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Parameters for MAPK (Pathway Number 1048) Pathway Layout
Pathway Basic Parameters | Pathway Name | MAPK | | Pathway Entry Number | 1048 | | Accession Number | 84 | | Accession Name | Ajay_Bhalla_2007_ReacDiff3 | | Species | Rat | | Tissue | Hippocampal CA1 | | CellCompartment | Dendrite | | Related Pathways | 6,
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,
1054,
1060,
1066
| | Notes | This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_bistable model. The original single-compartment model is repeated 25 times.
In addition, a subset (33 out of 50) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. Here D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) so the kf and kb of this reaction for these 10 micron compartments are both 0.001/sec.
The basal calcium level in this model is held at 95 nM which is rather close to threshold for the flip to the active state. This is necessary to sustain active propagation of activation.
The stimulus file bis6-propgn_D1e-13_FigEF which was used for the model to replicate Figure 4E and 4F from the paper.
| Statistics Conversion formatThis pathway is part of accession 84 and is completely specified in the file acc84.g.
There is no separate for just this pathway. |
Pathway Detail Molecule List Enzyme List Reaction List
| 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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