Team:Paris/Modeling
From 2008.igem.org
(→Equations) |
(→An Oscillatory Biological Model) |
||
Line 66: | Line 66: | ||
* Model | * Model | ||
- | + | The transcription hierarchy of the flagella genes have been studied in [1]. It resuted that the promoter activity of the seven class 2 operons, among which fLiL, flgA, flhB, may be mathematically described in that way : | |
<br> | <br> | ||
[[Image:eqpromact.jpg|center]] | [[Image:eqpromact.jpg|center]] | ||
<br> | <br> | ||
- | <br> where [X] denotes the effective protein-level activity | + | <br> where [X] denotes the effective protein-level activity. |
<br> | <br> | ||
<br> | <br> | ||
- | For each operon, Shiraz Kalir and Uri Alon came up with numerical values of β and β', available in [1]. | + | For each operon, Shiraz Kalir and Uri Alon came up with numerical values of β and β', available in [1]. |
<br> | <br> | ||
<br> Furthermore, the protein-level activity can be presented (for a more detailed presentation, see[4]) as | <br> Furthermore, the protein-level activity can be presented (for a more detailed presentation, see[4]) as | ||
Line 84: | Line 84: | ||
[[Image:lasI.jpg|center]] | [[Image:lasI.jpg|center]] | ||
- | * Discussion | + | * Asumptions and Discussion |
+ | We can see that there is a retroaction from fliA on fliA. In a first approach, we decided not to take into account this interaction. This will be seen in a second step. | ||
+ | Another step consists in choosing the proper units, so as to have a homogenous set of parameters. | ||
<br> | <br> | ||
---- | ---- | ||
- | + | * Steps | |
- | * lasI → HSL<sub>ext</sub> (10) | + | ** lasI → HSL<sub>ext</sub> (10) |
- | * lasI → HSL<sub>int</sub> (11) | + | ** lasI → HSL<sub>int</sub> (11) |
+ | * Equations | ||
[[Image:HSLint.jpg|center]] | [[Image:HSLint.jpg|center]] | ||
[[Image:HSLext.jpg|center]] | [[Image:HSLext.jpg|center]] | ||
- | |||
+ | * Discution and Asumptions | ||
+ | Even though we considered a single cell, we decided to model both HSL inside and outside the cell. In a first approach, we assumed that HSL could be modelized in the same fashion as AHL. The process was well detailed in [2] and we adapted their model to our present situation. | ||
+ | |||
+ | <br> | ||
---- | ---- | ||
Here is the only case where we coul not afford to skip the mRNA step. Then, (12) represents the binding and transcription steps ; (13) represents the translation step. | Here is the only case where we coul not afford to skip the mRNA step. Then, (12) represents the binding and transcription steps ; (13) represents the translation step. |
Revision as of 14:39, 6 August 2008
|