Tool to predict perturbation in biological system

Question

[ste.lu]

Hi All,

I was wondering if you are aware of a tool to predict perturbation in a pathway or a simple cell model. What I have in mind is a reduction of a specific protein and the effect of this reduction on the other proteins, for several nodes and edges, something you could do in Cell Designer, but I don't know where to get the constants of interactions and all the other values.

Thank you

[WouterDeCoster]

It is completely unclear which data you have.

[ste.lu]

I don't have data, I was purely speculating a tool. I guess I would use some differential expression in genes expression, probably from RNA-Seq.

[Devon Ryan]

Usually you need to mine the various constants from the literature (possibly making vague predictions about some of the unknown values).