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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 statistics | mapk statistics | Source
Entry Date | | 1 | MAPK
Pathway No. 139 | MAPK_osc
Accession No. 27 | Pathway | Molecule = 15
Enzyme = 10
Reaction = 1
| Molecule = 1
Enzyme = 0
Reaction = 0
| Boris N. Kholodenko Eur J Biochem. (2000) 267(6):1583-8). ( peer-reviewed publication )/
2002-01-22 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 142, 182, 193, 211, 230, 317, 335, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | This is the oscillatory MAPK model from Kholodenko 2000 Eur J. Biochem 267:1583-1588 The original model is formulated in terms of idealized Michaelis-Menten enzymes and the enzyme-substrate complex concentrations are therefore assumed negligible. The current implementation of the model uses explicit enzyme reactions involving substrates and is therefore an approximation to the Kholodenko model. The approximation is greatly improved if the enzyme is flagged as Available which is an option in Kinetikit. This flag means that the enzyme protein concentration is not reduced even when it is involved in a complex. However, the substrate protein continues to participate in enzyme-substrate complexes and its concentration is therefore affected. Overall, this model works almost the same as the Kholodenko model but the peak MAPK-PP amplitudes are a little reduced and the period of oscillations is about 10% longer. If the enzymes are not flagged as Available then the oscillations commence only when the Km for enzyme 1 is set to 0.1 uM. | | | This pathway is part of accession 27 and is completely specified in the file acc27.g.
There is no separate files for just this pathway. |
| | 2 | MAPK
Pathway No. 142 | Huang_Ferrell_
MAPK
Accession No. 30 | Pathway | Molecule = 14
Enzyme = 10
Reaction = 0
| Molecule = 1
Enzyme = 0
Reaction = 0
| Huang CY and Ferrell JE Jr. Proc Natl Acad Sci U S A. (1996) 93(19):10078-83 ( peer-reviewed publication )/
2002-01-31 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 139, 182, 193, 211, 230, 317, 335, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | MAPK model by Huang, C.-Y.F. and Ferrell Jr., J.E. 1996 PNAS USA 93:10078-10083 The parameters are based on the Mathematica code for the model which was kindly supplied by Prof. Ferrell. This simulation very closely replicates figure 2 from the paper. | | | This pathway is part of accession 30 and is completely specified in the file acc30.g.
There is no separate files for just this pathway. |
| | 3 | MAPK
Pathway No. 193 | MAPK_Asthagiri_
adapt_fb
Accession No. 45 | Pathway | Molecule = 26
Enzyme = 11
Reaction = 7
| Molecule = 0
Enzyme = 0
Reaction = 0
| Asthagiri AR and Lauffenburger DA. Biotechnol Prog. (2001) 17(2):227-39. ( peer-reviewed publication )./
2003-02-22 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 139, 142, 182, 211, 230, 317, 335, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | This is a complex model to examine mechanisms that govern MAPK pathway dynamics in Chinese hamster ovary (CHO) cell lines, particularly the role of adapter targeted negative feedback mechanism in generating complete signal adaptation. This model simulates the results as per the figure 7A of the paper by Asthagiri AR and Lauffenburger DA. Biotechnol Prog. (2001) 17(2):227-39. | | | This pathway is part of accession 45 and is completely specified in the file acc45.g.
There is no separate files for just this pathway. |
| | 4 | MAPK
Pathway No. 6 | fig2_egfr
Accession No. 1 | Network | Molecule = 9
Enzyme = 4
Reaction = 0
| 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 | | | #132Related Pathway:
24, 35, 56, 61, 75, 139, 142, 182, 193, 211, 230, 317, 335, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415
421, 432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565
571, 577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710
716, 722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854
860, 866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | This network was used to generate figure 2 in Bhalla US and Iyengar R. Science (1999) 283(5400):381-7. It consists of the MAPK cascade in a feedback loop with PKC, and receives input from the EGFR in the synapse.
Demonstration script files for generating the figures in the paper, including figure 2, are available here. | | | This pathway is part of accession 1 and is completely specified in the file acc1.g.
There is no separate files for just this pathway. |
| Format | File | | Native Format (GENESIS format) | acc1.g | | GENESIS Format (Annotated version) | Anno_acc1.g |
| | 5 | MAPK
Pathway No. 24 | fig4_synapse
Accession No. 3 | Network | Molecule = 9
Enzyme = 4
Reaction = 0
| 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 | | | #132Related Pathway:
6, 35, 56, 61, 75, 139, 142, 182, 193, 211, 230, 317, 335, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | 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 |
| | 6 | MAPK
Pathway No. 35 | mkp1_feedback_
effects
Accession No. 4 | Network | Molecule = 16
Enzyme = 9
Reaction = 8
| Molecule = 1
Enzyme = 0
Reaction = 0
| Bhalla US et al. Science (2002) 297(5583):1018-23. ( peer-reviewed publication )/
2001-11-07 00:00:00 | | | #132Related Pathway:
6, 24, 56, 61, 75, 139, 142, 182, 193, 211, 230, 317, 335, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | The Mitogen Activated Protein Kinase (MAPK) cascade model here includes both the MAPK cascade and its regulation by two forms of MKP. MKP-1 is induced upon MAPK activation, whereas MKP-2 is treated as a steady level of protein. The phosphatase Protein phosphatase 2 A (PP2A) is also included in this model to balance the activity of the kinases. | | | This pathway is part of accession 4 and is completely specified in the file acc4.g.
There is no separate files for just this pathway. |
| | 7 | MAPK
Pathway No. 56 | 3d_fold_model
Accession No. 8 | Network | Molecule = 9
Enzyme = 4
Reaction = 0
| Molecule = 1
Enzyme = 0
Reaction = 0
| Bhalla US and Iyengar R. Science (1999) 283(5400):381-7. ( peer-reviewed publication )/
2001-11-08 00:00:00 | | | #132Related Pathway:
6, 24, 35, 61, 75, 139, 142, 182, 193, 211, 230, 317, 335, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | This model is an annotated version of the synaptic signaling network.
The primary reference is Bhalla US and Iyengar R. Science (1999) 283(5400):381-7 but several of the model pathways have been updated Bhalla US, Ram PT, Iyengar R. Science. 2002 Aug 9;297(5583):1018-23. | | | This pathway is part of accession 8 and is completely specified in the file acc8.g.
There is no separate files for just this pathway. |
| | 8 | MAPK
Pathway No. 61 | MAPK_MKP1_
oscillation
Accession No. 9 | Network | Molecule = 15
Enzyme = 9
Reaction = 7
| Molecule = 1
Enzyme = 0
Reaction = 0
| Bhalla US, Iyengar R. Chaos (2001) 11(1):221-226. ( peer-reviewed publication )/
2001-11-08 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 75, 139, 142, 182, 193, 211, 230, 317, 335, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | This model relates to figure 5 in Bhalla US, Iyengar R. Chaos (2001) 11(1):221-226. It includes the model used for figures 2-4 and also has MKP-1 induction by MAPK activity in the synapse. PP2A is set to 0.16 uM and MKP synthesis is varied from 5x to 40 x basal to get a range of interesting behaviours. | | | This pathway is part of accession 9 and is completely specified in the file acc9.g.
There is no separate files for just this pathway. |
| | 9 | MAPK
Pathway No. 75 | Synaptic_
Network
Accession No. 16 | Network | Molecule = 9
Enzyme = 4
Reaction = 0
| Molecule = 1
Enzyme = 0
Reaction = 0
| Bhalla US and Iyengar R. Science (1999) 283(5400):381-7. ( peer-reviewed publication )/
2001-12-12 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 139, 142, 182, 193, 211, 230, 317, 335, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | The Mitogen Activated Protein Kinase (MAPK) cascade model here includes both the MAPK cascade and its regulation by MKP-1. MKP-1 is induced upon MAPK activation, whereas MKP-2 is treated as a steady level of protein. For the purposes of this version of the model, MKP-1 is kept at a fixed starting value. The phosphatase Protein phosphatase 2 A (PP2A) is also included in this model to balance the activity of the kinases. | | | This pathway is part of accession 16 and is completely specified in the file acc16.g.
There is no separate files for just this pathway. |
| Format | File | | Native Format (GENESIS format) | acc16.g | | GENESIS Format (Annotated version) | Anno_acc16.g |
| | 10 | MAPK
Pathway No. 182 | MAPK-bistability
-fig1c
Accession No. 35 | Network | Molecule = 10
Enzyme = 6
Reaction = 0
| Molecule = 1
Enzyme = 0
Reaction = 0
| Bhalla US et al. Science (2002) 297(5583):1018-23 ( peer-reviewed publication )./
2002-11-07 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 139, 142, 193, 211, 230, 317, 335, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | The Mitogen Activated Protein Kinase (MAPK) cascade model here includes both the MAPK cascade and its regulation by two forms of MKP. MKP-1 is induced upon MAPK activation, whereas MKP-2 is treated as a steady level of protein. The phosphatase Protein phosphatase 2 A (PP2A) is also included in this model to balance the activity of the kinases. | | | This pathway is part of accession 35 and is completely specified in the file acc35.g.
There is no separate files for just this pathway. |
| | 11 | MAPK
Pathway No. 211 | MAPK_network_
2003
Accession No. 50 | Network | Molecule = 9
Enzyme = 4
Reaction = 0
| Molecule = 1
Enzyme = 0
Reaction = 0
| Bhalla US Biophys J. 2004 Aug;87(2):745-53. ( peer-reviewed publication )/
2003-04-28 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 139, 142, 182, 193, 230, 317, 335, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | This is a network model of many pathways present at the neuronal synapse. The network has properties of temporal tuning as well as steady-state computational properties. In its default form the network is bistable.Bhalla US Biophys J. 2004 Aug;87(2):745-53 | | | This pathway is part of accession 50 and is completely specified in the file acc50.g.
There is no separate files for just this pathway. |
| | 12 | MAPK
Pathway No. 230 | EGFR_MAPK
Accession No. 58 | Network | Molecule = 9
Enzyme = 4
Reaction = 0
| Molecule = 1
Enzyme = 0
Reaction = 0
| Bhalla US. Biophys J. (2004) 87(2):745-53. ( peer-reviewed publication )/
2004-01-14 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 139, 142, 182, 193, 211, 317, 335, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | Model of MAPK activation by EGFR in the synapse. Demonstration programs using this model are available here.
Primary citation:Bhalla US. Biophys J. (2004) 87(2):745-53. | | | This pathway is part of accession 58 and is completely specified in the file acc58.g.
There is no separate files for just this pathway. |
| | 13 | MAPK
Pathway No. 317 | Ajay_Bhalla_
2004_PKM_Tuning
Accession No. 76 | Network | Molecule = 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 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 139, 142, 182, 193, 211, 230, 335, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | 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. |
| | 14 | MAPK
Pathway No. 335 | Ajay_Bhalla_
2004_PKM_MKP3_
Tuning
Accession No. 77 | Network | Molecule = 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 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 139, 142, 182, 193, 211, 230, 317, 352, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | 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. |
| | 15 | MAPK
Pathway No. 352 | Ajay_Bhalla_
2004_Feedback_
Tuning
Accession No. 78 | Network | Molecule = 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 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 139, 142, 182, 193, 211, 230, 317, 335, 366, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | 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. |
| | 16 | MAPK
Pathway No. 366 | Ajay_Bhalla_
2007_Bistable
Accession No. 79 | Network | Molecule = 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 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 139, 142, 182, 193, 211, 230, 317, 335, 352, 371, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | 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. |
| | 17 | MAPK
Pathway No. 371 | Ajay_Bhalla_
2007_PKM
Accession No. 80 | Network | Molecule = 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 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 139, 142, 182, 193, 211, 230, 317, 335, 352, 366, 377, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | 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. |
| | 18 | MAPK
Pathway No. 377 | Ajay_bhalla_
2007_ReacDiff1_
1e-12
Accession No. 81 | Network | Molecule = 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 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 139, 142, 182, 193, 211, 230, 317, 335, 352, 366, 371, 384, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | 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 | MAPK
Pathway No. 384 | Ajay_bhalla_
2007_ReacDiff1_
1e-12
Accession No. 81 | Network | Molecule = 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 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 139, 142, 182, 193, 211, 230, 317, 335, 352, 366, 371, 377, 390, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | 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 | MAPK
Pathway No. 390 | Ajay_bhalla_
2007_ReacDiff1_
1e-12
Accession No. 81 | Network | Molecule = 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 00:00:00 | | | #132Related Pathway:
6, 24, 35, 56, 61, 75, 139, 142, 182, 193, 211, 230, 317, 335, 352, 366, 371, 377, 384, 396, 402, 403, 409, 415, 421
432, 438, 444, 450, 456, 462, 468, 474, 480, 486, 492, 498, 504, 510, 516, 522, 528, 535, 541, 547, 553, 559, 565, 571
577, 583, 589, 595, 601, 607, 613, 619, 625, 631, 637, 643, 649, 655, 661, 667, 673, 679, 686, 692, 699, 704, 710, 716
722, 728, 734, 740, 746, 752, 758, 764, 770, 776, 782, 788, 794, 800, 806, 812, 818, 824, 830, 836, 842, 848, 854, 860
866, 872, 878, 884, 890, 896, 902, 908, 914, 921, 928, 934, 940, 946, 952, 958, 960, 965, 971, 977, 983, 989, 995
1006, 1012, 1018, 1024, 1030, 1036, 1042, 1048, 1054, 1060, 1066 | | | 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. |
|
| Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
This Copyright is applied to ensure that the contents of this database remain freely available. Please see FAQ for details. |
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