Apologies in advance if this is a basic question, I think I’m making it out to be more complicated in my head than it needs to be. I wanted to make sure I was approaching it correctly:
I have two experiments with a treatment vs wild-type. Both were performed similarly, but one experiment was performed with a knockout gene and the other was not. So far I have performed a t-test within each experiment to test the outcome of the protein in treatment vs wild-type. My question is, would it be correct to compare the ratios of each experiment to the other through an odds ratio and then covert that to log odds and create a volcano plot? I want to look to see if their are differences in the protein expression outcome between the two experiments.
Hopefully this makes sense and I’m just over-complicating something that doesn’t need to be.
Thanks in advance!