Difference between revisions of "Team:Aalto-Helsinki/Modeling"

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<p style="margin-top: 40px"> Modeling is an important part of synthetic biology. With good models, one can gain insight of the reaction before doing anything in the lab and maybe avoid doing useless work. Modeling helps us understand what is happening in our reaction and why. Our project consisted of a few quite different parts, and that gave us a natural way to divide our modeling to four parts. </p>
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<p style="margin-top: 40px"> Modeling is an important part of synthetic biology. With good models, one can gain insight of the reaction before doing anything in the lab and by having a better understading of the ideas that govern our project, we could see the influence of each compound in the reaction pathway and have a basis to make decisions that would have a long term impact in our results. Our project consisted of a few quite different parts, and that gave us a natural way to divide our modeling to four parts. </p>
  
 
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Revision as of 13:12, 11 June 2015

In order to be considered for the Best Model award, you must fill out this page.

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.

Here are a few examples from previous teams:

Under construction

Modeling is an important part of synthetic biology. With good models, one can gain insight of the reaction before doing anything in the lab and by having a better understading of the ideas that govern our project, we could see the influence of each compound in the reaction pathway and have a basis to make decisions that would have a long term impact in our results. Our project consisted of a few quite different parts, and that gave us a natural way to divide our modeling to four parts.

Models of propane pathway

The main thing of our project was the production of propane with e. coli, so the main task was to model the propane pathway. For more information, see our page of modeling propane.

Models of cellulose pathway

We wanted to make propane from cellulose, so we also modeled the cellulose pathway in propane, see our page of modeling cellulose.

Modeling synergy

One big concern in our project was the efficiency of propane production. To solve this problem we wanted to use micelles to hold enzymes together and speed up the reactions. We did a stochastic model of synergy with python.

Protein models

To gain insight on how the reactions work, we modeled the proteins in our propane pathway.