Jul. 18/2016
Finished the first edition simulation
Jul. 31/2016
Visualize and optimization
Difference between revisions of "Team:NCKU Tainan/Notebook Model"
(Created page with "<html><head> <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" hre...") |
|||
| Line 3: | Line 3: | ||
</head> | </head> | ||
<body> | <body> | ||
| − | <style>@font-face { font-family: 'NotoSansCJKtc-Regular'; src: url("/wiki/images/0/0b/T--NCKU_Tainan--NotoSansCJKtc-Regular.woff") format('woff');}</style><nav class="navbar navbar-default"><div | + | <style>@font-face { font-family: 'NotoSansCJKtc-Regular'; src: url("/wiki/images/0/0b/T--NCKU_Tainan--NotoSansCJKtc-Regular.woff") format('woff');}</style><nav class="navbar navbar-default"><div id="navbar-container" class="container-fluid"> <div class="navbar-header"> <button type="button" class="navbar-toggle collapsed" data-toggle="collapse" data-target="#navbar" aria-expanded="false"> <span class="sr-only">Toggle navigation</span> <span class="icon-bar"></span> <span class="icon-bar"></span> <span class="icon-bar"></span> </button> <a class="navbar-brand" href="/Team:NCKU_Tainan"> <h1>NCKU</h1><h4>Tainan</h4> </a> </div> <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> <a class="dropdown-toggle" type="button" id="dropdownMenu1" data-toggle="dropdown" aria-haspopup="true" aria-expa="" nded="true" href="">Project</a><div class="nav-underline"></div> <ul class="dropdown-menu" aria-labelledby="dropdownMenu2"> <li><a href="/Team:NCKU_Tainan/Project">Background</a></li> <li><a href="/Team:NCKU_Tainan/Description">Description</a></li> <li><a href="/Team:NCKU_Tainan/Results">Results</a></li> <li><a href="/Team:NCKU_Tainan/Model">Modeling</a></li> <li><a href="/Team:NCKU_Tainan/Parts">Parts</a></li> </ul> </li> <li> <a class="dropdown-toggle" type="button" id="dropdownMenu2" data-toggle="dropdown" aria-haspopup="true" aria-expa="" nded="true" href="">Device</a><div class="nav-underline"></div> <ul class="dropdown-menu" aria-labelledby="dropdownMenu2"> <li><a href="/Team:NCKU_Tainan/Hardware">Hardware</a></li> <li><a href="/Team:NCKU_Tainan/Software">Software</a></li> <li><a href="/Team:NCKU_Tainan/Demonstrate">Demonstrate</a></li> </ul> </li> <li> <a class="dropdown-toggle" type="button" id="dropdownMenu3" data-toggle="dropdown" aria-haspopup="true" aria-expa="" nded="true" href="">Judging</a><div class="nav-underline"></div> <ul class="dropdown-menu" aria-labelledby="dropdownMenu3"> <li><a href="/Team:NCKU_Tainan/Medal">Medal</a></li> <li><a href="/Team:NCKU_Tainan/Safety">Safety</a></li> </ul> </li> <li> <a class="dropdown-toggle" type="button" id="dropdownMenu4" data-toggle="dropdown" aria-haspopup="true" aria-expa="" nded="true" href="/Team:NCKU_Tainan/Team">Team</a><div class="nav-underline"></div> <ul class="dropdown-menu" aria-labelledby="dropdownMenu4"> <li><a href="/Team:NCKU_Tainan/Team">Team</a></li> <li><a href="/Team:NCKU_Tainan/Attributions">Attributions</a></li> <li><a href="/Team:NCKU_Tainan/Acknowledgement">Acknowledgement</a></li> <li><a href="/Team:NCKU_Tainan/Collaborations">Collaborations</a></li> </ul> </li> <li> <a class="dropdown-toggle" type="button" id="dropdownMenu5" data-toggle="dropdown" aria-haspopup="true" aria-expa="" nded="true" href="/Team:NCKU_Tainan/Human_Practices">Human Practices</a><div class="nav-underline"></div> <ul class="dropdown-menu" aria-labelledby="dropdownMenu5"> <li><a href="/Team:NCKU_Tainan/Human_Practices">Overview</a></li> <li><a href="/Team:NCKU_Tainan/Integrated_Practices">Integrated Practices</a></li> <li><a href="/Team:NCKU_Tainan/Engagement">Engagement</a></li> </ul> </li> <li> <a class="dropdown-toggle" type="button" id="dropdownMenu6" data-toggle="dropdown" aria-haspopup="true" aria-expa="" nded="true" href="">Notebook</a><div class="nav-underline"></div> <ul class="dropdown-menu" aria-labelledby="dropdownMenu6"> <li><a href="/Team:NCKU_Tainan/Notebook_Construction">Construction</a></li> <li><a href="/Team:NCKU_Tainan/Notebook_Functional_Test">Functional Test</a></li> <li><a href="/Team:NCKU_Tainan/Notebook_Device_Design">Device Design</a></li> <li><a href="/Team:NCKU_Tainan/Notebook_Protocols">Protocols</a></li> <li><a href="/Team:NCKU_Tainan/Notebook_Model">Model</a></li> </ul> </li> </ul> <ul class="nav navbar-nav navbar-right"> </ul> </div><!--/.nav-collapse --></div><!--/.container-fluid --></nav><div id="container-big"><div id="iGEMbar"></div><div id="line-left"></div><div id="line-left2"></div><div id="line-right"></div><div id="photo-left"></div></div><!--/.container-big --> <style> |
#photo-left { background-image: url("/wiki/images/5/54/T--NCKU_Tainan--notebookModel.png"); } | #photo-left { background-image: url("/wiki/images/5/54/T--NCKU_Tainan--notebookModel.png"); } | ||
#line-left2 { display: none; } | #line-left2 { display: none; } | ||
| Line 12: | Line 12: | ||
<div class="col-md-9"> | <div class="col-md-9"> | ||
<div class="head2">Notebook - Model</div> | <div class="head2">Notebook - Model</div> | ||
| − | <div class="title-line | + | <div class="title-line" id="sec1">Overview</div> |
| − | + | ||
| − | + | ||
<h5>March</h5> | <h5>March</h5> | ||
<p>Input the reaction equation into matlab</p> | <p>Input the reaction equation into matlab</p> | ||
| Line 24: | Line 22: | ||
<p>Analyze the data of chromoprotein</p> | <p>Analyze the data of chromoprotein</p> | ||
<h5>July 1st week (7/3~7/9)</h5> | <h5>July 1st week (7/3~7/9)</h5> | ||
| − | <p>Find the parameters of U.coli biobricks from other teams (ETHZ and MIT)</p> | + | <p>Find the parameters of U. coli biobricks from other teams (ETHZ and MIT)</p> |
<p>Write a matlab code to analyze experimental data automatically</p> | <p>Write a matlab code to analyze experimental data automatically</p> | ||
<h5>July 2nd week (7/10~7/16)</h5> | <h5>July 2nd week (7/10~7/16)</h5> | ||
| Line 32: | Line 30: | ||
<p>Finish the Overview page of modeling.</p> | <p>Finish the Overview page of modeling.</p> | ||
<h5>July 4th week (7/24~7/30)</h5> | <h5>July 4th week (7/24~7/30)</h5> | ||
| − | <p>Built up the matlab code of U.coli gene circuit that can calculate the compound concentration numerically.</p> | + | <p>Built up the matlab code of U. coli gene circuit that can calculate the compound concentration numerically.</p> |
<p>Prepare the presentation for Asia-Pacific Conference.</p> | <p>Prepare the presentation for Asia-Pacific Conference.</p> | ||
<h5>August 1st week (7/31~8/6)</h5> | <h5>August 1st week (7/31~8/6)</h5> | ||
| Line 51: | Line 49: | ||
<h5>September 3rd week (9/11~9/17)</h5> | <h5>September 3rd week (9/11~9/17)</h5> | ||
<p>Fitting the original data with poly2, poly3, and the formula of Blackbody radiation, but everything we tried is failed to correct the error.</p> | <p>Fitting the original data with poly2, poly3, and the formula of Blackbody radiation, but everything we tried is failed to correct the error.</p> | ||
| − | |||
<div class="title-line long" id="sec2"></div> | <div class="title-line long" id="sec2"></div> | ||
Latest revision as of 16:56, 18 October 2016
NOTE / Model
Notebook - Model
Overview
March
Input the reaction equation into matlab
April
Survey the mechanism of how Pl can be regulated by inputted glucose.
May
Do the theory about how promoter Pl works
June
Analyze the data of chromoprotein
July 1st week (7/3~7/9)
Find the parameters of U. coli biobricks from other teams (ETHZ and MIT)
Write a matlab code to analyze experimental data automatically
July 2nd week (7/10~7/16)
Make a Gif to explain how our gene circuit regulate to each other and how Pl works.
July 3rd week (7/17~7/23)
Make a tutorial of QT Grace.
Finish the Overview page of modeling.
July 4th week (7/24~7/30)
Built up the matlab code of U. coli gene circuit that can calculate the compound concentration numerically.
Prepare the presentation for Asia-Pacific Conference.
August 1st week (7/31~8/6)
Prepare the presentation for Asia-Pacific Conference
August 2nd week (8/7~8/13)
Asia-Pacific Conference
Start the cooperation with TCU
August 3rd week (8/13~8/20)
Analyze the second experimental data from wet lab.
Finish the page of speed modified system.
August 4rd week (8/21~8/27)
Find out the formula can’t well fit the experimental data.
September 1st week (8/28~9/3)
Correct the old theory model
September 2nd week (9/4~9/10)
Rearrange the structure of the Theory page.
Use the new theory formula to fit the data, discuss about how to decrease the error.
September 3rd week (9/11~9/17)
Fitting the original data with poly2, poly3, and the formula of Blackbody radiation, but everything we tried is failed to correct the error.
Finite differencing explicit methods
Statistical analysis
Aug. 13/2016
Test the first data and find the suitable model by regression
Aug. 27/2016
Do the whole statistical inference and prediction
Formula Derivation
Jun. 12/2016
Finished the derivation model version.1
Jul. 21/2016
Finished the derivation model version.2
Sep. 03/2016
Finished the derivation model version.3
Data analysis
Apr. 30/2016
Completed the draft of SimBiology in matlab.
Jun. 01/2016
Analyze the first experimental data.
Jul. 06/2016
Finish the analysis code base on the derivation model version.1
Aug. 17/2016
Finish the analysis code base on the derivation model version.2
Sep. 01/2016
Try different fitting methods to low down the error of data.
Sep. 10/2016
Finish the analysis code base on the derivation model version.3
Oct. 02/2016
Finish the program of showing the result that can easily read.
