Difference between revisions of "Model Overview"
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default [[Welcome to the In-Silico Model of γ-butyrolactone regulation in Streptomyces coelicolor|Go back to overview]] | default [[Welcome to the In-Silico Model of γ-butyrolactone regulation in Streptomyces coelicolor|Go back to overview]] | ||
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+ | == Model scripts == | ||
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+ | The model scripts for the different scenarios can be found in pdf form here: [[File:GBL_Models.pdf]] | ||
== List of Model Reactions == | == List of Model Reactions == | ||
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== Differential equations == | == Differential equations == | ||
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Latest revision as of 17:10, 16 October 2019
Contents
Model scripts
The model scripts for the different scenarios can be found in pdf form here: File:GBL Models.pdf
List of Model Reactions
*1 Reactions taking place only in the scenarios which includes the activating complex
*2 Reactions taking place only in the scenarios which includes the antisense RNA interactions
*3 Reactions taking place only in the scenarios which include the activation of scbA by
Reactions |
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Parameters for model reactions
Reaction | Parameter | Values in literature | Units | Mode | Spread | Location
parameter (μ) |
Scale
parameter (σ) |
---|---|---|---|---|---|---|---|
Binding of R2 to OR operator | ![]() |
0.005−5.8 | ![]() |
0.299 | 6.8 | 0.15471 | 1.1661 |
![]() |
0.09−0.846 | ![]() |
0.489 | 1.98 | −0.37642 | 0.58225 | |
Binding of R2 to OA operator | ![]() |
0.005−5.8 | ![]() |
0.299 | 6.8 | 0.15471 | 1.1661 |
![]() |
0.09−0.846 | ![]() |
0.489 | 1.98 | −0.37642 | 0.58225 | |
Binding of R2 to A | ![]() |
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10.02 | 13.192 | 1.2977 |
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1879.7 | 23.13 | 9.9423 | 1.5503 | |
Binding of R2 to C | ![]() |
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1.58 | 730.63 | 5.9389 | 2.3412 |
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0.816 | 244 | 4.2872 | 2.119 | |
Binding of A-R2 to OA' operator | ![]() |
0.005−5.8 | ![]() |
0.299 | 6.8 | 0.15471 | 1.1661 |
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0.09−0.846 | ![]() |
0.489 | 1.98 | −0.37642 | 0.58225 | |
Synthesis of C | ![]() |
0.00315−85.5 | ![]() |
0.094 | 60.49 | 0.87914 | 1.8017 |
Transcription of r | ![]() |
0.16−8.24 | ![]() |
0.8346 | 3.55 | 0.63056 | 0.90076 |
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18.2−33 | ![]() |
20.7 | 1.34 | 3.1107 | 0.28276 | |
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0.0518-14.5 | ![]() |
0.867 | 4.09 | 0.78694 | 0.96428 | |
Transcription of a | ![]() |
0.001−0.2 | ![]() |
0.0037 | 10.93 | −3.8324 | 1.3259 |
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0.11−5.65 | ![]() |
0.572 | 3.5 | 0.2514 | 0.89956 | |
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0.039-8.82 | ![]() |
0.587 | 3.875 | 0.35255 | 0.94054 | |
Antisense interaction between r and a | ![]() |
0.4−89 | ![]() |
7.8 | 7.27 | 3.4665 | 1.1882 |
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0.006−6 | ![]() |
0.223 | 4.8 | −0.43359 | 1.0326 | |
Translation of R | ![]() |
0.165−5.86 | ![]() |
0.744 | 3.2 | 0.42952 | 0.85176 |
Translation of A | ![]() |
0.11−4 | ![]() |
0.5 | 3.2 | 0.053356 | 0.85327 |
Formation of homo-dimer R2 | ![]() |
2.58-42.9 | ![]() |
3.89 | 1.9 | 1.6716 | 0.55779 |
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0.144-51.2 | ![]() |
1.1997 | 21.7 | 2.5303 | 1.5324 | |
Degradation of r | ![]() |
0.03−0.365 | ![]() |
0.14 | 2.06 | −1.5916 | 0.60824 |
Degradation of R | ![]() |
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1.78 | −6.2837 | 0.50981 |
Degradation of R2 | ![]() |
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1.78 | −6.2837 | 0.50981 |
Degradation of a | ![]() |
0.03−0.365 | ![]() |
0.14 | 2.06 | −1.5916 | 0.60824 |
Degradation of A | ![]() |
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1.78 | −6.2837 | 0.50981 |
Degradation of C | ![]() |
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5.1 | −4.6234 | 1.0539 |
Degradation of C2-R2 | ![]() |
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1.78 | −6.2837 | 0.50981 |
Degradation of A-R2 | ![]() |
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1.78 | −6.2837 | 0.50981 |
Degradation of r-a | ![]() |
0.35−69.3 | ![]() |
4.9 | 14.1 | 2.5669 | 0.98835 |
Diffusion of C and Ce | ![]() |
0.1−24 | ![]() |
2.8 | 4.27 | 1.9947 | 0.98233 |
Degradation of Ce | ![]() |
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5.1 | −4.6234 | 1.0539 |