Difference between revisions of "Team:NCKU Tainan/Model"

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     <meta charset="utf-8"><link rel="shortcut icon" href="/wiki/images/8/80/T--NCKU_Tainan--favicon.png" type="image/x-icon"><link rel="icon" type="image/png" href="/wiki/images/8/80/T--NCKU_Tainan--favicon.png"><link rel="icon" type="image/x-icon" href="/wiki/images/8/80/T--NCKU_Tainan--favicon.png"><meta name="viewport" content="width=device-width, initial-scale=1.0"><meta property="og:title" content="Judging Mdeal - iGEM NCKU"><meta property="og:site_name" content="Judging Mdeal - iGEM NCKU"><meta property="og:description" content=""><title>Judging Mdeal - iGEM NCKU</title><meta http-equiv="Content-Type" content="text/html" charset="utf-8"><meta property="og:image" content=""><meta property="og:image:type" content="image/png"><link rel="stylesheet" href="/Team:NCKU_Tainan/css/frame/T--NCKU_Tainan--bootstrap_min_css?ctype=text/css&amp;action=raw"><link href="/Team:NCKU_Tainan/font/T--NCKU_Tainan--NotoSans_css?ctype=text/css&amp;action=raw" rel="stylesheet" type="text/css"><link rel="stylesheet" href="/Team:NCKU_Tainan/font/T--NCKU_Tainan--font-awesome_min_css?ctype=text/css&amp;action=raw"> <link rel="stylesheet" href="/Team:NCKU_Tainan/css/T--NCKU_Tainan--Medal_css?ctype=text/css&amp;action=raw">
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<div class="head">JUDGING / Medal</div>
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<div class="head">PROJECT / Model</div>
 
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<div class="head2">Medal</div>
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<div class="head2">Model</div>
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          <h4 class="title-line" id="bronze">Bronze</h4>
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<div class="title-line" id="fitting">Fitting Theory</div>
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            <h5>1.    Register and Attend </h5>
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            <p>To detect the concentration of inputted numerically, a dependable formula for transformation is absolutely needed. Pl is a glucose induced promoter but with complicated regulation pathway. In this section, we derive a formula using quasi-steady state with the method of enzyme kinetics.</p>
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            <p>As an "undergraduate" and "first" team from southern Taiwan, NCKU Tainan team registered for iGEM 2016 competition.</p>
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            <p>When all compounds reach its steady concentration, the production rate of protein should be a constant and be in form as the following equation:</p>
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            <p></p>
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// TODO: 放公式
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            <h5>2.    Deliverables</h5>
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<p>And the fitting result also show its accuracy and limitation:</p>
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            <p>We completed all the deliverables and are going to the iGEM 2016 Giant Jamboree.
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            <img src="/images/3/36/T--NCKU_Tainan--project-modeling-fitting-image5.jpg">
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            Specific information can be found in <a href="/Team:NCKU_Tainan/Attributions">Attribution</a> / <a href="/Team:NCKU_Tainan/Parts">Parts and Submission</a> / <a href="judgingSafety">Safety</a> / <a href="judgingMedal">Judging</a>
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<p>(<a href="/Team:NCKU_Tainan/Model_Fitting_Theory">Read more...</a>)</p>
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            </p>
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            <h5>3.    Attribution</h5>
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            <p>The individual attributions of each team member are well documented in our <a href="/Team:NCKU_Tainan/Attributions">Attribution Page</a>, For contributions and aid from our mentors and supporters, please see <a href="/Team:NCKU_Tainan/Acknowledgement">Acknowledgement</a>.
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            </p>
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            <h5>4.    Part / Contribution</h5>
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            <p>Our project aims to prevent diabetes by detecting urine glucose in a non-invasive way. The <a href="/Team:NCKU_Tainan/Parts">parts</a> that we built are well documented and already submitted.
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            </p>
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<div class="title-line" id="statistics">Statistics Analysis</div>
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          <h4 class="title-line" id="silver">Silver</h4>
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                  <p>In medicine, the blood glucose exceeding 5mM/L implies having diabetes, and it exceeding 120mM/L implies being a severe patient. Finding the person whose glucose concentration is over 5mM/L or 120mM/L is our target.</p>
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            <h5>1.    Validated Part / Validated Contribution</h5>
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<div class="img" style="width:32%;display:inline-block;margin-left:8px">
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            <p>We experimentally validated our BioBrick device for Urine Glucose Detection (<a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1920001">BBa_K1920001</a>)and Safety((<a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1920006">BBa_K1920006</a>).
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            <img src="/wiki/images/c/c0/T--NCKU_Tainan--project-modeling-statistic-image1.jpg">
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            For our Detection (<a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1920001">BBa_K1920001</a>) BioBrick part, we characterized the relationship between glucose concentration and induced RFP fluorescent intensity. And for our Safety((<a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1920006">BBa_K1920006</a>) BioBrick part we measured the growth curve and performed a CFU assay.
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              <div>0.1 vs 5 mM/L</div>
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          </p>
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</div>
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          <h5>2.    Collaboration</h5>
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<div class="img" style="width:32%;display:inline-block">
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          <p>we interacted with over ??? other iGEM teams in a variety of activities! And our key contributions to other iGEM teams project are as follows:
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            <img src="/wiki/images/c/c0/T--NCKU_Tainan--project-modeling-statistic-image1.jpg">
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            (1)    Collaborating with <a href="https://2016.igem.org/Team:TCU_Taiwan" target="_blank">TCU_Taiwan</a>, we shared the protocol of Glucose-free modified M9 medium for cell culturing and functional experiments
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              <div>0.1 vs 120 mM/L</div>
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            (2)    Collaborating with <a href="https://2016.igem.org/Team:TCU_Taiwan" target="_blank">TCU_Taiwan</a>, we helped the calculation of Enzyme Kinetics and Promoter Efficiency in the <a href="/Team:NCKU_Tainan/Model">modeling</a> phase.
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            </div>
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            All the details can be found in  <a href="/Team:NCKU_Tainan/Collaborations">Collaboration</a></p>
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<div class="img" style="width:32%;display:inline-block">
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            <h5>3.   Human Practices</h5>
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            <img src="/wiki/images/a/a3/T--NCKU_Tainan--project-modeling-statistic-image3.jpg">
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            <p>In addition to perfecting our project and preventing diabetes, we held a variety of activities to connect our device, U-KNOW, and iGEM to people
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              <div>0.1 model plot</div>
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            (1)    We launched videos via social media channels to provide health education and to bust the common myths about diabetes. Also correct information from doctors and specialists were spread through those videos.
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            </div>
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            (2)    We held synthetic biology workshops in our university, NCKU, to promote synthetic biology and interdisciplinary cooperation.
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                  <p>First, we prove that there has difference between 0.1mM/L and 5mM/L (120mM/L) in the paired-difference T test part. And, we use the regression and prediction intervals to distinguish exceeding 120mM/L and 5mM/L from exceeding 0.1mM/L. From the result, 5mM/L can be distinguished from 0.1mM/L after 101 minutes, and 120mM/L can be distinguished from 0.1mM/L after 88 minutes.</p>
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            for further information, please go to <a href="/Team:NCKU_Tainan/Human_Practices">Human Practices</a></p>
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<p>(<a href="/Team:NCKU_Tainan/Model_Statistics_Analysis">Read more...</a>)</p>
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            <h4 class="title-line" id="gold">Gold</h4>
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            <h5>1.    Integrated Human Practices</h5>
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            <p>This summer we proudly hosted <a href="http://igem.ncku.edu.tw/2016conf/">iGEM 2016 Asia-Pacific Conference</a>, gathering over 20 teams, 180 iGEMers, from three different regions. During the conference, all teams and iGEMers had the opportunity to present their own project as well as to realize to others' project. In addition, we invited experts and specialists from the fields of industry and media to share their perspectives from the different aspects. It is also good for us to seek the opportunity for university-industry collaboration. Within these campaigns, a great opportunity was offered for iGEMers to interact with each other, and we received a lot of positive good responses! So our team has not only performed the lab work but also gone beyond the lab.
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            </p>
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            <h5>2.   Proof of Concept</h5>
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            <p>To prove that U-KNOW can prevent diabetes by detecting, we performed several <a href="/Team:NCKU_Tainan/Model_Fitting_Theory">Urine Functional Tests</a>.  Our Detection Circuit(<a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1920001">BBa_K1920001</a>) do differentiate Diabetic urine samples with Control, and the sensitivity can reach 95%, which was already further improved to 100%.</p>
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            <p>For Safety, we tested our Safety Circuit(<a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1920006">BBa_K1920006</a>) and proved that our design can protect U-KNOW users as well as the environment from bacteria contamination.
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          </p>
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          <p>To know more, please look at <a href="/Team:NCKU_Tainan/Results">Result/Proof</a></p>
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            <h5>3.    Demonstrate Your Work</h5>
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            <p>To bring U-KNOW to the real world condition, we built different versions of <a href="/Team:NCKU_Tainan/Hardware">device prototypes</a>.
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            We believe welcome you to become a U-KNOW user, "Prevention is better than cure", so easy and early detection by using U-KNOW is helpful for pre-diabetes management.
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            U-KNOW Makes You Know !</p>
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<li><a href="#" onclick="return toEvent('bronze');"><span class="medal-block" style="background:#cd7f32;"></span>Bronze</a></li>
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<li><a href="#" onclick="return toEvent('fitting');">Fitting Theory</a></li>
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<li><a href="#" onclick="return toEvent('silver');"><span class="medal-block" style="background:#c0c0c0;"></span>Silver</a></li>
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<li><a href="#" onclick="return toEvent('statistics');">Statistics Analysis</a></li>
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<li><a href="#" onclick="return toEvent('gold');"><span class="medal-block" style="background:#ffd700"></span>Gold</a></li>
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Revision as of 19:24, 9 October 2016

Project Modeling - iGEM NCKU

PROJECT / Model
Model
Fitting Theory

To detect the concentration of inputted numerically, a dependable formula for transformation is absolutely needed. Pl is a glucose induced promoter but with complicated regulation pathway. In this section, we derive a formula using quasi-steady state with the method of enzyme kinetics.

When all compounds reach its steady concentration, the production rate of protein should be a constant and be in form as the following equation:

// TODO: 放公式

And the fitting result also show its accuracy and limitation:

(Read more...)

Statistics Analysis

In medicine, the blood glucose exceeding 5mM/L implies having diabetes, and it exceeding 120mM/L implies being a severe patient. Finding the person whose glucose concentration is over 5mM/L or 120mM/L is our target.

0.1 vs 5 mM/L
0.1 vs 120 mM/L
0.1 model plot

First, we prove that there has difference between 0.1mM/L and 5mM/L (120mM/L) in the paired-difference T test part. And, we use the regression and prediction intervals to distinguish exceeding 120mM/L and 5mM/L from exceeding 0.1mM/L. From the result, 5mM/L can be distinguished from 0.1mM/L after 101 minutes, and 120mM/L can be distinguished from 0.1mM/L after 88 minutes.

(Read more...)