alt="Scaffolddes1"> |
− | <li>Yps = 0.1973 g glu/g glut</li> | + | </figure> |
− | <li>Yxs = 0.17 g glu/g lactic acid</li> | + | <li>With leptin</li> |
− | </ul> | + | <figure class="figure text-center"> |
− | <p></p> | + | <img src="https://static.igem.org/mediawiki/2018/5/58/T--TecCEM--Withlep.png" class="figure-img img-fluid rounded" |
− | <p>Analogously, the respiratory rate of the fibroblasts was considered, with the ratio of moles of CO2 produced per moles of O2 consumed.</p> | + | alt="Scaffolddes1"> |
− | <ul> | + | </figure> |
− | <li>RQ=0.97=d/a</li> | + | <p>Glucose was considered as the main source of carbon and glutamine as the |
− | </ul> | + | main source of nitrogen. On the other hand, lactic acid and ammonia as |
− | <p></p> | + | unique products, in addition to carbon dioxide and water.</p> |
− | <p>Given all the above, a 7x7 matrix was made to obtain the stoichiometric coefficients.</p> | + | <p>For the resolution of this system, the following parameters were considered:</p> |
− | <figure class="figure text-center"> | + | <ul> |
− | + | <li>Yps = 0.1973 g glu/g glut</li> | |
− | + | <li>Yxs = 0.17 g glu/g lactic acid</li> | |
− | + | </ul> | |
− | + | <p></p> | |
− | <p>Giving the following results:</p> | + | <p>Analogously, the respiratory rate of the fibroblasts was considered, with |
− | <ul> | + | the ratio of moles of CO2 produced per moles of O2 consumed.</p> |
− | <li>1 mol | + | <ul> |
− | <li>a = 0.2432 mol | + | <li>RQ=0.97=d/a</li> |
− | <li>b = 4.6974 mol | + | </ul> |
− | <li>c = 1.3533 mol | + | <p></p> |
− | <li>d = 0.3400 mol | + | <p>Given all the above, a 7x7 matrix was made to obtain the stoichiometric |
− | <li>e = 0.1616 mol | + | coefficients.</p> |
− | <li>f = 4.8427 mol | + | <figure class="figure text-center"> |
− | <li>g = 4. 7559 mol | + | <img src="https://static.igem.org/mediawiki/2018/e/e6/T--TecCEM--Matrix1.png" class="figure-img img-fluid rounded" |
− | </ul> | + | alt="Scaffolddes1"> |
− | <p></p> | + | <figcaption class="figure-caption"><strong>Figure 7. Solve of the matrix in |
− | <p>Obtaining a ratio of 0.34 moles of lactic acid per 1.2533 moles of cells.</p> | + | Matlab. </strong></figcaption> |
− | <p>By adding leptin to the medium, the increase in cell proliferation can be observed, giving the initial conditions of grams of leptin per grams of glucose in the medium.</p> | + | </figure> |
− | <figure class="figure text-center"> | + | <p>Giving the following results:</p> |
− | + | <ul> | |
− | + | <li>1 mol Glucose</li> | |
− | + | <li>a = 0.2432 mol Glutamine</li> | |
− | + | <li>b = 4.6974 mol Oxygene</li> | |
− | <p>Giving the following results:</p> | + | <li>c = 1.3533 mol Cells</li> |
− | <ul> | + | <li>d = 0.3400 mol Lactic acid</li> |
− | <li>1 mol | + | <li>e = 0.1616 mol Ammoniaque</li> |
− | <li>a = 0.2432 mol | + | <li>f = 4.8427 mol Carbon Dioxide</li> |
− | <li>b = 0.97 mol | + | <li>g = 4. 7559 mol Water</li> |
− | <li>c = 0.0010 mol | + | </ul> |
− | <li>d = 2.5112 mol | + | <p></p> |
− | <li>e = 0.3400 mol | + | <p>Obtaining a ratio of 0.34 moles of lactic acid per 1.2533 moles of cells.</p> |
− | <li>f = | + | <p>By adding leptin to the medium, the increase in cell proliferation can be |
− | <li>g = 4. 4348 mol | + | observed, giving the initial conditions of grams of leptin per grams of |
− | <li>h = 4.4400 mol | + | glucose in the medium.</p> |
− | </ul> | + | <figure class="figure text-center"> |
− | <p></p> | + | <img src="https://static.igem.org/mediawiki/2018/0/0f/T--TecCEM--Matrix2.png " class="figure-img img-fluid rounded" |
− | <p>Resulting in a ratio of 0.0927 moles of lactic acid per 2.5112 moles of cells.</p> | + | alt="Scaffolddes1"> |
+ | <figcaption class="figure-caption"><strong>Figure 8. Solve of the matrix 2 | ||
+ | in Matlab. </strong></figcaption> | ||
+ | </figure> | ||
+ | <p>Giving the following results:</p> | ||
+ | <ul> | ||
+ | <li>1 mol Glucose</li> | ||
+ | <li>a = 0.2432 mol Glutamine</li> | ||
+ | <li>b = 0.97 mol Oxygene</li> | ||
+ | <li>c = 0.0010 mol Leptine</li> | ||
+ | <li>d = 2.5112 mol Cells</li> | ||
+ | <li>e = 0.3400 mol Lactic Acid</li> | ||
+ | <li>f = 0.0927 mol Ammoniaque</li> | ||
+ | <li>g = 4. 4348 mol Carbon Dioxide</li> | ||
+ | <li>h = 4.4400 mol Water</li> | ||
+ | </ul> | ||
+ | <p></p> | ||
+ | <p>Resulting in a ratio of 0.0927 moles of lactic acid per 2.5112 moles of | ||
+ | cells.</p> | ||
</div> | </div> |
Revision as of 03:15, 18 October 2018
Model
As wound healing is a very complex and dynamic process there has always been an interest in predicting how cell types and growth factors would interact when treating a wound as it involves the relation of these elements.
Leptin stimulates the proliferation of several cell types like myofibroblast, which accept leptin into Ob receptors and when activated have been shown produce TGF-B1, a protein that controls proliferation and is also a regulator of leptin expression. Mesenchymal cells induce cell migration in a L929 fibroblast culture (Walter, Wright, Fuller, MacNeil, and Johnson, 2010) via the expression of TGF-B1, chemokines IL-6, IL-8, MCP-1, among other healing mediators, which keratinocytes and fibroblasts receive.
As it is of high importance to accurately predict how growth factors will affect the cells and the medium, iGEM TecCEM team proposed a mathematical model which aim was to predict the effect that leptin will have in cell proliferation after being released by chitosan nanoparticles, the amount of leptin that will be absorbed by the cells and the amount remaining in the medium.
Variation of Leptin Curve
A simple system of differential equations was used to model the above.
Where
- k1= Degradation leptin
- k2= Leptin adsorption fibroblast
- x2= Concentration of leptin in chitosan
- x1= Concentration of leptin inside the cell
The employed equations were created based on the physical behavior of leptin's dispersion, as shown next:
- Equation 1 represents the variation of concentration of leptin in time; the liberation of leptin towards the medium at a constant velocity "k1" considering the amount of leptin left on the medium and the leptin adsorbed by cells.
- Equation 2 represents the amount of leptin adsorbed by the cells at a constant velocity "k2" with an overall performance Yxs used to harmonize units.
- Without leptin
- With leptin
- Yps = 0.1973 g glu/g glut
- Yxs = 0.17 g glu/g lactic acid
- RQ=0.97=d/a
- 1 mol Glucose
- a = 0.2432 mol Glutamine
- b = 4.6974 mol Oxygene
- c = 1.3533 mol Cells
- d = 0.3400 mol Lactic acid
- e = 0.1616 mol Ammoniaque
- f = 4.8427 mol Carbon Dioxide
- g = 4. 7559 mol Water
- 1 mol Glucose
- a = 0.2432 mol Glutamine
- b = 0.97 mol Oxygene
- c = 0.0010 mol Leptine
- d = 2.5112 mol Cells
- e = 0.3400 mol Lactic Acid
- f = 0.0927 mol Ammoniaque
- g = 4. 4348 mol Carbon Dioxide
- h = 4.4400 mol Water
In order to solve the equation system with the form y'= f(t,y) ODE Matlab Solver was employed using the proposed algorithm and establishing initial conditions:
The study of drug release dynamic aims to understand the process of drug characteristics in the human body.
Summary of the functions:
If we plot the system, the following graph represents the kinetics of leptin, simulating the rate of reduction of the leptin in the nanoparticles a time x while this rate is relating with the adsorption rate of the leptin by the cells. The blue line represents the first event and the red line represents the adsorption rate.
If we consider a third parameter, using the following equation:
Equation 3 represents the amount of leptin that is released at the medium at a constant velocity "k3" and then remains static in the medium.
The Matlab code is shows below
The graph presents the kinetics of leptin, representing the rate of reduction at a time x while simulating at the same time the increase of leptin in the medium and the rate of adsorption by the cells.
The blue line represents the decreasing rate of the leptin, the red line represents the adsorption rate and the yellow one is the concentration of the leptin in the medium.
Stoichiometry Cell growth
Additionally, we sought to have the relationship between a measurable product to have a direct relationship with cell proliferation while in the presence and absence of leptin. For this, a general stoichiometric analysis was carried out for the cell growth reaction. This method was used because it is possible to follow the assertion of all the carbon, hydrogen, oxygen, nitrogen atoms and all the other elements that are consumed during the cell growth process, and then these atoms are incorporated again for the formation of new cells and products, that is to say, taking into account the matter and energy balances.
If one considers the components that are present in greater quantities and there is a presence of unique products formed, the following aerobic cell growth reaction can be written:
Glucose was considered as the main source of carbon and glutamine as the main source of nitrogen. On the other hand, lactic acid and ammonia as unique products, in addition to carbon dioxide and water.
For the resolution of this system, the following parameters were considered:
Analogously, the respiratory rate of the fibroblasts was considered, with the ratio of moles of CO2 produced per moles of O2 consumed.
Given all the above, a 7x7 matrix was made to obtain the stoichiometric coefficients.
Giving the following results:
Obtaining a ratio of 0.34 moles of lactic acid per 1.2533 moles of cells.
By adding leptin to the medium, the increase in cell proliferation can be observed, giving the initial conditions of grams of leptin per grams of glucose in the medium.
Giving the following results:
Resulting in a ratio of 0.0927 moles of lactic acid per 2.5112 moles of cells.