Team:University College London/Module 3/Modelling

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| Lin|| Example ||
| Lin|| Example ||
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! Number !! Reaction !! Notes
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| R1 || PE + POPex ↔ PEPOPex|| Pops have 1000 times greater tendency to adhere to plastic than float free in the ocean
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| R2 || POPex ↔ POPin || Based on membrane permeability: diffusion gradient
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| R3 || POPin + mRNA.Nahr → POPin.mRNA.Nahr || The chemical structure/size of POPs is similar to salycilate which is the original compound that react to  mRNA.Nahr -> 0 (??)
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| R9 || 0 → mRNA.Nahr ||
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| R4 || POPexmRNANahr → POPexmRNANahr.Psal ||
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| R5 || POPexmRNANahr.Psal → Lin.mRNA|| Lin.mRNA → mRNA.degp??
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| R6 || Lin.mRNA → Lin||
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| R11 || Lin → Lindegp ||
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| R7 || Lin → Lex ||
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| R12 || Lex → Lexdegp || ??
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| R8 || Lex → PEdegp ||
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Revision as of 14:58, 20 September 2012

Module 3: Degradation

Description | Design | Construction | Characterisation | Modelling | Results | Conclusions

Modelling

Our gene network model for this module shows the amount of laccase produced by our bacteria. We have used this prediction to find out how many bacteria would be required per cubic meter of sea water in order to effectively degrade polyethylene-based plastics.

Parameter Value
f.PE+POPex-PEPOPex Example
r.PE+POPEX-PEPOPex Example
f.POPex-POPin Example
r.POPex-POPin Example
f.NahR+POPin-POPinNahR Example
r.NahR+POPin-POPinNahr Example
POPinNahR-Lin+POPinNahR Example
Lin-Lex Example
Lin-Lex Example
f.Null-NahR Example
r.Null-NahR Example
PEPOP+Lex-Lex Example
Species Initial value Notes
PE Example
POPEX Example
Lex Example
PEPOPex Example
POPin Example Dependent on the concentration gradient: when the conc. in is equal to conc. out rate decreases
Nahr Example Produced all the time, transcription depends on
POPinNahR Example Hill function
Lin Example
Number Reaction Notes
R1 PE + POPex ↔ PEPOPex Pops have 1000 times greater tendency to adhere to plastic than float free in the ocean
R2 POPex ↔ POPin Based on membrane permeability: diffusion gradient
R3 POPin + mRNA.Nahr → POPin.mRNA.Nahr The chemical structure/size of POPs is similar to salycilate which is the original compound that react to mRNA.Nahr -> 0 (??)
R9 0 → mRNA.Nahr
R4 POPexmRNANahr → POPexmRNANahr.Psal
R5 POPexmRNANahr.Psal → Lin.mRNA Lin.mRNA → mRNA.degp??
R6 Lin.mRNA → Lin
R11 Lin → Lindegp
R7 Lin → Lex
R12 Lex → Lexdegp  ??
R8 Lex → PEdegp

Degradationnet.jpg