WOLFRAM SYSTEM MODELER

Cytoplasm

Cytoplasm compartment

Diagram

Wolfram Language

In[1]:=
SystemModel["BioChem.Examples.CircadianOscillator.Cytoplasm"]
Out[1]:=

Information

Cytoplasm compartment

See also

The Container model for further documentation of the system and simulation results.

Parameters (10)

mainCompartment

Value: false

Type: Boolean

Description: Specifies whether the compartment is a main (top-level) compartment. Used in SBML import/export.

k1d

Value:

Type: Real

k2b

Value:

Type: Real

q

Value:

Type: Real

k2d

Value:

Type: Real

k2t

Value:

Type: Real

k4d

Value:

Type: Real

k5b

Value:

Type: Real

k5d

Value:

Type: Real

k5t

Value:

Type: Real

Inputs (2)

trans_per2_cry

Type: Real

trans_Bmal1

Type: Real

Connectors (4)

y3_node

Type: ProductConnector

Description: Connector between substances and reactions (product side of reaction)

y2_node

Type: SubstanceConnector

Description: Connector between substances and reactions

y6_node

Type: ProductConnector

Description: Connector between substances and reactions (product side of reaction)

y5_node

Type: SubstanceConnector

Description: Connector between substances and reactions

Components (15)

y1

Type: y1_

Description: Per2 or Cry mRNA

y2

Type: y2_

Description: PER2_CRY_complex_cytoplasm

y4

Type: y4_

Description: Bmal1 mRNA

y5

Type: y5_

Description: BMAL1_cytoplasm

ambientSubstance

Type: AmbientSubstance

Description: Substance used as a reservoir in reactions

per2_cry_transcription

Type: per2_cry_transcription_

Description: per2_cry_transcription

per2_cry_mRNA_degradation

Type: per2_cry_mRNA_degradation_

Description: per2_cry_mRNA_degradation

per2_cry_complex_formation

Type: per2_cry_complex_formation_

Description: per2_cry_complex_formation

cytoplasmic_per2_cry_complex_degradation

Type: cytoplasmic_per2_cry_complex_degradation_

Description: cytoplasmic_per2_cry_complex_degradation

per2_cry_nuclear_import

Type: per2_cry_nuclear_import_

Description: per2_cry_nuclear_import

Bmal1_transcription

Type: Bmal1_transcription_

Description: Bmal1_transcription

Bmal1_mRNA_degradation

Type: Bmal1_mRNA_degradation_

Description: Bmal1_mRNA_degradation

BMAL1_translation

Type: BMAL1_translation_

Description: BMAL1_translation

cytoplasmic_BMAL1_degradation

Type: cytoplasmic_BMAL1_degradation_

Description: cytoplasmic_BMAL1_degradation

BMAL1_nuclear_import

Type: BMAL1_nuclear_import_

Description: BMAL1_nuclear_import

Used in Examples (1)

Container

BioChem.Examples.CircadianOscillator

Main model of the example