Team:Paris/Modeling/Bibliography

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<center> <FONT size=5> '''All the parameters we might have to introduce in our models''' </FONT> <BR> </center>  
<center> <FONT size=5> '''All the parameters we might have to introduce in our models''' </FONT> <BR> </center>  
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[2] ''Using a Quantitative Blueprint to Reprogram the Dynamics of the Flagella Gene Network' <br>'
[2] ''Using a Quantitative Blueprint to Reprogram the Dynamics of the Flagella Gene Network' <br>'
Shiraz Kalir and Uri Alon
Shiraz Kalir and Uri Alon
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Revision as of 13:55, 30 July 2008

All the parameters we might have to introduce in our models

Diag expr time.jpg expression of the fl-genes observed in [1]

Contents

flhDC + fliA → pfliA → fliA → ∅

  • is the contribution of flhDC and fliA on pfliA a SUM gate

(see fliL) ?

  • It seems that the FlhDC complex is an hexamere, as FlhD4-FlhC2.

flhDC + fliA → pfliL → Z1 → ∅

the contributions of flhDC and fliA in the activity of pfliL appear to be a SUM [2] :

act_pfliL(flhDC,fliA) = act_pfliL(flhDC,0)+act_pfliL(0,fliA)


is it the same for the other promoters under the influence of both flhDC and fliA ?

flhDC + fliA → pflgA → Z2 → ∅

is the contribution of flhDC and fliA on pflgA a SUM gate (see fliL) ?

flhDC + fliA → pflgB → Z2 → ∅

is the contribution of flhDC and fliA on pflgB a SUM gate (see fliL) ?

flhDC + fliA → pflhB → Z3 → ∅

is the contribution of flhDC and fliA on pflhB a SUM gate (see fliL) ?

lasI → 3OC12HSL → ∅

d[HSL]/dt = -D * Grad²([HSL])

lasR → Rec → ∅

3OC12HSL + Rec → HSL-Rec → ∅

HSL-Rec + pRep → TetR → ∅

∅ → aTc → ∅

TetR + aTc → pTet → flhDC → ∅

OmpR* → pflhDC → flhDC → ∅

References

[1] Ordering Genes in a Flagella Pathway by Analysis of Expression Kinetics from Living Bacteria
S. Kalir, J. McClure, K. Pabbaraju, C. Southward, M. Ronen, S. Leibler, M. G. Surette, U. Alon,
[2] Using a Quantitative Blueprint to Reprogram the Dynamics of the Flagella Gene Network'
' Shiraz Kalir and Uri Alon


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