i am new to modelling of cellular networks, and I have two basic questions, regarding the result interpration.
I am using the COBRAToolbox to do a flux balance analysis of a whole genome scale model of a bacteria. To get things started i replicated the results published in a paper, I have even been in correspondence with the author of the paper which happens to be the person who created the model i am using. So I am 100% sure that all the boundary conditions exchange fluxes and so on are as in the publication. I was able to reproduce this results and they match the experimental data.
The published results specifically mention the flux of a metabolite X of interest and compare the reaction rate of X to literature values and to laboratory experiments.
I did a FVA of X given all the boundaries, the soultion space is between 0 - 15 [mmol/g_dw/h], and the result when doing the FBA is aorund 7 [mmol/g_dw/h]? (I tried out multiple solvers, showing the same variation)
- I understood the FVA as a analysis tool which shows me the possible solution space for a given flux , given a system with all limitations and boundaries.
So, how is the solver deciding which of the possible values are displayd, which heuristics are used?
- If the scattering for the possible solution space is so huge, what is the quality measure for this results?
Thanks in advance.