I am working on SNP and I have narrowed down my search to few SNPs which I believe is most damaging to the structure and function of the protein. I want to test this hypothesis (the hypothesis being that this particular mutation caused by SNP would be most damaging to the native protein structure) with as many ways possible. I have already tested my hypothesis by carrying out Molecular Dynamics Simulation (MDS) and Bayesian theorem and both of the fore mentioned methods corroborate my finding.

I would really appreciate if you can suggest some more ways to test my hypothesis, I am looking for computational and mathematical methods only. I know there are some servers like SIFT , Polyphen but please let me make clear that I have used them to narrow search to SNP, I now need to assert with reasonable certainty that my findings are correct.

**TL;DR** I am looking for methods to test a probability hypothesis.

Thanks in Advance, your help is highly appreciated.

ps - I have already asked this question here before, but did not receive any answer to my query,ant help would be really helpful

Sounds like time to go to the wet lab to me ;-)

I know but I need some more evidences to throw at my collaborators, before they actually get their hand dirty.