It would be nice to add a few common non-standard reaction types.
Geometric Bursts -- Reaction where the number of a species (e.g., Protein) increases by a geometric distribution rather than by a fixed number of molecules. This is a common reaction that is used in models where bursts are much faster than the time scale of measurements.
Division Dilution -- Reaction where the number of molecules reduces due to a symmetric (each cell gets about half of molecules) or asymmetric (cells get different portions of the contents) division of the cell. For either case, the result could be deterministic (each cell gets fixed number) or stochastic (number decided by binomial distribution).
Coupled Reactions -- Reaction where a non-standard reaction (e.g., Geometric Burst or Division Dilution) is coupled with another reaction so that the stoichiometries are linked. E.g., Cell goes from M to G1 state when division occurs; or Gene goes from ON to OFF stage when geometric burst occurs.
It would be nice to add a few common non-standard reaction types.
Geometric Bursts -- Reaction where the number of a species (e.g., Protein) increases by a geometric distribution rather than by a fixed number of molecules. This is a common reaction that is used in models where bursts are much faster than the time scale of measurements.
Division Dilution -- Reaction where the number of molecules reduces due to a symmetric (each cell gets about half of molecules) or asymmetric (cells get different portions of the contents) division of the cell. For either case, the result could be deterministic (each cell gets fixed number) or stochastic (number decided by binomial distribution).
Coupled Reactions -- Reaction where a non-standard reaction (e.g., Geometric Burst or Division Dilution) is coupled with another reaction so that the stoichiometries are linked. E.g., Cell goes from M to G1 state when division occurs; or Gene goes from ON to OFF stage when geometric burst occurs.