Difference between revisions of "Sponsors/MathWorks"
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| − | <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 | + | <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. |
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| − | Learn more about our sponsorship and request complimentary software for use in the competition <a href="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> | http://www.mathworks.com/academia/student-competitions/igem/ </p> | ||
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<div style="width:30%;float:left;"> | <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"> | + | <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"> Global Optimization Toolbox | <li style="padding-bottom:5px"> Global Optimization Toolbox | ||
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<div style="width:30%;float:left;"> | <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"> | + | <li style="padding-bottom:5px"> Statistics and Machine Learning Toolbox |
<li style="padding-bottom:5px"> Partial Differential Equation Toolbox | <li style="padding-bottom:5px"> Partial Differential Equation Toolbox | ||
<li style="padding-bottom:2px"> Image Processing Toolbox | <li style="padding-bottom:2px"> Image Processing Toolbox | ||
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<div style="float:left;width:550px;"> | <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> | <hx1> <p style="font-size:150%; color:#000000; font-weight:bold; text-shadow:#dadada 1px 1px 1px"> Getting Started! </p> </hx1> | ||
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<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 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> | ||
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</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 | ||
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| + | <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;"> | ||
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| + | <hx1 style="font-size:120%; color:#000000; font-weight:bold"> Webinar </hx1> | ||
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| + | <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> | ||
<hx1 style="font-size:120%; color:#000000; font-weight:bold"> MATLAB and SimBiology in Past iGEMs </hx1> | <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! | <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- | + | <ul style="padding-left:-10px; padding-right: 10px;"> |
<li> <span style="font-weight:bold; color: #00cc00"> Team Oxford </span> built | <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> | <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). | 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> | <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> | <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. | 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> <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> <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> | </ul> | ||
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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.
- Getting started with MATLAB
- Drag-and-drop model-building in SimBiology
- Solving nonlinear differential equations in MATLAB
- SimBiology for modeling and simulating dynamics of synthetic biology systems
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!
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.
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.