- Author:
- Shelley Fong <sfon036@UoA.auckland.ac.nz>
- Date:
- 2024-11-08 14:03:39+13:00
- Desc:
- Adding exposure files
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/7a5/rawfile/3942f0e7b234f667c74869035f4c2651ad4edc7b/parameter_finder/README.txt
This folder contains the effect of phospholamban (PLB) on every reaction in the SERCA model.
PLBp is both a reactant and product.
It is the phosphorylated form, which does not inhibit SERCA. Therefore, all rate constants for every reaction are increased by the same amount/multiplier should PLBp increase.
As rate constants apply for a baseline value of PLBp, change mu_PLBp used for reaction fluxes to mu_PLBp_effective, where
mu_PLBp_effective = mu_PLBp_baseline - mu_PLBp
(can't directly use q, as this cannot be negative as would result in NaN mu value)
For reaction
P1 <=> P2
Reactions now look like
P1 + PLBp_baseline - PLBp <=> P2 + PLBp_baseline - PLBp
Get rid of the minus sign: same thing as
P1 + PLBp_baseline + PLBp <=> P2 + PLBp_baseline + PLBp
PLBp and PLBp_baseline are the same species using the same K value as they exist in the same compartment
For the stoichiometric matrix, reformulate reaction to
P1 + 2PLBp <=> P2 + 2PLBp (n = 2 for PLBp)
