Team:Paris/Modeling/f4

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(New page: Strain ΔflhDC and ΔfliA. We assume that the logical gate is a ''SUM'' (see our project, so that <center> f4(flhDC,fliA) = f4(flhDC,0) + f4(0,fliA) </center> [[I...)
 
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Strain ΔflhDC and ΔfliA.
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{{Paris/Menu}}
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We assume that the logical gate is a ''SUM'' (see [[Team:Paris/Project|our project]], so that
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{{Paris/Header|Method & Algorithm : &#131;4}}
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<center> f4(flhDC,fliA) = f4(flhDC,0) + f4(0,fliA) </center>
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<center> = act_''pFliA'' </center>
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<br>
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[[Image:f4DC.png]]
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[[Image:f4DCA.png|thumb|Specific Plasmid Characterisation for &#131;4]]
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According to the characterization plasmid (see right) and to our modeling, in the '''exponential phase of growth''', at the steady state,
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we have ''' [''FlhDC'']<sub>''real''</sub> = {coef<sub>''flhDC''</sub>} &#131;1([aTc]<sub>i</sub>) '''
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and ''' [''FliA'']<sub>''real''</sub> = {coef<sub>''fliA''</sub>} &#131;2([arab]<sub>i</sub>) '''
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but we use ''' [aTc]<sub>i</sub> = Inv_&#131;1( [''FlhDC''] ) '''
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and        ''' [arab]<sub>i</sub> = Inv_&#131;2( [''FliA''] ) '''
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So, at steady-states,
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[[Image:F4.jpg|center]]
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we use this analytical expression to determine the parameters :
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<div style="text-align: center">
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{{Paris/Toggle|Table of Values|Team:Paris/Modeling/More_f4_Table}}
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</div>
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<div style="text-align: center">
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{{Paris/Toggle|Algorithm|Team:Paris/Modeling/More_f4_Algo}}
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</div>
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Then, if we have time, we want to verify the expected relation
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[[Image:SumpFliA.jpg|center]]
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<br>
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<center>
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[[Team:Paris/Modeling/Implementation| <Back - to "Implementation" ]]| <br>
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[[Team:Paris/Modeling/Protocol_Of_Characterization| <Back - to "Protocol Of Characterization" ]]|
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</center>

Latest revision as of 02:07, 30 October 2008

Method & Algorithm : ƒ4


= act_pFliA


Specific Plasmid Characterisation for ƒ4

According to the characterization plasmid (see right) and to our modeling, in the exponential phase of growth, at the steady state,

we have [FlhDC]real = {coefflhDC} ƒ1([aTc]i) and [FliA]real = {coeffliA} ƒ2([arab]i)

but we use [aTc]i = Inv_ƒ1( [FlhDC] ) and [arab]i = Inv_ƒ2( [FliA] )

So, at steady-states,

F4.jpg

we use this analytical expression to determine the parameters :

↓ Table of Values ↑


param signification unit value comments
(fluorescence) value of the observed fluorescence au need for 20 mesures with well choosen values of [aTc]i
and for 20 mesures with well choosen values of [arab]i
and 5x5 measures for the relation below?
conversion conversion ratio between
fluorescence and concentration
↓ gives ↓ 		nM.au-1 (1/79.429)
[GFP] GFP concentration at steady-state nM
γGFP dilution-degradation rate
of GFP(mut3b)
↓ gives ↓ 		min-1 0.0198 Time Cell Division : 35 min.
ƒ4 activity of
pFliA with RBS E0032 		nM.min-1



param signification
corresponding parameters in the equations 		unit value comments
β18 total transcription rate of
FlhDC><pFliA with RBS E0032
β18 		nM.min-1
(K1/{coefflhDC}) activation constant of FlhDC><pFliA
K1 		nM
n1 complexation order of FlhDC><pFliA
n1 		no dimension
β23 total transcription rate of
FliA><pFliA with RBS E0032
β23 		nM.min-1
(K7/{coeffliA}) activation constant of FliA><pFliA
K7 		nM
n10 complexation order of FliA><pFliA
n7 		no dimension
↓ Algorithm ↑


find_ƒ4

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

SumpFliA.jpg


<Back - to "Implementation" |
<Back - to "Protocol Of Characterization" |

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