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Pathway List for mapk

Default ordering is done according to Pathway Name.Table header can be used for changing the default ordering.
indicates that ordering is done according to ascending or descending order.
Entries are color tagged depending on Network  or Pathway 
  Pathway Name
Pathway No.
Accession Name
Accession No.
Accession
Type
Pathway statisticsmapk statisticsSource
Entry Date
1 MAPK
Pathway No. 1103
 mTOR_pathway

Accession No. 92
NetworkMolecule = 9
Enzyme   = 4
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Jain P, and Bhalla, U.S. PLoS Comput Biol. 2009 Feb;5(2). ( Peer-reviewed publication )/
2009-02-13
   Related Pathway: 
62435566175139142182193211230317335352366371377384390396402403409415
421432438444450456462468474480486492498504510516522528535541547553559565
571577583589595601607613619625631637643649655661667673679686692699704710
716722728734740746752758764770776782788794800806812818824830836842848854
860866872878884890896902908914921928934940946952958960965971977983989995
10061012101810241030103610421048105410601066
    This model consists of various sub-modules. They are as follows: 1) BDNF receptor signaling 2) AKT signaling 3) 4E-BP model 4) S6 Kinase model 5) CaMKIII model 6) Protein synthesis model 7) CaM 8) PKC 9) MAPK model.
   
This pathway is part of accession 92 and is completely specified in the file acc92.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc92.g   
2 MAPK
Pathway No. 317
 Ajay_Bhalla_
2004_PKM_Tuning

Accession No. 76
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay SM, Bhalla US. Eur J Neurosci. 2004 Nov;20(10):2671-80. ( Peer-reviewed publication )/
2006-12-12
   Related Pathway: 
62435566175139142182193211230335352366371377384390396402403409415421
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This model is taken from the Ajay SM, Bhalla US. Eur J Neurosci. 2004 Nov;20(10):2671-80. This is the reference feedforward model from Figure 8a.
   
This pathway is part of accession 76 and is completely specified in the file acc76.g.
There is no separate files for just this pathway.
FormatFile
Native Format (GENESIS format)    acc76.g   
MATLAB format    acc76.m   
SBML format    acc76.xml   
3 MAPK
Pathway No. 335
 Ajay_Bhalla_
2004_PKM_MKP3_
Tuning

Accession No. 77
NetworkMolecule = 9
Enzyme   = 4
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay SM, Bhalla US. Eur J Neurosci. 2004 Nov;20(10):2671-80 ( Peer-reviewed publication )/
2006-12-12
   Related Pathway: 
62435566175139142182193211230317352366371377384390396402403409415421
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This model is based on Ajay SM, Bhalla US. Eur J Neurosci. 2004 Nov;20(10):2671-80. This is the feedforward model with MPK3 from figure 8a.
   
This pathway is part of accession 77 and is completely specified in the file acc77.g.
There is no separate files for just this pathway.
FormatFile
Native Format (GENESIS format)    acc77.g   
MATLAB format    acc77.m   
SBML format    acc77.xml   
4 MAPK
Pathway No. 352
 Ajay_Bhalla_
2004_Feedback_
Tuning

Accession No. 78
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay SM, Bhalla US. Eur J Neurosci. 2004 Nov;20(10):2671-80. ( Peer-reviewed publication )/
2006-12-12
   Related Pathway: 
62435566175139142182193211230317335366371377384390396402403409415421
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This model is taken from Ajay SM, Bhalla US. Eur J Neurosci. 2004 Nov;20(10):2671-80. This is the feedback model from Figure 8a.
   
This pathway is part of accession 78 and is completely specified in the file acc78.g.
There is no separate files for just this pathway.
FormatFile
Native Format (GENESIS format)    acc78.g   
MATLAB format    acc78.m   
SBML format    acc78.xml   
5 MAPK
Pathway No. 366
 Ajay_Bhalla_
2007_Bistable

Accession No. 79
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352371377384390396402403409415421
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a model of ERKII signaling which is bistable due to feedback. The feedback occurs through ERKII phosphorylation of phospholipase A2 (PLA2), leading to increased production of arachidonic acid (AA), which activates protein kinase C (PKC) which activates c-Raf which is upstream of ERKII.
The model is a highly simplified variant of more detailed bistable models of MAPK signaling (Bhalla US, Iyengar R. Science. 1999 Jan 15;283(5400):381-7, Ajay SM, Bhalla US. Eur J Neurosci. 2004 Nov;20(10):2671-80)
   
This pathway is part of accession 79 and is completely specified in the file acc79.g.
There is no separate files for just this pathway.
FormatFile
Native Format (GENESIS format)    acc79.g   
MATLAB format    acc79.m   
SBML format    acc79.xml   
6 MAPK
Pathway No. 371
 Ajay_Bhalla_
2007_PKM

Accession No. 80
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366377384390396402403409415421
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a non-bistable model of ERKII signaling that also incorporates PKM synthesis triggered by Ca influx. It is a simplified variant of the model of Ajay SM, Bhalla US. Eur J Neurosci. 2004 Nov;20(10):2671-80.
   
This pathway is part of accession 80 and is completely specified in the file acc80.g.
There is no separate files for just this pathway.
FormatFile
Native Format (GENESIS format)    acc80.g   
MATLAB format    acc80.m   
SBML format    acc80.xml   
7 MAPK
Pathway No. 377
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371384390396402403409415421
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   
8 MAPK
Pathway No. 384
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371377390396402403409415421
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   
9 MAPK
Pathway No. 390
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371377384396402403409415421
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   
10 MAPK
Pathway No. 396
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371377384390402403409415421
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   
11 MAPK
Pathway No. 402
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371377384390396403409415421
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   
12 MAPK
Pathway No. 403
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371377384390396402409415421
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   
13 MAPK
Pathway No. 409
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371377384390396402403415421
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   
14 MAPK
Pathway No. 415
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371377384390396402403409421
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   
15 MAPK
Pathway No. 421
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371377384390396402403409415
432438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   
16 MAPK
Pathway No. 432
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371377384390396402403409415
421438444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   
17 MAPK
Pathway No. 438
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371377384390396402403409415
421432444450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   
18 MAPK
Pathway No. 444
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371377384390396402403409415
421432438450456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   
19 MAPK
Pathway No. 450
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371377384390396402403409415
421432438444456462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   
20 MAPK
Pathway No. 456
 Ajay_bhalla_
2007_ReacDiff1_
1e-12

Accession No. 81
NetworkMolecule = 10
Enzyme   = 6
Reaction  = 0
Molecule = 1
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
62435566175139142182193211230317335352366371377384390396402403409415
421432438444450462468474480486492498504510516522528535541547553559565571
577583589595601607613619625631637643649655661667673679686692699704710716
722728734740746752758764770776782788794800806812818824830836842848854860
866872878884890896902908914921928934940946952958960965971977983989995
100610121018102410301036104210481054106010661103
    This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec.
The stimulus file pkm_mapk22_diff_1e-12_Fig4A which was used for the model to replicate Figure 4A from the paper.
This stimulus file pkm_mapk22_diff_1e-12_Fig4G which was used for the model to replicate Figure 4G from the paper
   
This pathway is part of accession 81 and is completely specified in the file acc81.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc81.g   

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