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Team:NTNU Trondheim/Journal Modeling
From 2011.igem.org
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| + | A program which solves ordinary differential equations numerically using the Runge Kutta method of order 4 and 5 | ||
| + | was made in Matlab. A simple model of the system was used and having the level of ppGpp fixed. | ||
== Friday 8/7 == | == Friday 8/7 == | ||
Revision as of 13:57, 27 July 2011
Journal For Modeling Group
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You can find an overview of the modeling here.
Wednesday 22/6
Introductory lectures in systems biology was held by Marius Eidsaa. Different approaches were discussed and it was decided to work with two different models: Bayesian Networks and systems of Ordinary Differential Equations, and possibly extend it to Stochastic Differential Equations.
Friday 24/6
Dizzy was installed and we started too look at how to simulate Michealis Menten reactions.
Monday 27/6
We continued where we ended last week, with having lectures and to get aquinted with different software.
Thursday 30/6
A program which solves ordinary differential equations numerically using the Runge Kutta method of order 4 and 5 was made in Matlab. A simple model of the system was used and having the level of ppGpp fixed.
Friday 8/7
We was given an introductory lecture in Biology and Biotechnology by Gunnvor, too get an understanding of the work beeing done at the lab.
Monday 11/7
After a team meeting we was given a Master Thesis by Sigurd Johansen describing a toogle switch. We started to expand the ODE model to include more reactions than we have done so far. Both to be aware of possible limitations of the current model and to get a clearer understanding of the fundamental processes involved.
Thursday 15/7
We contacted the lab group to clarify the way ppGpp inhibits the rrnB promotor and was informed that it affects the RNAp and not the promotor in itself and can therefore also affect pLac.
Wednesday 20/7
We contacted Autodesk to explore the possibility of using Maya and the mMaya toolkit to visiualize the system. We also visited the lab to see how gelelectrophoresis was performed.
Thursday 21/7
We recieved mail from Autodesk, installed mMaya and explored the possibility of creating animations.
Friday 22/7
A simple animation of a green bacteria turning red was made in Maya.
Wednesday 27/7
Meeting with prof. Almaas.
