The KEGG reference here is good. Thank you! I’m hoping to get to a point where I could take something like what’s in KEGG and kind of play with it? Like if you’ve used something like Emergent to model the brain, something like that but with metabolic pathways.
Like take a set of metabolic pathways, play with amounts of chemicals, enzymes, genes that are and aren’t expressed, etc and use it run a simulation and test hypotheses? Would like to see what ways I could get pyridoxine, pyridoxal, pyridoxamine, etc to “build up.”
Like take all the edges and vertices and say “I’m increasing the amount of the chemical represented by this vertex at this rate and then then changing the rate at which it moves to this edge through this these other vertices and what happens if I do that?”
I know there’s a lot of software listed for that, and I could just start trying all of it. But I’m hoping to see if I can get something of a head start from someone that’s already familiar with this space.
The KEGG reference here is good. Thank you! I’m hoping to get to a point where I could take something like what’s in KEGG and kind of play with it? Like if you’ve used something like Emergent to model the brain, something like that but with metabolic pathways.
Like take a set of metabolic pathways, play with amounts of chemicals, enzymes, genes that are and aren’t expressed, etc and use it run a simulation and test hypotheses? Would like to see what ways I could get pyridoxine, pyridoxal, pyridoxamine, etc to “build up.”
Like take all the edges and vertices and say “I’m increasing the amount of the chemical represented by this vertex at this rate and then then changing the rate at which it moves to this edge through this these other vertices and what happens if I do that?”
I know there’s a lot of software listed for that, and I could just start trying all of it. But I’m hoping to see if I can get something of a head start from someone that’s already familiar with this space.