Difference between revisions of "Team:UMaryland/Modeling"

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<h2><center>Modeling</center></h2>
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<p>Kinetic modeling is increasingly being employed to help predict or make educated decisions about how alterations in the concentration of a particular enzyme or substrate in a pathway will impact the production level of products. As part of our lutein project we are developing a MATLAB model of the kinetic pathway used for the biosynthesis of carotenoids. In E coli, the endogenous non-mevalonate pathway produces precursor molecule Garenyl Diphosphate (GPP). After this, exogenous genes cloned into the bacteria produce a series of precursors as illustrated below.(we will put a picture here.). The pathway was modeled using Michaelis-Menten enzyme kinetics assuming a steady state flux.</p>
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<p>Kinetic parameters were obtained from the BRENDA enzyme database. there is no or only partial kinetic data available for some of the reactions in this pathway. Due to the lack of data our goal was do develop a framework which could used along with experimental data to construct an accurate model of carotenoid biosynthesis. Our aim is to use such a model to refine the production of specific products within the pathway by understanding how tuning different expression of different enzymes will impact the ratio and concentration of final products. Specifically, how tuning these enzymes will allow us to maximize alpha carotene production while minimizing unwanted derivatives.</p>
  
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<h2> Modeling</h2>
 
  
  
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<h4>Note</h4>
 
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<p>In order to be considered for the <a href="https://2015.igem.org/Judging/Awards#SpecialPrizes">Best Model award</a>, you must fill out this page.</p>
 
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<h3>In progress</h3>
  
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<p>Mathematical models and computer simulations provide a great way to describe the function and operation of BioBrick Parts and Devices. Synthetic Biology is an engineering discipline, and part of engineering is simulation and modeling to determine the behavior of your design before you build it. Designing and simulating can be iterated many times in a computer before moving to the lab. This award is for teams who build a model of their system and use it to inform system design or simulate expected behavior in conjunction with experiments in the wetlab.</p>
 
  
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Here are a few examples from previous teams:
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<h4> We have been working with very nice models! </h4>
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<li><a href="https://2014.igem.org/Team:ETH_Zurich/modeling/overview">ETH Zurich 2014</a></li>
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<li><a href="https://2014.igem.org/Team:Waterloo/Math_Book">Waterloo 2014</a></li>
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Latest revision as of 01:35, 28 August 2015