Difference between revisions of "Team:NUDT CHINA/Model"

This model is created to evaluate the effectiveness of initial design, and offers guidelines on how the system can (or must) be improved. (You can go to PROJECT. page to see more

Introduction

We create mathematical models of two aspects of our project, a RCA model and a signal detection model.

Assumption and Justification

About model

1. MiRNA is not degraded throughout the reaction process.

2. The two fusion proteins of dCas9 and split-HRP fragments have the same ability to combine with the stem-loop structure, and only when two different proteins next to each other, can they have the ability to catalyze substrate and produce signal.

3. The number of stem-loop structures in each RCA product is equal under a certain reaction time.

4. The enzymatic activity remains unchanged with time under the premise of excessive amount of enzymes or a short-time reaction.

About the data

1. The data we obtain from wet-lab experiment are reliable.

2. All the results are trustworthy in the process of statistical processing and data calculation.

Model

Notations

Symbol	Definition
x	The concentration of miRNA (pM)
C₁	The concentration of initiated probe (Abbreviated to iprobe)
k₁	A constant representing the scale factor
K_m	One of the characteristic constants of phi29 DNA polymerase
V_max	One of the characteristic constants of phi29 DNA polymerase
k₂	A constant representing the scale factor
V	The initial speed of RCA
n₁	The moles of RCA product
n₂	The number of stem-loop structures in each RCA product
n	The total amount of stem-loop structures
N	The molecule number of the fusion protein of dCas9 and split-HRP fragments
k₃	A constant representing the scale factor
y₁	The fluorescence intensity of DNA-dye-complex (RFU)
N₁	The molecule number of the fusion protein of dCas9 and split-HRP fragments in the solution
N₂	The molecule number of the fusion protein of dCas9 and split-HRP fragments binding with stem-loop structure
k₄	A constant representing the scale factor
k₅	A constant representing the scale factor
ρ	Signal to noise ratio(Abbreviated to SNR)
I	The molecule number of formed intact HRP proteins
I₁	The molecule number of formed intact HRP proteins in the solution
I₂	The molecule number of formed intact HRP proteins through binding with stem-loop structure
t	Reaction time
y₂	The signal intensity (OD₄₅₀)

Figure 1. Schematic diagram

@@ Line 6: / Line 6: @@
      <title>Team:NUDT_CHINA</title>
 </head>
-<body>
+    <div id="layout">
+        <a href="#menu" id="menuLink" class="menu-link">
+            <span></span>
+        </a>
+        <div id="menu">
+        <div class="pure-menu"><img src="https://static.igem.org/mediawiki/2017/4/4f/T-NUDT_CHINA-icon01.png" width=150px height=120px alt="">
+           <ul class="pure-menu-list">
+             <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA" class="pure-menu-link">HOME</a></li>
+             <li class="pure-menu-item pure-menu-has-children">
+              <a href="#"  class="pure-menu-link"onclick="Show('team_show')">TEAM</a>
+              <ul class="pure-menu-children" id="team_show">
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Team" class="pure-menu-link">Team</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Collaborations" class="pure-menu-link">Collaborations</a></li>
+             </ul>
+            </li>
+            <li class="pure-menu-item pure-menu-has-children">
+              <a href="#"  class="pure-menu-link"onclick="Show('project_show')">PROJECT</a>
+              <ul class="pure-menu-children" id="project_show">
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Description" class="pure-menu-link">Description</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Design" class="pure-menu-link">Design</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Experiments" class="pure-menu-link">Experiment</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Notebook" class="pure-menu-link">Notebook</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/InterLab" class="pure-menu-link">InterLab</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Contribution" class="pure-menu-link">Contribution</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Model" class="pure-menu-link">Model</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Results" class="pure-menu-link">Results</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Demonstrate" class="pure-menu-link">Demonstrate</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Improve" class="pure-menu-link">Improve</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Attributions" class="pure-menu-link">Attributions</a></li>
+             </ul>
+            </li>
+            <li class="pure-menu-item pure-menu-has-children">
+              <a href="#"  class="pure-menu-link"onclick="Show('part_show')">PARTS</a>
+              <ul class="pure-menu-children" id="part_show">
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Parts" class="pure-menu-link">Parts</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Basic_Part" class="pure-menu-link">Basic Parts</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Composite_Part" class="pure-menu-link">Composite Parts</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Part_Collection" class="pure-menu-link">Part Collection</a></li>
+             </ul>
+            </li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Safety" class="pure-menu-link">SAFETY</a></li>
+            <li class="pure-menu-item pure-menu-has-children">
+              <a href="#"  class="pure-menu-link"onclick="Show('HP_show')">HP</a>
+              <ul class="pure-menu-children" id="HP_show">
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/HP/Silver" class="pure-menu-link">Sliver HP</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/HP/Gold_Integrated" class="pure-menu-link">Integrated and Gold</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Engagement" class="pure-menu-link">Public Engagement</a></li>
+             </ul>
+            </li>
+            <li class="pure-menu-item pure-menu-has-children">
+              <a href="#"  class="pure-menu-link"onclick="Show('award_show')">AWARDS</a>
+              <ul class="pure-menu-children" id="award_show">
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Applied_Design" class="pure-menu-link">Applied Design</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Entrepreneurship" class="pure-menu-link">Enterpreneurship</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Hardware" class="pure-menu-link">Hardware</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Measurement" class="pure-menu-link">Measurement</a></li>
+                <li class="pure-menu-item"><a class="pure-menu-heading" href="https://2017.igem.org/Team:NUDT_CHINA/Model" class="pure-menu-link">Model</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Plant" class="pure-menu-link">Plant</a></li>
+                <li class="pure-menu-item"><a href="https://2017.igem.org/Team:NUDT_CHINA/Software" class="pure-menu-link">Software</a></li>
+             </ul>
+            </li>
+            </ul>
+        </div>
+        </div>
          <div id="main">
@@ Line 369: / Line 435: @@
 </div>
-</body>
+</div>
 </html>

Difference between revisions of "Team:NUDT CHINA/Model"

Revision as of 12:22, 16 October 2017

Model

Development of A Novel Blood-MicroRNA Handy Detection System with CRISPR

Abstract

Introduction

Assumption and Justification

About model

About the data

Model

Notations