I am seeking for new research idea about evolution effect on binding site of protein structure (or ligand protein interaction). Is there any place or forum we can discuss about research/project idea?
My background is Physics/Computing. I was criticized by my mentor that I was lost in developing tools and making new figures, but not discovering new science. Then, I think evolution could be a good start point for asking biological question, as evolution is a more global view, which is probably more suitable for Bioinformatics. Or if I cannot find any explanation for the data, probably I can find explanation from evolution. I saw a few papers about using co-evolution to predict relations between proteins inter/intra species. I am kind of wondering whether disease-related gene variances target to the co-evolution sites, or not target to specific sequence location but structurally close.
I am wondering this is a feasible idea, or too hard and small gain in knowledge. I am kind of lost about what biological problems I am trying solve. Should I talk to some structural biologists about what they are interested in?
Another interesting topic for me is how much effect of gene variant (or somatic mutation) to the drug effect.
Not all patients experience the same beneficial drug effects, nor are they equally susceptible to adverse events. Multiple sequence alignment could infer the variability for each base in the sequence. The question I could ask is how much effect these interindividual genetic variances could have on protein ligand binding site? Will a drug be effective for every individual (or a special group of people, like just Caucasian)? How much effective coverage of population could a designed drug have with interindividual genetic variance? With existing pharmacogenetics studies, we can try to understand how genetic differences affect protein–drug interactions and, ultimately, drug response in protein structural level. But, to find adequate data is probably not easy for this project. Or I should focus on a small topic.
I am trying to find a topic which is not too hard and also have some gain in biological knowledge.