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Pathway List for cam | 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 |
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Pathway Name Pathway No. | Accession Name Accession No. | Accession Type | Pathway statistics | cam statistics | Source Entry Date | 1 | CaM Pathway No. 1094 | CaMKIII
Accession No. 90 | Network | Molecule = 4 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Jain P, and Bhalla, U.S. PLoS Comput Biol. 2009 Feb;5(2). ( Peer-reviewed publication )/ 2009-02-12 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 405, 411, 418, 423, 428, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537 543, 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681 688, 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826 832, 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973 979, 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068 | | CaMKIII is activated by Ca2+ and inactivated by S6K. Since CaMKIII inhibits eEF2, the net effect of Ca2+ on elongation is inhibitory and of S6K is excitatory | | This pathway is part of accession 90 and is completely specified in the file acc90.g. There is no separate file for just this pathway. |
Format | File | Native Format (GENESIS format) | acc90.g |
| 2 | CaM Pathway No. 14 | fig3_CaMKII
Accession No. 2 | Network | Molecule = 4 Enzyme = 0 Reaction = 5
| Molecule = 1 Enzyme = 0 Reaction = 0
| Bhalla US and Iyengar R. Science (1999) 283(5400):381-7. ( peer-reviewed publication )/ 2001-11-07 00:00:00 | | #137Related Pathway: 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 405, 411, 418, 423, 428, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537 543, 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681 688, 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826 832, 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973 979, 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | This is the model file for figure 3 from Bhalla US and Iyengar R. Science (1999) 283(5400):381-7. It is a model of the Ca activation of CaMKII and other CaM-activated enzymes. It includes the regulatory phosphatases PP1 and PP2B (Calcineurin) acting on CaMKII and also includes CaM-activated adenylyl cyclase and PKA in the synapse. Demonstration script files for generating the figures in the paper, including figure 3, are available here. | | This pathway is part of accession 2 and is completely specified in the file acc2.g. There is no separate files for just this pathway. |
Format | File | Native Format (GENESIS format) | acc2.g | GENESIS Format (Annotated version) | Anno_acc2.g |
| 3 | CaM Pathway No. 27 | fig4_synapse
Accession No. 3 | Network | Molecule = 4 Enzyme = 0 Reaction = 5
| Molecule = 1 Enzyme = 0 Reaction = 0
| Bhalla US and Iyengar R. Science (1999) 283(5400):381-7. ( peer-reviewed publication )/ 2001-11-07 00:00:00 | | #137Related Pathway: 14, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 405, 411, 418, 423, 428, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537 543, 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681 688, 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826 832, 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973 979, 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | This is the composite model of 4 kinases: PKC, MAPK, PKA and CaMKII and numerous regulatory pathways involved in synaptic signaling. From Bhalla US and Iyengar R. Science (1999) 283(5400):381-7.This model comes from figure 4 of that paper. Demonstration script files for generating the figures in the paper, including figure 4, are available here. | | This pathway is part of accession 3 and is completely specified in the file acc3.g. There is no separate files for just this pathway. |
Format | File | Native Format (GENESIS format) | acc3.g | GENESIS Format (Annotated version) | Anno_acc3.g |
| 4 | CaM Pathway No. 368 | Ajay_Bhalla_ 2007_Bistable Accession No. 79 | Network | Molecule = 4 Enzyme = 0 Reaction = 3
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 373, 379, 386, 392, 398 405, 411, 418, 423, 428, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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. |
| 5 | CaM Pathway No. 373 | Ajay_Bhalla_ 2007_PKM Accession No. 80 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 379, 386, 392, 398 405, 411, 418, 423, 428, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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. |
| 6 | CaM Pathway No. 379 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 386, 392, 398 405, 411, 418, 423, 428, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 7 | CaM Pathway No. 386 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 392, 398 405, 411, 418, 423, 428, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 8 | CaM Pathway No. 392 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 398 405, 411, 418, 423, 428, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 9 | CaM Pathway No. 398 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 405, 411, 418, 423, 428, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 10 | CaM Pathway No. 405 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 411, 418, 423, 428, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 11 | CaM Pathway No. 411 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 405, 418, 423, 428, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 12 | CaM Pathway No. 418 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 405, 411, 423, 428, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 13 | CaM Pathway No. 423 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 405, 411, 418, 428, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 14 | CaM Pathway No. 428 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 405, 411, 418, 423, 434, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 15 | CaM Pathway No. 434 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 405, 411, 418, 423, 428, 440, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 16 | CaM Pathway No. 440 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 405, 411, 418, 423, 428, 434, 446, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 17 | CaM Pathway No. 446 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 405, 411, 418, 423, 428, 434, 440, 452, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 18 | CaM Pathway No. 452 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 405, 411, 418, 423, 428, 434, 440, 446, 458, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 19 | CaM Pathway No. 458 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 405, 411, 418, 423, 428, 434, 440, 446, 452, 464, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
| 20 | CaM Pathway No. 464 | Ajay_bhalla_ 2007_ReacDiff1_ 1e-12 Accession No. 81 | Network | Molecule = 5 Enzyme = 0 Reaction = 4
| Molecule = 1 Enzyme = 0 Reaction = 0
| Ajay_Bhalla_bistable_model. HFSP Journal. 2007 May;1(1):1-87/ 2006-12-08 00:00:00 | | #137Related Pathway: 14, 27, 81, 107, 122, 146, 160, 173, 203, 217, 236, 246, 259, 265, 273, 283, 323, 340, 358, 368, 373, 379, 386, 392 398, 405, 411, 418, 423, 428, 434, 440, 446, 452, 458, 470, 476, 482, 488, 494, 500, 506, 512, 518, 524, 530, 537, 543 549, 555, 561, 568, 573, 579, 585, 591, 597, 603, 609, 615, 621, 627, 633, 639, 645, 651, 657, 663, 669, 675, 681, 688 695, 701, 706, 712, 718, 724, 730, 736, 742, 748, 754, 760, 766, 772, 778, 784, 790, 796, 802, 808, 814, 820, 826, 832 838, 844, 850, 856, 862, 868, 874, 880, 886, 892, 898, 904, 910, 916, 924, 930, 936, 942, 948, 954, 961, 967, 973, 979 985, 991, 997, 1002, 1008, 1014, 1021, 1026, 1032, 1038, 1044, 1050, 1056, 1062, 1068, 1094 | | 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 for just this pathway. |
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