Team:Paris/Modeling/f5

From 2008.igem.org

(Difference between revisions)
Line 1: Line 1:
-
[[Image:f5DCA.png|thumb]]
+
[[Image:f5DCA.png|thumb]] At the steady-state, we have
 +
 
 +
<center>[[Image:FlhDCeq.jpg]]</center>
 +
and
 +
<center>[[Image:FliAeq.jpg]]</center>
 +
 
 +
so the expression
 +
 
 +
<center>[[Image:f5expr.jpg]]</center>
 +
 
 +
gives
 +
 
 +
<center>[[Image:f5FlhDC.jpg]]</center>
 +
and
 +
<center>[[Image:f5FliA.jpg]]</center>
 +
 
 +
and for ''calculated values of the TF'',
 +
 
 +
<center>[[Image:f5FlhDCCalc.jpg]]</center>
 +
and
 +
<center>[[Image:f5FliACalc.jpg]]</center>
 +
 
 +
<br><br>
 +
 
 +
{|border="1" style="text-align: center"
 +
|param
 +
|signification
 +
|unit
 +
|value
 +
|-
 +
|[expr(pFliA)]
 +
|expression rate of <br> pFliA '''with RBS E0032'''
 +
|nM.s<sup>-1</sup>
 +
|see [[Team:Paris/Modeling/Programs|"findparam"]] <br> need for 20 + 20 measures <br> and 5x5 measures for the ''SUM''?
 +
|-
 +
|γ<sub>GFP</sub>
 +
|dilution-degradation rate <br> of GFP(mut3b)
 +
|s<sup>-1</sup>
 +
|ln(2)/3600
 +
|-
 +
|[GFP]
 +
|GFP concentration at steady-state
 +
|nM
 +
|need for 20 + 20 measures <br> and 5x5 measures for the ''SUM''?
 +
|-
 +
|(''fluorescence'')
 +
|value of the observed fluorescence
 +
|au
 +
|need for 20 + 20 measures <br> and 5x5 measures for the ''SUM''?
 +
|-
 +
|''conversion''
 +
|conversion ration between <br> fluorescence and concentration
 +
|nM.au<sup>-1</sup>
 +
|(1/79.429)
 +
|}
 +
 
 +
<br><br>
 +
 
 +
{|border="1" style="text-align: center"
 +
|param
 +
|signification <br> corresponding parameters in the [[Team:Paris/Modeling/Oscillations#Resulting_Equations|equations]]
 +
|unit
 +
|value
 +
|-
 +
|β<sub>5</sub>
 +
|production rate of FlhDC-pFliA '''with RBS E0032''' <br> β<sub>5</sub>
 +
|nM.s<sup>-1</sup>
 +
|
 +
|-
 +
|(K<sub>3</sub>/{coef<sub>flhDC</sub>}<sup>n<sub>3</sub></sup>)
 +
|activation constant of FlhDC-pFliA <br> K<sub>3</sub>
 +
|nM<sup>n<sub>3</sub></sup>
 +
|
 +
|-
 +
|n<sub>3</sub>
 +
|complexation order of FliA-pFliA <br> n<sub>3</sub>
 +
|no dimension
 +
|
 +
|-
 +
|-
 +
|β<sub>13</sub>
 +
|production rate of FliA-pFliA '''with RBS E0032''' <br> β<sub>13</sub>
 +
|nM.s<sup>-1</sup>
 +
|
 +
|-
 +
|(K<sub>9</sub>/{coef<sub>fliA</sub>}<sup>n<sub>9</sub></sup>)
 +
|activation constant of OmpR-pFlhDC <br> K<sub>9</sub>
 +
|nM<sup>n<sub>9</sub></sup>
 +
|
 +
|-
 +
|n<sub>9</sub>
 +
|complexation order of OmpR-pFlhDC <br> n<sub>19</sub>
 +
|no dimension
 +
|
 +
|}
 +
 
 +
<br><br>
 +
 
 +
Then, if we have time, we want to verify the expected relation
 +
 
 +
<center>[[Image:SumpFliL.jpg]]</center>

Revision as of 15:51, 21 August 2008

F5DCA.png
At the steady-state, we have
FlhDCeq.jpg

and

FliAeq.jpg

so the expression

F5expr.jpg

gives

F5FlhDC.jpg

and

F5FliA.jpg

and for calculated values of the TF,

F5FlhDCCalc.jpg

and

F5FliACalc.jpg



param signification unit value
[expr(pFliA)] expression rate of
pFliA with RBS E0032 		nM.s-1 see "findparam"
need for 20 + 20 measures
and 5x5 measures for the SUM?
γGFP dilution-degradation rate
of GFP(mut3b) 		s-1 ln(2)/3600
[GFP] GFP concentration at steady-state nM need for 20 + 20 measures
and 5x5 measures for the SUM?
(fluorescence) value of the observed fluorescence au need for 20 + 20 measures
and 5x5 measures for the SUM?
conversion conversion ration between
fluorescence and concentration 		nM.au-1 (1/79.429)



param signification
corresponding parameters in the equations 		unit value
β5 production rate of FlhDC-pFliA with RBS E0032
β5 		nM.s-1
(K3/{coefflhDC}n3) activation constant of FlhDC-pFliA
K3 		nMn3
n3 complexation order of FliA-pFliA
n3 		no dimension
β13 production rate of FliA-pFliA with RBS E0032
β13 		nM.s-1
(K9/{coeffliA}n9) activation constant of OmpR-pFlhDC
K9 		nMn9
n9 complexation order of OmpR-pFlhDC
n19 		no dimension



Then, if we have time, we want to verify the expected relation

SumpFliL.jpg
Retrieved from "http://2008.igem.org/Team:Paris/Modeling/f5"