Reaction Diagram
Physiology
| Universal ID's | Text Annotations |
|---|---|
|
|
|
| Reaction |
Name
Structure
|
Kinetics | Depiction |
|---|---|---|---|
| EGFR+EGFLR |
EGF_Binding_Unbinding
compartment
|
GeneralKinetics | EGFR+EGFLR |
|
|
|
reaction rate (J): ((k1_EGFR * EGF * EGFR) - (k2_EGFR * LR))[mmol.ml-1.min-1]
|
|
| LREGFR_deg |
EGFReceptor_Degradation
compartment
|
GeneralKinetics | LREGFR_deg |
|
|
|
reaction rate (J): (k1_deg * LR)[mmol.ml-1.min-1]
|
|
| proEGFREGFR |
EGFReceptor_Production
compartment
|
GeneralKinetics | proEGFREGFR |
|
|
|
reaction rate (J): v_EGFR[mmol.ml-1.min-1]
|
|
| EGFREGFR_deg |
EGFReceptor_Degradation_Free
compartment
|
GeneralKinetics | EGFREGFR_deg |
|
|
|
reaction rate (J): (k1_deg * EGFR)[mmol.ml-1.min-1]
|
| Name |
Type
Electrical (Membrane Polarity)
|
|---|---|
| compartment |
Compartment
(+) (-)
|
|
|
|
| Name | Structure | BioNetGen Definition |
|---|---|---|
| LR | compartment | EGFR(Y~U!1,State~active!-,).EGF(Site0!1,). |
|
|
|
|
| EGFR | compartment | EGFR(Y~U!-,State~active!-,). |
|
|
|
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| EGFR_deg | compartment | EGFR(Y~U!-,State~deg!-,). |
|
|
|
|
| EGF | compartment | EGF(Site0!-,). |
|
|
|
|
| proEGFR | compartment | EGFR(Y~U!-,State~deg!-,). |
|
|
|
| Name | Text Annotations | BioNetGen Definition |
|---|---|---|
| EGFR | Text Annotations | EGFR(Y~P~U,State~deg~active,) |
|
|
|
|
| EGF | Text Annotations | EGF(Site0,) |
|
|
|
|
| SOS | Text Annotations | SOS(Active~yes~no,) |
|
|
|
|
| Ras | Text Annotations | Ras(Active~yes~no,) |
|
|
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|
| Raf | Text Annotations | Raf(Active~yes~no,) |
|
|
|
|
| MEK | Text Annotations | MEK(Active~yes~no,) |
|
|
|
|
| ERK | Text Annotations | ERK(Active~yes~no,) |
|
|
|
|
| P90Rsk | Text Annotations | P90Rsk(Active~yes~no,) |
|
|
|
|
| PI3K | Text Annotations | PI3K(Active~yes~no,) |
|
|
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| Akt | Text Annotations | Akt(Active~yes~no,) |
|
|
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|
| C3G | Text Annotations | C3G(Active~yes~no,) |
|
|
|
|
| Rap1 | Text Annotations | Rap1(Active~yes~no,) |
|
|
|
|
| B_Raf | Text Annotations | B_Raf(Active~yes~no,) |
|
|
|
|
| PP2A | Text Annotations | PP2A(Active~yes~no,) |
|
|
|
|
| P_tase | Text Annotations | P_tase() |
|
|
|
|
| GAP | Text Annotations | GAP() |
|
|
|
| Name |
Type
Count
|
BioNetGen Definition |
|---|
Applications
| Name | Math Type | Annotation |
|---|---|---|
| Deterministic | Deterministic (ODE) Compartmental | cloned from 'Deterministic' owned by user PraneetDangol cloned from 'Deterministic' owned by user ModelBrick cloned from 'Deterministic' owned by user mblinov cloned from 'Deterministic' owned by user savi06 cloned from 'Deterministic' owned by user mblinov cloned from 'Deterministic' owned by user cab15130 |
Application - Deterministic
| Species | Initial Condition | Diffusion Constant | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| LR | 0.0 [mmol] | 0.0
[m2/min] | EGFR |
80000.0
[mmol]
|
0.0
[m2/min] | EGFR_deg |
0.0
[mmol]
|
0.0
[m2/min] | EGF |
1.0002E7
[mmol]
|
0.0
[m2/min] | proEGFR |
1.0
[mmol]
|
0.0
[m2/min]
|
|
| Name | Reaction Mapping |
|---|---|
| EGF_Binding_Unbinding | included |
| EGFReceptor_Degradation | included |
| EGFReceptor_Production | included |
| EGFReceptor_Degradation_Free | included |
| Name | End Time | Output Options |
|---|---|---|
| test | 60.0 [min] |
KeepEvery 1 KeepAtMost 1000 |
| Dimension | Type | Subdomain | Adjacent Subvolumes | Size | Mapped Compartment |
|---|---|---|---|---|---|
| Compartmental | Compartment | compartment |
Global Parameters
| Name | Expression |
|---|---|
| k1_deg | 0.2[min-1] |
|
|
|
| v_EGFR | 100.0[mmol.min-1.ml-1] |
|
|
|
| k1_EGFR | 2.18503E-5[ml.min-1.mmol-1] |
|
|
|
| k2_EGFR | 0.121008[min-1] |
|
|
|