Team:Dundee/Project/NetlogoIntro

From 2013.igem.org

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           <h2><b>Mop simulations overview</h2>
           <h2><b>Mop simulations overview</h2>
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                The applet requires Java 5 or higher. Java must be enabled in your browser settings. Mac users must have Mac OS X 10.4 or higher. Windows and Linux users may obtain the latest Java from Oracle's Java site.
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Revision as of 12:19, 1 October 2013

iGEM Dundee 2013 · ToxiMop

Visualising the physical processes which occur within our bacterial Toximop was an important step in the conclusion of our project. By visualising the cell environment and allowing the manipulation of key properties such as binding probabilities, gate numbers, protein production rates etc., the effects of small changes to key properties of the mopping bacteria could be easily and immediately observed. Furthermore, by the visualisation of the bacterial cell in action, effects over time could be observed and concentrations of particles and proteins displayed in a plot. The two visualisations created represent two transport mechanism for the transport of proteins from the cytoplasm of E. coli to the periplasm. These transport mechanisms are the TAT and SEC pathways (for more details on these pathways, see ToxiMop – What it is & how it works. Both the TAT and SEC pathways were tested as possible methods of transport for PP1 molecules into the periplasm and visualisations of such transports were created in an application called Netlogo[1].

Please be aware; the java applets within which these simulations are displayed can often take some time in loading. We ask for your patience when attempting to run these applets.