Revision as of 01:31, 22 October 2019

Inspiration

What needs to be addressed?

The modification of proteins can often be a daunting ordeal. For each single amino acid change there are 23 different possibilities to be considered. iGEM Calgary has generated a toolbox to allow iGEM teams to generate their own genetic algorithms make informed decisions on the modification of their proteins. iGAM, the international genetic algorithm machine was developed to assist iGEM teams in squeezing every ounce of utility out of their proteins.
The iGAM toolbox is an R package with a functions, examples and pseudocode to help teams create custom genetic algorithms to meet their specific needs. These tools and examples include those used within the generation of ModGIX an engineered chlorophyll binding protein.

iGAM Functionality

Whats in the toolbox?

Within the iGAM package there is a pseudocode document detailing the basics of generating a genetic algorithm

Access

How to access iGAM

To access the iGAM tools please visit https://github.com/iGEMCalgary/iGAM and download the R package.

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 The modification of proteins can often be a daunting ordeal. For each single amino acid change there are 23 different possibilities to be considered. iGEM Calgary has generated a toolbox to allow iGEM teams to generate their own genetic algorithms make informed decisions on the modification of their proteins. iGAM, the international genetic algorithm machine was developed to assist iGEM teams in squeezing every ounce of utility out of their proteins.
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+The iGAM toolbox is an R package with a functions, examples and pseudocode to help teams create custom genetic algorithms to meet their specific needs. These tools and examples include those used within the generation of ModGIX an engineered chlorophyll binding protein.
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-            <b>To assist in the dynamic characterization by other teams</b> we looked to develop a methodology that allows for the calculation and aggregation of Brownian motion measurements for each amino acid in a sequence. The Brownian motion measurement chosen was the Root Mean Square Fluctuation(RMSF) calculated for every atom of a protein in ten picosecond intervals.
+Within the iGAM package there is a pseudocode document detailing the basics of generating a genetic algorithm
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-            <b>The RMSF data</b> was calculated from a nanosecond Molecular Dynamic Simulation(MDS) completed within GROMACS, an industrial MDS software.  These values were then averaged over each amino acid, this ensured that the unit of measurement was observed on a scale that was modifiable by teams. This resulted in a series of curves that quantitatively expressed the dynamics for each amino acid.
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Difference between revisions of "Team:Calgary/iGAM"

Revision as of 01:31, 22 October 2019

Software

iGAM