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Pathway List for pkc

Default ordering is done according to Pathway Name.Table header can be used for changing the default ordering.
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Entries are color tagged depending on Network  or Pathway 
  Pathway Name
Pathway No.
Accession Name
Accession No.
Accession
Type
Pathway statisticspkc statisticsSource
Entry Date
1 PKC
Pathway No. 1104
 mTOR_pathway

Accession No. 92
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
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: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
99399910041010101610221028103410401046105210581064
    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 PKC
Pathway No. 1064
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
99399910041010101610221028103410401046105210581104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
3 PKC
Pathway No. 1058
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
99399910041010101610221028103410401046105210641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
4 PKC
Pathway No. 1052
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
99399910041010101610221028103410401046105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
5 PKC
Pathway No. 1046
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
99399910041010101610221028103410401052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
6 PKC
Pathway No. 1040
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
99399910041010101610221028103410461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
7 PKC
Pathway No. 1034
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
99399910041010101610221028104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
8 PKC
Pathway No. 1028
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
99399910041010101610221034104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
9 PKC
Pathway No. 1022
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
99399910041010101610281034104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
10 PKC
Pathway No. 1016
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
99399910041010102210281034104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
11 PKC
Pathway No. 1010
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
99399910041016102210281034104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
12 PKC
Pathway No. 1004
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
99399910101016102210281034104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
13 PKC
Pathway No. 999
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
993100410101016102210281034104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
14 PKC
Pathway No. 993
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981987
999100410101016102210281034104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
15 PKC
Pathway No. 987
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974981993
999100410101016102210281034104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
16 PKC
Pathway No. 981
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969974987993
999100410101016102210281034104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
17 PKC
Pathway No. 974
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963969981987993
999100410101016102210281034104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
18 PKC
Pathway No. 969
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956963974981987993
999100410101016102210281034104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
19 PKC
Pathway No. 963
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950956969974981987993
999100410101016102210281034104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   
20 PKC
Pathway No. 956
 Ajay_Bhalla_
2007_ReacDiff3

Accession No. 84
NetworkMolecule = 11
Enzyme   = 0
Reaction  = 10
Molecule = 0
Enzyme   = 0
Reaction  = 0
Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/
2006-12-08
   Related Pathway: 
22034556071108123138147161181200207313330348364370376383389395401408
414420426431437443449455461467473479485491497503509515521527534540546552
558564570576582588594600606612618624630636642648654660666672678685691698
703709715721727733739745751757763769775781787793799805811817823829835841
847853859865871877883889895901907913919927932938944950963969974981987993
999100410101016102210281034104010461052105810641104
    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.
   
This pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate file for just this pathway.
FormatFile
Native Format (GENESIS format)    acc84.g   

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