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Team:UIUC Illinois/Modeling
From 2014.igem.org
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| - | + | <center><p style="font-size: 400% ">Modeling</p></center> | |
| + | <center><p style="font-size: 150% "><i>"All science requires mathematics. The knowledge of mathematical things is almost innate in us.... This is the easiest of sciences, a fact which is obvious in that no one's brain rejects it; for laymen and people who are utterly illiterate know how to count and reckon."</i></p></center> | ||
| + | <br><center>-Roger Bacon</br></center> | ||
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| + | <center><img src="https://static.igem.org/mediawiki/2014/5/5f/Ppp_cutedog.JPG"/></center> | ||
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<p><b>Overview:</b> | <p><b>Overview:</b> | ||
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<h2>Modeling Dog's intestine </h2> | <h2>Modeling Dog's intestine </h2> | ||
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<p><b>Description:</b></p> | <p><b>Description:</b></p> | ||
| - | < | + | K<sub>T</sub> is the rate of transfer, C<sub>i</sub> is concentration of caffeine in intestine of dog, |
| + | C<sub>b</sub> is concentration of caffeine in blood which should be coming down from intestine.<br> | ||
| + | A<sub>i</sub> is the surface area of the intestine, V<sub>i</sub> is the volume of the intestine, V<sub>b</sub> is the volume of blood. | ||
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| + | K<sub>cl</sub> is the clearance rate. | ||
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| - | + | <h2><center>Fig3. Dog's Intestine & Blood Model</center></h2> | |
| + | <center>Initial Concentration of Caffeine decreases exponentially in the intestine as caffeine is delivered into the blood and degraded by bacteria. Concentration of caffeine increases in the blood then decreases due to the clearance factor K<sub>cl</sub> </center> | ||
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Latest revision as of 03:45, 18 October 2014
Modeling
"All science requires mathematics. The knowledge of mathematical things is almost innate in us.... This is the easiest of sciences, a fact which is obvious in that no one's brain rejects it; for laymen and people who are utterly illiterate know how to count and reckon."
Overview: To predict the result of bioreactor, we used mathematica to solve differential using Michaelis-Menton equation. The strength of utilizing mathematica rather than matlab was that it allowed us to set up the value of several constants as varying rather than setting it as invariant. Kcat & Km values were obtained through research papers by Swati & Sathyanarayana (2006), and Ryan M.Summers (2010).
This is caffeine demehtlyation pathway by demethlyase. It goes from Caffeine to theobromine to 7-methylxanthine to xanthine. The other pathway is caffeine dehydrogenase. It goes from Caffeine to Trimethyl Uric acid.
Parameters
| Name | Description |
|---|---|
| Vm | Maximum rate of system |
| Kcat | Maximum number of substrate molecules converted into products |
| Km | Substrate concentration where the reaction rate is half of maximum (depend on both enzyme and substrate) |
Fig1. Caffeine Demethylation Pathway
Fig2. Caffeine Dehydrogenase Pathway
Modeling Dog's intestine
Description:
KT is the rate of transfer, Ci is concentration of caffeine in intestine of dog, Cb is concentration of caffeine in blood which should be coming down from intestine.Ai is the surface area of the intestine, Vi is the volume of the intestine, Vb is the volume of blood.
Kcl is the clearance rate.
Fig3. Dog's Intestine & Blood Model
The Institute for Genomic Biology
Biosystems Design, South wing, 2nd floor
University of Illinois at Urbana-Champaign
1206 West Gregory Drive
61801 Urbana, Illinois
illinoisigem@gmail.com
illinoisigem@gmail.com 
