Difference between revisions of "Team:NYU Abu Dhabi/Model"

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         <thead>
 
         <thead>
 
             <tr>
 
             <tr>
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                 <th>Species Name</th>
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                 <th><h4>Species Name<h4></th>
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                 <th>Symbol Used</th>
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                 <th><h3>Symbol Used<h3></th>
 
             </tr>
 
             </tr>
 
         </thead>
 
         </thead>
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             </tr>
 
             </tr>
 
             <tr>
 
             <tr>
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                 <td>Primer</td>
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                 <td><h2>Primer</h2></td>
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                 <td>\(Pr\)</td>
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                 <td><h2>\(Pr\)</h2></td>
 
             </tr>
 
             </tr>
 
             <tr>
 
             <tr>
−
                 <td>DNA</td>
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                 <td><h2>DNA</h2></td>
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                 <td>\(D\)</td>
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                 <td><h2>\(D\)</h2></td>
 
             </tr>
 
             </tr>
 
             <tr>
 
             <tr>
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                 <td>DNA Polymerase</td>
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                 <td><h2>DNA Polymerase</h2></td>
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                 <td>\(P\)</td>
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                 <td><h2>\(P\)</h2></td>
 
             </tr>
 
             </tr>
 
             <tr>
 
             <tr>
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                 <td>Single Strand Binding Protein (SSB)</td>
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                 <td><h2>Single Strand Binding Protein (SSB)</h2></td>
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                 <td>\(S\)</td>
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                 <td><h2>\(S\)</h2></td>
 
             </tr>
 
             </tr>
 
             <tr>
 
             <tr>
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                 <td>A specific binding of recombinase to a primer to form a closed complex</td>
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                 <td><h2>A specific binding of recombinase to a primer to form a closed complex</h2></td>
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                 <td>\(R:Pr\)</td>
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                 <td><h2>\(R:Pr\)</h2></td>
 
             </tr>
 
             </tr>
 
             <tr>
 
             <tr>
−
                 <td>A specific binding of recombinase and primer to the DNA to form a closed complex</td>
+
                 <td><h2>A specific binding of recombinase and primer to the DNA to form a closed complex</h2></td>
−
                 <td>\(R:Pr:D\)</td>
+
                 <td><h2>\(R:Pr:D\)</h2></td>
 
             </tr>
 
             </tr>
 
             <tr>
 
             <tr>
−
                 <td>A specific binding of recombinase, primer, SSB protein to the DNA to form a closed complex</td>
+
                 <td><h2>A specific binding of recombinase, primer, SSB protein to the DNA to form a closed complex</h2></td>
−
                 <td>\(R:Pr:D:S\)</td>
+
                 <td><h2>\(R:Pr:D:S\)</h2></td>
 
             </tr>
 
             </tr>
 
             <tr>
 
             <tr>
−
                 <td>A specific binding of recombinase, primer, SSB protein, DNA Polymerase to the DNA to form a closed complex</td>
+
                 <td><h2>A specific binding of recombinase, primer, SSB protein, DNA Polymerase to the DNA to form a closed complex</h2></td>
−
                 <td>\(R:Pr:D:S:P\)</td>
+
                 <td><h2>\(R:Pr:D:S:P\)</h2></td>
 
             </tr>
 
             </tr>
 
             <tr>
 
             <tr>
−
                 <td>A specific binding of primer, SSB protein, DNA Polymerase to the DNA to form a closed complex</td>
+
                 <td><h2>A specific binding of primer, SSB protein, DNA Polymerase to the DNA to form a closed complex</h2></td>
−
                 <td>\(Pr:D:S:P\)</td>
+
                 <td><h2>\(Pr:D:S:P\)</h2></td>
 
             </tr>
 
             </tr>
 
         </tbody>
 
         </tbody>

Revision as of 20:42, 17 October 2018

Mathematical Modeling


The following species were used

Species Name

Symbol Used

Recombinase

\(R\)

Primer

\(Pr\)

DNA

\(D\)

DNA Polymerase

\(P\)

Single Strand Binding Protein (SSB)

\(S\)

A specific binding of recombinase to a primer to form a closed complex

\(R:Pr\)

A specific binding of recombinase and primer to the DNA to form a closed complex

\(R:Pr:D\)

A specific binding of recombinase, primer, SSB protein to the DNA to form a closed complex

\(R:Pr:D:S\)

A specific binding of recombinase, primer, SSB protein, DNA Polymerase to the DNA to form a closed complex

\(R:Pr:D:S:P\)

A specific binding of primer, SSB protein, DNA Polymerase to the DNA to form a closed complex

\(Pr:D:S:P\)
$$ 1. R + Pr \leftrightharpoons R:Pr $$ $$ 2. R:Pr + D \leftrightharpoons R:Pr:D $$ $$ 3. R:Pr:D + S \leftrightharpoons R:Pr:D:S $$ $$ 4. R:Pr:D:S + P \leftrightharpoons R:Pr:D:S:P $$ $$ 5. R:Pr:D:S:P \leftrightharpoons R + Pr:D:S:P $$ $$ 6. Pr:D:S:P \to 2D + S + P + Pr + D $$ $$ /frac{d[R]}{dt} = -R/cdot Pr/cdot k_1f + K_1r /cdot R:Pr + k_5f /cdot R:Pr:D:S:P - k_5r /cdot R/cdot Pr:D:S:P $$
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