Difference between revisions of "Sponsors/MathWorks"

 
(33 intermediate revisions by 2 users not shown)
Line 1: Line 1:
 
{{2015Top}}
 
{{2015Top}}
 +
  
 
<html>
 
<html>
 +
 +
<style type="text/css">
  
 +
#fullWidth a{
 +
color:#CC0000;
 +
}
  
−
 
+
#fullWidth a:hover{
−
<!-- this is where the submenu is placed -->
+
color:#CC0000;
−
<div id="fullWidth">
+
text-decoration: underline;
 +
}
 +
</style>
 +
<div id="fullWidth">
  
 
<!-- start of content ~~~~~~~~~~~~~~ -->
 
<!-- start of content ~~~~~~~~~~~~~~ -->
 +
 
<hr>
 
<hr>
 
<p style = "font-family:verdana; color:#576f91; font-style:italic;font-weight:demi;">
 
<p style = "font-family:verdana; color:#576f91; font-style:italic;font-weight:demi;">
Line 25: Line 35:
 
<br><br>
 
<br><br>
  
−
<p> MathWorks is pleased to sponsor the 2015 iGEM competition. As an iGEM partner, MathWorks will provide complimentary software for use in the competition.​ ​Learn more about our sponsorship and request complimentary software for use in the competition <a href="http://www.mathworks.com/academia/student-competitions/igem/">here </a> or visit us at  
+
<p> MathWorks is pleased to sponsor the 2015 iGEM competition. As an iGEM partner, MathWorks will provide complimentary software and technical support to all iGEM teams for use in the competition.​ ​Please complete the <a href="http://www.mathworks.com/academia/student-competitions/software-request-registration-igem.html" > <b>Software Request Form</b></a> (must be completed by faculty advisor) to request the complementary software kit.
−
http://www.mathworks.com/academia/student-competitions/igem/
+
 
 +
Learn more about our sponsorship and request complimentary software for use in the competition <a href="http://www.mathworks.com/academia/student-competitions/igem/">here </a> or visit us at  
 +
http://www.mathworks.com/academia/student-competitions/igem/ </p>
  
  
 
<br>
 
<br>
−
<p> The complementary software kit includes the following 9 products:</p>   
+
<p> The complementary software kit includes the following 11 products:</p>   
−
<table style="color:#C0C0C0; padding:0px ; border-bottom:solid;border-top:solid;width:100%">
+
 
−
<td style="padding-left:30px;margin-bottom:0px; padding-top:0px">
+
<div class="clear"></div>
 +
<div style="border-top:3px solid #c0c0c0;">
 +
<div class="clear"></div>
 +
<div style="margin-left:40px;width:30%;float:left;">
 
<ul style="padding-right:30px; font-family: Verdana; color:#000000; margin:5px ">
 
<ul style="padding-right:30px; font-family: Verdana; color:#000000; margin:5px ">
 
<li style="padding-bottom:5px">  MATLAB  
 
<li style="padding-bottom:5px">  MATLAB  
 
<li style="padding-bottom:5px">  Simulink
 
<li style="padding-bottom:5px">  Simulink
−
<li style="padding-bottom:2px">  SimBiology
+
<li style="padding-bottom:5px">  SimBiology
 +
<li style="padding-bottom:2px">  Curve Fitting Toolbox
 
</ul>
 
</ul>
−
</td>
+
</div>
−
<td style="padding-left:30px; ">
+
<div style="width:30%;float:left;">
 
<ul style="padding-right:30px; font-family: Verdana;  color:#000000; margin:5px; ">
 
<ul style="padding-right:30px; font-family: Verdana;  color:#000000; margin:5px; ">
 +
<li style="padding-bottom:5px">  Symbolic Math Toolbox
 
<li style="padding-bottom:5px">  Optimization Toolbox  
 
<li style="padding-bottom:5px">  Optimization Toolbox  
−
<li style="padding-bottom:5px">  Statistics Toolbox
+
<li style="padding-bottom:5px">  Global Optimization Toolbox
 
<li style="padding-bottom:2px">  Bioinformatics Toolbox
 
<li style="padding-bottom:2px">  Bioinformatics Toolbox
 
</ul>
 
</ul>
−
</td>
+
</div>
−
<td style="padding-left:35px">
+
<div style="width:30%;float:left;">
−
<ul style="padding-right:30px; font-family: Verdana;  ;color:#000000; margin:5px; ">
+
<ul style="padding-right:30px; font-family: Verdana;  color:#000000; margin:5px; ">
−
<li style="padding-bottom:5px"> Global Optimization Toolbox
+
<li style="padding-bottom:5px"> Statistics and Machine Learning Toolbox
−
<li style="padding-bottom:5px"> Curve Fitting Toolbox
+
<li style="padding-bottom:5px"> Partial Differential Equation Toolbox
−
<li style="padding-bottom:2px"> Symbolic Math Toolbox
+
<li style="padding-bottom:2px"> Image Processing Toolbox
 
</ul>
 
</ul>
−
</td>
+
</div>
−
</table>
+
−
 
+
−
<p style = "font-size:75%; text-align:left" > ** See details of
+
−
<a href="https://static.igem.org/mediawiki/2014/1/18/IGEM_Offer_of_Complimentary_Software_License%28s%29_2014.pdf"> Offer of Complementary Software License(s) </a> </p> </p>
+
−
</div>
+
−
 
+
−
<br>
+
−
<div style="width:100%; margin-bottom:100px">
+
−
<div class="section" style="width:350px; border:solid; border-radius:15px; float:right;
+
−
                            padding:15px; font-size:100%; background-color:#F5F5F5">
+
−
 
+
−
<hx1 style="font-size:120%; color:#000000"> MATLAB in Past iGEMs </hx1>
+
  
−
<p style="padding-right:20px"> See how former iGEMers used MathWorks tools, such as MATLAB and SimBiology, for a variety of modeling and simulation projects. A few examples from last year!
 
−
 
−
<ul style="padding-right:20px; padding-left:20px">
 
−
 
−
<li> <span style="color:#0080FF "> Team UCL </span> built
 
−
<a href="https://2012.igem.org/Team:University_College_London/Modelling" style="Font-Weight:" > multiple models</a>
 
−
to validate, predict and optimize various aspects of their project, Plastic Republic.
 
−
 
−
<li> <span style="color:#0080FF"> Team Calgary </span> created an <a href = "https://2012.igem.org/Team:Calgary/Project/FRED/Modelling" style="Font-Weight:"> deterministic model</a> to predict the time course and response time of their electrochemical sensor, FRED.
 
−
 
−
<li> <span style="color:#0080FF"> Team Carnegie Mellon </span> derived an <a href =  "https://2012.igem.org/Team:Carnegie_Mellon/Mod-Overview" style="Font-Weight:"> ODE model</a> and used it with experimental time-course data to estimate key parameters like transcriptional and translational efficiency.
 
−
 
−
<li> <span style="color:#0080FF"> Team Slovenia  </span>performed <a href =  "https://2012.igem.org/Team:Slovenia/ModelingPositiveFeedbackLoopSwitch" style="Font-Weight:"> parameter scans</a>  to better characterize the effects of the parameters space on the behavior their bistable system, Switch IT.
 
−
 
−
</ul>
 
−
</p>
 
 
</div>
 
</div>
 +
<div class="clear"></div>
 +
<div style="border-top:3px solid #c0c0c0;"></div>
 +
 +
<div class="clear"></div>
 +
<div class="clear"></div><div class="clear"></div>
 +
<div style="float:left;width:550px;">
 +
<hx1> <p style="font-size:150%; color:#000000; font-weight:bold; text-shadow:#dadada 1px 1px 1px"> Getting Started! </p> </hx1>
 +
<p style="padding-right:20px">
  
  
−
<div class="section" style="width:550px; padding:15px; ">
 
  
−
<hx1> Getting Started! </hx1>
 
−
<br><br>
 
−
<p style="padding-right:20px">
 
 
Interested in using MATLAB for your <i> in silico </i> projects?  
 
Interested in using MATLAB for your <i> in silico </i> projects?  
 
We have put together a few <u> video tutorials </u> to help you get started. </p>
 
We have put together a few <u> video tutorials </u> to help you get started. </p>
Line 95: Line 88:
 
<ul>
 
<ul>
 
<li style="padding-bottom:5px;" > <a href="http://www.mathworks.com/academia/student_center/tutorials/register.html"  style="text-decoration: none"> Getting started with MATLAB </a>
 
<li style="padding-bottom:5px;" > <a href="http://www.mathworks.com/academia/student_center/tutorials/register.html"  style="text-decoration: none"> Getting started with MATLAB </a>
 +
</li>
 
<li style="padding-bottom:5px;"> <a href="http://www.mathworks.com/videos/building-a-model-in-simbiology-68960.html"  style="text-decoration: none"> Drag-and-drop model-building in SimBiology </a>
 
<li style="padding-bottom:5px;"> <a href="http://www.mathworks.com/videos/building-a-model-in-simbiology-68960.html"  style="text-decoration: none"> Drag-and-drop model-building in SimBiology </a>
 +
</li>
 
<li style="padding-bottom:5px;"> <a href="http://www.mathworks.com/academia/student_center/tutorials/computational-math/solving-ordinary-diff-equations/player.html"  style="text-decoration: none">  
 
<li style="padding-bottom:5px;"> <a href="http://www.mathworks.com/academia/student_center/tutorials/computational-math/solving-ordinary-diff-equations/player.html"  style="text-decoration: none">  
 
Solving nonlinear differential equations in MATLAB </a>
 
Solving nonlinear differential equations in MATLAB </a>
 +
</li>
 +
<li style="padding-bottom:5px;"> <a href="http://www.mathworks.com/videos/modeling-biology-with-simbiology-an-introduction-for-igem-teams-81817.html"  style="text-decoration: none"> SimBiology for modeling and simulating dynamics of synthetic biology systems </a>
 +
</li>
 +
 
</ul>
 
</ul>
  
 
<p> For more resources, check out the
 
<p> For more resources, check out the
 +
<a href="http://www.mathworks.com/academia/student-competitions/igem/"> competition page</a>,
 
<a href="http://www.mathworks.com/products/"> product pages</a>,  
 
<a href="http://www.mathworks.com/products/"> product pages</a>,  
 
<a href="http://www.mathworks.com/company/events/webinars/index.html"> webinars</a>, and  
 
<a href="http://www.mathworks.com/company/events/webinars/index.html"> webinars</a>, and  
Line 106: Line 106:
 
</p>
 
</p>
 
<br>
 
<br>
−
<p style="font-weight:bold"> Technical Mentoring </p>
+
<p style="font-weight:bold; font-size:120%"> Technical Mentoring </p>
  
  
 
<p>
 
<p>
 
Can't find what you are looking for? Have a specific question about using MATLAB tools for your iGEM work? We are here to help. Feel free to  
 
Can't find what you are looking for? Have a specific question about using MATLAB tools for your iGEM work? We are here to help. Feel free to  
−
contact Asawari Samant via email at <u> asamant AT mathworks.com</u> to request assistance.  
+
contact Fulden Buyukozturk via email at <u> fulden.buyukozturk AT mathworks.com</u> to request assistance.  
 
</p>
 
</p>
 
<br>
 
<br>
 
<p> <b> Good luck with your projects! </b> </p>  
 
<p> <b> Good luck with your projects! </b> </p>  
 +
 +
</div>
 +
 +
 +
 +
 +
 +
 +
 +
<div style="float:right;width:350px; background-color: #f2f2f2; border-radius: 5px; border:2px solid gray; padding-left: 15px; padding-top:10px; padding-bottom:10px;">
 +
 +
<hx1 style="font-size:120%; color:#000000; font-weight:bold"> Webinar </hx1>
 +
 +
<p style="padding-right:20px"> <u> SimBiology and MATLAB for Modeling Synthetic Biology Systems </u>
 +
<p style="padding-right:20px"> This webinar provides iGEM teams with an introduction to modeling, simulation and analysis with MATLAB and SimBiology using an example from synthetic biology literature.
 +
<p style="padding-right:20px"> <a href="http://www.mathworks.com/videos/modeling-synthetic-biology-systems-with-matlab-and-simbiology-101691.html" style="Font-Weight:" > Watch Recorded Webinar Here! </a>
 +
</p>
 
<br>
 
<br>
 +
<hx1 style="font-size:120%; color:#000000; font-weight:bold"> MATLAB and SimBiology in Past iGEMs </hx1>
 +
 +
<p style="padding-right:20px"> See how former iGEMers used MathWorks tools, such as MATLAB and SimBiology, for a variety of modeling and simulation projects. A few examples from previous years!
 +
 +
<ul style="padding-left:-10px; padding-right: 10px;">
 +
 +
<li> <span style="font-weight:bold; color: #00cc00"> Team Oxford </span> built
 +
<a href="https://2014.igem.org/Team:Oxford/Modelling" style="Font-Weight:" > stochastic and deterministic models</a>
 +
of genetic circuits in order to tackle environmental pollution by developing a device for the detection and degradation of the hazardous yet indispensable solvent dichloromethane (DCM).
 +
</li>
 +
 +
<li> <span style="font-weight:bold; color: #00cc00"> Team KU Leuven </span>
 +
<a href="https://2013.igem.org/Team:KU_Leuven/Project/modelling" style="Font-Weight:" > modelled</a>
 +
the pathway leading to Methyl Salicylate (MeS) production and performed sensitivity analysis, in order to predict MeS production and find the rate limiting steps.
 +
</li>
 +
 +
<li> <span style="font-weight:bold; color: #00cc00"> Team Carnegie Mellon </span> derived an <a href =  "https://2012.igem.org/Team:Carnegie_Mellon/Mod-Overview" style="Font-Weight:"> ODE model</a> and used it with experimental time-course data to estimate key parameters like transcriptional and translational efficiency.
 +
</li>
 +
 +
<li> <span style="font-weight:bold; color: #00cc00"> Team Slovenia  </span>performed <a href =  "https://2012.igem.org/Team:Slovenia/ModelingPositiveFeedbackLoopSwitch" style="Font-Weight:"> parameter scans</a>  to better characterize the effects of the parameters space on the behavior their bistable system, Switch IT.
 +
</li>
 +
 +
</ul>
 +
</div>
 +
 +
 +
<div class="clear"></div><div class="clear"></div><div class="clear"></div>
 +
 
<!-- end of content ~~~~~~~~~~~~~~~~~~~~ -->
 
<!-- end of content ~~~~~~~~~~~~~~~~~~~~ -->
 
</div>
 
</div>

Latest revision as of 14:44, 24 June 2015


Accelerating the pace of engineering and science



MathWorks is pleased to sponsor the 2015 iGEM competition. As an iGEM partner, MathWorks will provide complimentary software and technical support to all iGEM teams for use in the competition.​ ​Please complete the Software Request Form (must be completed by faculty advisor) to request the complementary software kit. Learn more about our sponsorship and request complimentary software for use in the competition here or visit us at http://www.mathworks.com/academia/student-competitions/igem/


The complementary software kit includes the following 11 products:

  • MATLAB
  • Simulink
  • SimBiology
  • Curve Fitting Toolbox
  • Symbolic Math Toolbox
  • Optimization Toolbox
  • Global Optimization Toolbox
  • Bioinformatics Toolbox
  • Statistics and Machine Learning Toolbox
  • Partial Differential Equation Toolbox
  • Image Processing Toolbox

Getting Started!

Interested in using MATLAB for your in silico projects? We have put together a few video tutorials to help you get started.

For more resources, check out the competition page, product pages, webinars, and additional tutorials.


Technical Mentoring

Can't find what you are looking for? Have a specific question about using MATLAB tools for your iGEM work? We are here to help. Feel free to contact Fulden Buyukozturk via email at fulden.buyukozturk AT mathworks.com to request assistance.


Good luck with your projects!

Webinar

SimBiology and MATLAB for Modeling Synthetic Biology Systems

This webinar provides iGEM teams with an introduction to modeling, simulation and analysis with MATLAB and SimBiology using an example from synthetic biology literature.

Watch Recorded Webinar Here!


MATLAB and SimBiology in Past iGEMs

See how former iGEMers used MathWorks tools, such as MATLAB and SimBiology, for a variety of modeling and simulation projects. A few examples from previous years!

  • Team Oxford built stochastic and deterministic models of genetic circuits in order to tackle environmental pollution by developing a device for the detection and degradation of the hazardous yet indispensable solvent dichloromethane (DCM).
  • Team KU Leuven modelled the pathway leading to Methyl Salicylate (MeS) production and performed sensitivity analysis, in order to predict MeS production and find the rate limiting steps.
  • Team Carnegie Mellon derived an ODE model and used it with experimental time-course data to estimate key parameters like transcriptional and translational efficiency.
  • Team Slovenia performed parameter scans to better characterize the effects of the parameters space on the behavior their bistable system, Switch IT.