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Accession Type:
Network
Ajay_Bhalla_
2007_ReacDiff3
Shared_Object_
Ajay_Bhalla_
2007_ReacDiff3
PKC
PLA2
MAPK
PLA2
Ras
CaM
chain
Shared Object_
Ajay_Bhalla_
2007_ReacDiff3
PKC
MAPK
Ras
CaM
kinetics[1]
PKC
PLA2
MAPK
Ras
CaM
kinetics[2]
PKC
PLA2
MAPK
Ras
CaM
kinetics[3]
PKC
PLA2
MAPK
Ras
CaM
kinetics[4]
PKC
PLA2
MAPK
Ras
CaM
kinetics[5]
PKC
PLA2
MAPK
Ras
MAPK
CaM
kinetics[6]
PKC
PLA2
MAPK
Ras
CaM
kinetics[7]
PKC
PLA2
MAPK
Ras
CaM
PKC
kinetics[8]
PLA2
MAPK
Ras
CaM
kinetics[9]
PKC
PLA2
MAPK
Ras
CaM
kinetics[10]
PKC
PLA2
MAPK
Ras
CaM
kinetics[11]
PKC
PLA2
MAPK
Ras
CaM
kinetics[12]
PKC
PLA2
Ras
CaM
kinetics[13]
PKC
PLA2
MAPK
Ras
CaM
kinetics[14]
PKC
PLA2
MAPK
Ras
CaM
kinetics[15]
PKC
PLA2
MAPK
Ras
kinetics[16]
CaM
PKC
PLA2
MAPK
Ras
CaM
kinetics[17]
PKC
PLA2
MAPK
Ras
CaM
kinetics[18]
PKC
PLA2
MAPK
Ras
CaM
kinetics[19]
PKC
PLA2
MAPK
Ras
CaM
kinetics[20]
PKC
PLA2
MAPK
Ras
CaM
kinetics[21]
PKC
PLA2
MAPK
Ras
CaM
kinetics[22]
PKC
PLA2
MAPK
Ras
CaM
kinetics[23]
PKC
PLA2
MAPK
Ras
CaM

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Accession information for Ajay_Bhalla_2007_ReacDiff3 (Accession Number 84)

Reaction Scheme

Accession Basic Parameters

Name Ajay_Bhalla_2007_ReacDiff3
Accession Type Network
Transcriber Upinder S. Bhalla, NCBS
Developer Upinder S. Bhalla, NCBS
Entry Date (YYYY-MM-DD) 2006-12-08
Species Rat
Tissue Hippocampal CA1
Cell Compartment Dendrite
Source Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87
Methodology Semi-Quantitative match to experiments
Model Implementation Exact GENESIS implementation
Model Validation Replicates original data
Notes This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_bistable model. The original single-compartment model is repeated 25 times.
In addition, a subset (33 out of 50) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. Here D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) so the kf and kb of this reaction for these 10 micron compartments are both 0.001/sec.
The basal calcium level in this model is held at 95 nM which is rather close to threshold for the flip to the active state. This is necessary to sustain active propagation of activation.
The stimulus file bis6-propgn_D1e-13_FigEF which was used for the model to replicate Figure 4E and 4F from the paper.

Conversion formats

FormatFile
Native Format (GENESIS format)    acc84.g   



Database compilation and code copyright (C) 2005, Upinder S. Bhalla and NCBS/TIFR
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