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Team:Rutgers/Modeling
From 2011.igem.org
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!align="center"|[[Team:Rutgers/Acknowledgements|Acknowledgements]] | !align="center"|[[Team:Rutgers/Acknowledgements|Acknowledgements]] | ||
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| + | |||
| + | Modeling Page | ||
| + | |||
| + | mRNA protein | ||
| + | 1 lovTAP 7 lovTAP | ||
| + | 2 cI434 8 lovTAP* | ||
| + | 3 T7P 9 CI434 | ||
| + | 4 trpR 10 T7P | ||
| + | 5 cI 11 trpR | ||
| + | 6 mRFP1 12 CI | ||
| + | 13 mRFP1 | ||
| + | |||
| + | parameters | ||
| + | k transcription rate | ||
| + | a translation rate | ||
| + | u protein degradation | ||
| + | y mRNA degradation | ||
| + | K dissociation constant | ||
| + | n hill coefficent | ||
| + | b for all of x B sub x = .01 a sub x | ||
| + | o 0 if light off, 1 if light on | ||
| + | c rate of light induced lovTAP to lovTAP* | ||
| + | |||
| + | |||
| + | mRNA ODEs | ||
| + | |||
| + | lovTAPlovTAP mRNAdt= k1- y1 [lovTAP mRNA] | ||
| + | [lovTAP mRNA]/dt = k1 - y1[lovTAP mRNA] | ||
| + | |||
| + | |||
| + | [cI434 mRNA]/dt = k2( K8 / [lovTAP*]^n8 + K8)( [trpR]^n11 / [trpR]^n11 + K11) - y2[cI434 mRNA] | ||
| + | |||
| + | [T7P mRNA]/dt = k3( K9 / [cI434]^n9 + K9 )( [cI]^n12 / [cI]^n12 + K12 ) - y3[T7P mRNA] | ||
| + | |||
| + | [trpR mRNA]/dt = k4( K9 / [cI434]^n9 + K9 )( [cI]^n12 / [cI]^n12 + K12 ) - y4[trpR mRNA] | ||
| + | |||
| + | [cI mRNA]/dt = k5( K9 / [cI434]^n9 + K9 )( [cI]^n12 / [cI]^n12 + K12 ) - y5[cI mRNA] | ||
| + | |||
| + | [mRFP1 mRNA]/dt = k6( [T7P]^n10 / [T7P]^n10 + K10 ) - y6[mRFP1 mRNA] | ||
| + | |||
| + | Protein ODEs | ||
| + | |||
| + | [lovTAP]/dt = a7[lovTAP mRNA] - oc[lovTAP] - u7[lovTAP] | ||
| + | |||
| + | [lovTAP*]/dt = oc[lovTAP] - u8[lovTAP*] | ||
| + | |||
| + | [cI434]/dt = a9[cI434 mRNA] - u9[cI434] | ||
| + | |||
| + | [T7P]/dt = a10[T7p mRNA] - u10[T7P] | ||
| + | |||
| + | [trpR]/dt = a11[trpR mRNA] - u11[trpR] | ||
| + | |||
| + | [cI]/dt = a12[cI mRNA] - u12[cI] | ||
| + | |||
| + | [mRFP1]/dt = a13[mRFP1 mRNA] - u13[mRFP1] | ||
Revision as of 23:43, 27 September 2011
| Home | Team | Official Team Profile | Etch-a-Sketch | Full Adder | MYS!S | Parts Submitted to the Registry | Modeling | Notebook | Safety | Acknowledgements |
|---|
Modeling Page
mRNA protein 1 lovTAP 7 lovTAP 2 cI434 8 lovTAP* 3 T7P 9 CI434 4 trpR 10 T7P 5 cI 11 trpR 6 mRFP1 12 CI 13 mRFP1
parameters k transcription rate a translation rate u protein degradation y mRNA degradation K dissociation constant n hill coefficent b for all of x B sub x = .01 a sub x o 0 if light off, 1 if light on c rate of light induced lovTAP to lovTAP*
mRNA ODEs
lovTAPlovTAP mRNAdt= k1- y1 [lovTAP mRNA] [lovTAP mRNA]/dt = k1 - y1[lovTAP mRNA]
[cI434 mRNA]/dt = k2( K8 / [lovTAP*]^n8 + K8)( [trpR]^n11 / [trpR]^n11 + K11) - y2[cI434 mRNA]
[T7P mRNA]/dt = k3( K9 / [cI434]^n9 + K9 )( [cI]^n12 / [cI]^n12 + K12 ) - y3[T7P mRNA]
[trpR mRNA]/dt = k4( K9 / [cI434]^n9 + K9 )( [cI]^n12 / [cI]^n12 + K12 ) - y4[trpR mRNA]
[cI mRNA]/dt = k5( K9 / [cI434]^n9 + K9 )( [cI]^n12 / [cI]^n12 + K12 ) - y5[cI mRNA]
[mRFP1 mRNA]/dt = k6( [T7P]^n10 / [T7P]^n10 + K10 ) - y6[mRFP1 mRNA]
Protein ODEs
[lovTAP]/dt = a7[lovTAP mRNA] - oc[lovTAP] - u7[lovTAP]
[lovTAP*]/dt = oc[lovTAP] - u8[lovTAP*]
[cI434]/dt = a9[cI434 mRNA] - u9[cI434]
[T7P]/dt = a10[T7p mRNA] - u10[T7P]
[trpR]/dt = a11[trpR mRNA] - u11[trpR]
[cI]/dt = a12[cI mRNA] - u12[cI]
[mRFP1]/dt = a13[mRFP1 mRNA] - u13[mRFP1]
