Difference between revisions of "Team:Peking"

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                             <li class="menu-1"><a class="colapse-menu1" href="https://2016.igem.org/Team:Peking" >Home</a></li>
                             <li class="menu-1"><a class="colapse-menu1" href="https://2018.igem.org/Team:Peking">Home</a>
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                            <li class="dropdown menu-2"><a class="dropdown-toggle" data-toggle="dropdown" href="#" > Achievements</a>
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                                    <li><a href="https://2016.igem.org/Team:Peking/Results" >Results</a></li>
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                                    <li><a href="https://2016.igem.org/Team:Peking/Basic_Part" >Parts</a></li>
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                                     <li><a href="https://2018.igem.org/Team:Peking/Project" class="barfont1">Description</a></li>
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                                     <li><a href="https://2016.igem.org/Team:Peking/Description" >Overview</a></li>
                                     <li><a href="https://2018.igem.org/Team:Peking/Design" class="barfont1">Design</a></li>
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                                     <li><a href="https://2016.igem.org/Team:Peking/Design" >Design</a></li>
                                     <li><a href="https://2018.igem.org/Team:Peking/Demonstrate" class="barfont1">Demonstration</a></li>
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                                    <li><a href="https://2016.igem.org/Team:Peking/Crosslinking" >Crosslinking</a></li>
                                     <li><a href="https://2018.igem.org/Team:Peking/Perspective" class="barfont1">Perspective</a></li>
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                                     <li><a href="https://2016.igem.org/Team:Peking/Uranyl-adsorption" >Uranyl adsorption</a></li>
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                                    <li><a href="https://2016.igem.org/Team:Peking/Clearance" >Clearance</a></li>
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                                     <li><a href="https://2016.igem.org/Team:Peking/Secretion" >Secretion</a></li>
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                                    <li><a href="https://2016.igem.org/Team:Peking/Demonstrate" >Final Performance</a></li>
 
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                             <li class="dropdown menu-3"><a class="dropdown-toggle" data-toggle="dropdown" href="#" >Modeling</a>
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                             <li class="dropdown menu-4"><a class="dropdown-toggle" data-toggle="dropdown" href="#" >Modeling</a>
 
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                                     <li><a href="https://2018.igem.org/Team:Peking/Model">Overview</a></li>
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                                     <li><a href="https://2016.igem.org/Team:Peking/Model/GelPoint" > Model of Gel Point </a></li>
                                     <li><a href="https://2018.igem.org/Team:Peking/SPOT_Formation" class="barfont1">SPOT Formation</a></li>
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                                     <li><a href="https://2016.igem.org/Team:Peking/Model/MassDistribution" > Model of Mass Distribution</a></li>
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                                    <li><a href="https://2016.igem.org/Team:Peking/HP/Gold" >Overview</a></li>
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                                    <li><a href="https://2016.igem.org/Team:Peking/HP/311" >Field research</a></li>
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                                    <li><a href="https://2016.igem.org/Team:Peking/HP/questionnaire" >Questionnaire</a></li>
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                                    <li><a href="https://2016.igem.org/Team:Peking/HP/consulting" >Consulting</a></li>
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                                    <li><a href="https://2016.igem.org/Team:Peking/HP/otherHP" >Education&nbsp;&amp;&nbsp;Other</a></li>
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                            <li class="menu-6"><a class="colapse-menu1" href="https://2016.igem.org/Team:Peking/Safety" >Safety</a>
 
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                                 <li class="dropdown menu-7"><a class="dropdown-toggle" data-toggle="dropdown" href="#" >Lab</a>
                                 <li class="dropdown menu-6"><a class="dropdown-toggle" data-toggle="dropdown" href="#">Human Practices</a>
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                                         <li><a class="" href="https://2016.igem.org/Team:Peking/Team" >Team</a></li>
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                                         <li><a class="" href="https://2016.igem.org/Team:Peking/Attributions" >Attribution</a></li>
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                                         <li><a class="" href="https://2016.igem.org/Team:Peking/Notebook" >Notebook</a></li>
                                        <li><a href="https://2018.igem.org/Team:Peking/Other" class="barfont1">Other</a></li>
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                                 <li class="dropdown menu-7"><a class="dropdown-toggle" data-toggle="dropdown" href="#" >Achievement</a>
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                                 <li class="menu-8"><a class="colapse-menu1" href="https://2016.igem.org/Team:Peking/Interlab" >Interlab</a>
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                                        <li><a href="https://2018.igem.org/Team:Peking/Judging_Form" class="barfont1">Judging Form</a></li>
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                                        <li><a href="https://2018.igem.org/Team:Peking/Parts" class="barfont1">Parts</a></li>
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                                        <li><a href="https://2018.igem.org/Team:Peking/Improve" class="barfont1">Improvement</a></li>
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                                        <li><a href="https://2018.igem.org/Team:Peking/InterLab" class="barfont1">InterLab</a></li>
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                                <li class="dropdown menu-8"><a class="dropdown-toggle" data-toggle="dropdown" href="#" >Lab</a>
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                                        <li><a href="https://2018.igem.org/Team:Peking/Team_Members">Team Members</a></li>
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                                        <li><a href="https://2018.igem.org/Team:Peking/Attributions" class="barfont1">Attributions</a></li>
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HOME
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一、 这是头
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Peking 2018
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                        <section id="description" class="content">
Synthetic Phase separation-based Organelle Platform (SPOT) Abstract
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(一) Background and motivation
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Ever since the beginning of life, compartment has been playing a crucial rule in biological systems. The famous Miller-Urey experiment shows that inorganic molecules can transform into organic substances under extreme conditions, for example lightening. However, homogeneously distributed organic matters are not enough for life to emerge. It is almost impossible that all conditions are proper in the entire primordial soup.
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                                    <div class="texttitle">Abstract</div>
That (pause) is where the compartment comes in.
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                                    <p class="lead add-bottom" style="color:#5E5656">The problem of uranium contamination is a source of great concern. Uranium could have severe detrimental health effects (it is particularly harmful to the liver, kidney and bone) and lead to environment issues (chemical and radioactive hazards). <a href="https://2016.igem.org/Team:Peking/HP/311">Current treatment options</a> available for uranium leaks in nuclear power plants or uranium pollution around ore-fields, such as ion exchange, flocculation-setting and phytoremediation, all have limitations including their high cost, low efficiency and the sheer complexity of the involved procedures.</p>
Only after coacervate droplet forms and organic molecules condense inside, a completely different environment can be attained within, thus enabling the emergence of bio-macromolecules, or in other word, making life possible.
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In cells, compartmentalization is mainly achieved be all sorts of organelles, for instance, mitochondrion, chloroplast, lysosome etc. They take up three major roles: A, B, C
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                                    <p class="lead add-bottom" style="color:#5E5656">To address these problems, Peking iGEM team aims to construct <a href="https://2016.igem.org/Team:Peking/Description">a novel functional biomaterial</a> consisting of multiple functional protein modules. This material is designed to be produced and secreted by bacteria, and self-assembled to form a polymer network. In combination with a specific <a href="https://2016.igem.org/Team:Peking/Uranyl-adsorption">Super Uranyl-binding Protein</a>, it obtains the ability to adsorb uranyl ions. After very short contacting with polluted water, the uranyl-laden biomaterial, which also contains a <a href="https://2016.igem.org/Team:Peking/Clearance">monomeric streptavidin module</a>, could be easily cleared using biotinylated magnetic beads.
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                                    </p>
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                                    <p class="lead add-bottom" style="color:#5E5656">This uranyl-binding biomaterial shows a series of advantages, such as high specificity, high efficiency, self-assembly and renewability. Furthermore, the uranyl-binding module could be replaced or combined with modules that are capable of binding other heavy metal ions, as well as fluorescent proteins, obtaining <a href="https://2016.igem.org/Team:Peking/Proof">multi-functionality</a>. By taking advantage of modularization in the design, additional applications beyond uranium adsorption could be developed based on this material in the future.</p>
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Intuitively, for a organelle to sustain a stable compartment, it seems necessary to require a material boundary, more precisely, a membrane. Membrane-bound organelles are indeed common and stable, but from the perspective of synthesis, it is way too complicated. However, there are also non-membrane-bound organelles, for instance, stress granule, P granule and nucleolus. More importantly, their formation is guided by simple physical principals.Membrane-less organelles and phase separation. Then came the question that how can we synthase membraneless organelles.
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(二) Principles and design
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There are a large number of phase separation phenomena in cells, summarizing which, we put forward a principle that interaction and multivalence are two preconditions of phase separation in cells. Based on this principle, we use SUMO/SIM, FKBP/Frb, etc. as interactional modules to provide diverse inducing of the condensation while we fuse homo-oligometric tags (HOTags) to introduce multivalence. We named our system SPOT(Synthetic Phase separation-based Organelle Platform) because it can form granules( we can see fluorescent spots in yeast under microscope) in yeast.
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() SPOT construction and verification
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                                <p style="text-align:center;"><a href="https://2016.igem.org/Team:Peking/Crosslinking"><img style="width:  %;" src="https://static.igem.org/mediawiki/2016/b/b3/T--Peking--image_H1.png " alt="" /></p></a>
We try diverse interactional modules to construct the synthetic organelles and then modeled our system according to the theory of phase separation. As this model predicts, different promoters alter the features and kinetics of our systems, which were well validated by experiments
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                                <p style="font-family:raleway-bold, sans-serif !important;font-size:24px !important; text-align:center; margin-top:20px;">Crosslinking</p>
(四) Functions of synthetic organelles
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                                <p style="font-family:raleway-regular, sans-serif !important; font-weight:100;font-size:18px !important; text-align:justify;">By taking advantage of the covalent crosslinking of SpyTag and SpyCatcher, a polymer network was designed to possess special properties, such as strong mechanical strength, large contact area and stable structure. </p>
We verified the feasibility of several potential functions theoretically and experimentally, including reaction crucible and sensor, etc. In the future, by replacing functional modules with other parts, this system would conduct functions not included in the current project.
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                                <p><a href="https://2016.igem.org/Team:Peking/Crosslinking">Learn more...</a></p>
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                                <p style="text-align:center;"><a href="https://2016.igem.org/Team:Peking/Secretion"><img style="width:  %;" src="https://static.igem.org/mediawiki/2016/1/1f/T--Peking--image_H2.png" /></p></a>
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                                <p style="font-family:raleway-bold, sans-serif !important;font-size:24px !important; text-align:center; margin-top:20px;">Secretion</p>
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                                <p style="font-family:raleway-regular, sans-serif !important; font-weight:100;font-size:18px !important; text-align:justify;">To make the polymer network reproductive and economical, a signal peptide library was constructed. We carried out a series of experiments to find an optimal secretion strategy.</p>
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                                <p><a href="https://2016.igem.org/Team:Peking/Secretion">Learn more...</a></p>
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                                <p style="text-align:center;"><a href="https://2016.igem.org/Team:Peking/Clearance"><img style="width:  %;" src="https://static.igem.org/mediawiki/2016/9/95/T--Peking--image_H3.png" alt=""/></p></a>
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                                <p style="font-family:raleway-bold, sans-serif !important;font-size:24px !important; text-align:center; margin-top:20px;">Clearance</p>
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                                <p style="font-family:raleway-regular, sans-serif !important; font-weight:100;font-size:18px !important; text-align:justify;">The monomeric streptavidin constructed in the polymer network could realize the clearance of Spy Crosslinking Network in the environment by interacting with biotinylated magnetic beads. </p>
 +
                                <p><a href="https://2016.igem.org/Team:Peking/Clearance">Learn more...</a></p>
 +
                               
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                                </div>
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                                <div class="four columns" style="text-align:center;">
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                                <p style="text-align:center;"><a href="https://2016.igem.org/Team:Peking/Model"><img style="width:  %;" src="https://static.igem.org/mediawiki/2016/a/aa/T--Peking--image_H4.png
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" /></p></a>
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                                <p style="font-family:raleway-bold, sans-serif !important;font-size:24px !important; text-align:center; margin-top:20px;">Model</p>
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                                <p style="font-family:raleway-regular, sans-serif !important; font-weight:100;font-size:18px !important; text-align:justify;">To accurately describe the Gel Point (GP) and the Mass Distribution (MD) for our polymer network, we built up two amendatory models that can adequately describe the characters and deepen our knowledge of our novel biomaterial.</p>
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                                <p><a href="https://2016.igem.org/Team:Peking/Mode">Learn more...</a></p>
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                                </div>
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                                <p style="text-align:center;"><a href="https://2016.igem.org/Team:Peking/Software"><img style="width:  %;" src="https://static.igem.org/mediawiki/2016/b/b3/T--Peking--image_H5.png
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" alt="" /></p></a>
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                                <p style="font-family:raleway-bold, sans-serif !important;font-size:24px !important; text-align:center; margin-top:20px;">Software</p>
 +
                                <p style="font-family:raleway-regular, sans-serif !important; font-weight:100;font-size:18px !important; text-align:justify;">To calculate the Gel Point (GP) and the Mass Distribution (MD) for our polymer network, we established a useful software called SoP that can apply to all the crosslinking reactions between the chosen monomers.</p>
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                                <p><a href="https://2016.igem.org/Team:Peking/Software">Learn more...</a></p>
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                                </div>
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                                <p style="text-align:center;"><a href="https://2016.igem.org/Team:Peking/HP/Gold"><img style="width:  %;" src="https://static.igem.org/mediawiki/2016/c/ce/T--Peking--image_H6.png
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                                <p style="font-family:raleway-bold, sans-serif !important;font-size:24px !important; text-align:center; margin-top:20px;">Human practices</p>
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                                <p style="font-family:raleway-regular, sans-serif !important; font-weight:100;font-size:18px !important; text-align:justify;">The Peking iGEM 2016 focuses on current treatments of uranium pollution worldwide, and looks for solutions using synthetic biology. We visited a institution of nuclear industry, conducted a questionnaire survey and provided public education.</p>
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                                <p><a href="https://2016.igem.org/Team:Peking/HP/Gold">Learn more...</a></p>
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                         <li><a href="https://2018.igem.org/Team:Peking">Home</a>&nbsp;&nbsp;&nbsp;<a href="#">Contact</a></li>
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                         <li><a href="Home.html">Home</a>&nbsp;&nbsp;&nbsp;<a href="#">Contact</a></li>
                         <span> &copy;2018 PEKING IGEM. All Rights Reserved.</span>
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                         <span> &copy;2016 PEKING IGEM. All Rights Reserved.</span>
 
                         <li style="padding-right:20px"><a href="https://www.facebook.com/pekingigem"><img style="height:22px; margin-top:4px; margin-bottom:-4px;" src="https://static.igem.org/mediawiki/2016/c/c4/T--Peking--image_homefacebook.png"/></a></li>
 
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                         <li style="padding-right:20px"><a href="https://twitter.com/iGEM_Peking"><img style="height:22px; margin-top:4px; margin-bottom:-4px;" src="https://static.igem.org/mediawiki/2016/3/39/T--Peking--image_hometwitter.png"/></a></li>
 
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Revision as of 16:58, 15 October 2018

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Abstract

The problem of uranium contamination is a source of great concern. Uranium could have severe detrimental health effects (it is particularly harmful to the liver, kidney and bone) and lead to environment issues (chemical and radioactive hazards). Current treatment options available for uranium leaks in nuclear power plants or uranium pollution around ore-fields, such as ion exchange, flocculation-setting and phytoremediation, all have limitations including their high cost, low efficiency and the sheer complexity of the involved procedures.

To address these problems, Peking iGEM team aims to construct a novel functional biomaterial consisting of multiple functional protein modules. This material is designed to be produced and secreted by bacteria, and self-assembled to form a polymer network. In combination with a specific Super Uranyl-binding Protein, it obtains the ability to adsorb uranyl ions. After very short contacting with polluted water, the uranyl-laden biomaterial, which also contains a monomeric streptavidin module, could be easily cleared using biotinylated magnetic beads.

This uranyl-binding biomaterial shows a series of advantages, such as high specificity, high efficiency, self-assembly and renewability. Furthermore, the uranyl-binding module could be replaced or combined with modules that are capable of binding other heavy metal ions, as well as fluorescent proteins, obtaining multi-functionality. By taking advantage of modularization in the design, additional applications beyond uranium adsorption could be developed based on this material in the future.

Crosslinking

By taking advantage of the covalent crosslinking of SpyTag and SpyCatcher, a polymer network was designed to possess special properties, such as strong mechanical strength, large contact area and stable structure.

Learn more...

Secretion

To make the polymer network reproductive and economical, a signal peptide library was constructed. We carried out a series of experiments to find an optimal secretion strategy.

Learn more...

Clearance

The monomeric streptavidin constructed in the polymer network could realize the clearance of Spy Crosslinking Network in the environment by interacting with biotinylated magnetic beads.

Learn more...

Model

To accurately describe the Gel Point (GP) and the Mass Distribution (MD) for our polymer network, we built up two amendatory models that can adequately describe the characters and deepen our knowledge of our novel biomaterial.

Learn more...

Software

To calculate the Gel Point (GP) and the Mass Distribution (MD) for our polymer network, we established a useful software called SoP that can apply to all the crosslinking reactions between the chosen monomers.

Learn more...

Human practices

The Peking iGEM 2016 focuses on current treatments of uranium pollution worldwide, and looks for solutions using synthetic biology. We visited a institution of nuclear industry, conducted a questionnaire survey and provided public education.

Learn more...