modelCytoplasm
Cytoplasm
Extends from BioChem.Compartments.Compartment (Default compartment (constant volume)).
Parameters
| Type | Name | Default | Description |
|---|---|---|---|
| Real | k1d | ||
| Real | k2b | ||
| Real | q | ||
| Real | k2d | ||
| Real | k2t | ||
| Real | k4d | ||
| Real | k5b | ||
| Real | k5d | ||
| Real | k5t |
Connectors
| Type | Name | Default | Description |
|---|---|---|---|
| BioChem.Interfaces.Nodes.SubstanceConnector | y3_node | ||
| BioChem.Interfaces.Nodes.SubstanceConnector | y2_node | ||
| BioChem.Interfaces.Nodes.SubstanceConnector | y6_node | ||
| BioChem.Interfaces.Nodes.SubstanceConnector | y5_node |
Components
| Type | Name | Default | Description |
|---|---|---|---|
| BioChem.Units.Volume | V (from Compartment) | Compartment volume | |
| Real | Cytoplasm_V | V | Variable used to make the compartment volume accessible for inner components. Do not edit. |
| Cytoplasm.y1_ | y1 | Per2 or Cry mRNA | |
| Cytoplasm.y2_ | y2 | PER2_CRY_complex_cytoplasm | |
| Cytoplasm.y4_ | y4 | Bmal1 mRNA | |
| Cytoplasm.y5_ | y5 | BMAL1_cytoplasm | |
| BioChem.Substances.AmbientSubstance | ambientSubstance | ||
| Real | trans_per2_cry | ||
| Cytoplasm.per2_cry_transcription_ | per2_cry_transcription | per2_cry_transcription | |
| Cytoplasm.per2_cry_mRNA_degradation_ | per2_cry_mRNA_degradation | per2_cry_mRNA_degradation | |
| Cytoplasm.per2_cry_complex_formation_ | per2_cry_complex_formation | per2_cry_complex_formation | |
| Cytoplasm.cytoplasmic_per2_cry_complex_degradation_ | cytoplasmic_per2_cry_complex_degradation | cytoplasmic_per2_cry_complex_degradation | |
| Cytoplasm.per2_cry_nuclear_import_ | per2_cry_nuclear_import | per2_cry_nuclear_import | |
| Real | trans_Bmal1 | ||
| Cytoplasm.Bmal1_transcription_ | Bmal1_transcription | Bmal1_transcription | |
| Cytoplasm.Bmal1_mRNA_degradation_ | Bmal1_mRNA_degradation | Bmal1_mRNA_degradation | |
| Cytoplasm.BMAL1_translation_ | BMAL1_translation | BMAL1_translation | |
| Cytoplasm.cytoplasmic_BMAL1_degradation_ | cytoplasmic_BMAL1_degradation | cytoplasmic_BMAL1_degradation | |
| Cytoplasm.BMAL1_nuclear_import_ | BMAL1_nuclear_import | BMAL1_nuclear_import |
