Difference between revisions of "Team:Stockholm/Modeling"
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− | < | + | <h1>Modeling</h1> |
Our main goal was to estimate how the EnvZ concentration correlates with the signal from GFP production. For that we decided to divide our system into four main models: <p> | Our main goal was to estimate how the EnvZ concentration correlates with the signal from GFP production. For that we decided to divide our system into four main models: <p> | ||
• OmpR production and phosphorylation beginning with the EnvZ receptor <br> | • OmpR production and phosphorylation beginning with the EnvZ receptor <br> | ||
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• Release of quorum sensing (QS) molecules <br> | • Release of quorum sensing (QS) molecules <br> | ||
• GFP expression for detection. <br> | • GFP expression for detection. <br> | ||
− | < | + | <h2>Parts 1 & 2: OmpR Phosphorylation and OmpC Translation</h2> |
We wanted to insert the EnvZ receptor into a bacterial cell to activate a signal cascade including four main parts (OmpR production, OmpC translation, quorum sensing and GFP expression). For the first two parts, OmpR and OmpC production, we used various published research to find equations describing the main reactions and their rate constants. With the help of SimBiology software, a plug-in installed in MatLab, we designed these models by drawing them qualitatively, choosing the kinetics and adding all the constants. We then put the two parts together. Down below is the OmpC production-reduction EnvZ switch depending on the osmolarity level. | We wanted to insert the EnvZ receptor into a bacterial cell to activate a signal cascade including four main parts (OmpR production, OmpC translation, quorum sensing and GFP expression). For the first two parts, OmpR and OmpC production, we used various published research to find equations describing the main reactions and their rate constants. With the help of SimBiology software, a plug-in installed in MatLab, we designed these models by drawing them qualitatively, choosing the kinetics and adding all the constants. We then put the two parts together. Down below is the OmpC production-reduction EnvZ switch depending on the osmolarity level. | ||
Revision as of 19:04, 16 September 2015
Modeling
Our main goal was to estimate how the EnvZ concentration correlates with the signal from GFP production. For that we decided to divide our system into four main models:
• OmpR production and phosphorylation beginning with the EnvZ receptor
• OmpC translation
• Release of quorum sensing (QS) molecules
• GFP expression for detection.