VaxDesign: Computational Vaccine Design

[@اغرسفسيلة]

جهود طيبة صديقي الدكتور ساري، بالتوفيق دائما

[@importantstuf8870]

You're the best doctor sary 💕

[@naeemmrz]

Hey Sari, Can you provide a brief note on what you had referred to as motif and scaffold in the video? which one of them referred to the epitope? Thanks for the video :)

[@SariSabban]

The motif is the epitope we are interested in targeting. The scaffold is the protein we graft the motif on to.

[@naeemmrz]

@@SariSabban Okay, it become a circle for me now. Basically, we select an epitope which we will graft on a scaffold in hope that the recombinant protein we designed can act as an antigen (and hence a vaccine candidate) in vitro later on. Thanks! :)

[@RavindraThakkar369]

Hey Sari, Thanks for helping to understand Rosetta. Can I request you to make one tutorial for pepspec module of Rosetta?. I am having very hard time to understand it, even.

[@SariSabban]

I will do my best to make this video. It’s in my list of videos to make. I am just short in time with work and teaching. But you can start with the abinitio video I made. This should be a good place to start.

[@sinhasuman1944]

Hi, thanks for the great video. Does Rosetta use GPUs?

[@SariSabban]

It does not use GPU.

[@26goldnugge]

How did you Clean 3hz7.pdb?

[@Danny-he5sb]

Question: If a vaccine is computed, structurally existant, and is actually created in a lab, does it have the potential to harm the host if unsuccessful? Or will it only illicit a positive immuno-response/not work at all?

[@SariSabban]

Danny it is hard to tell. It depends on the target site and the immunugenicity of the structure. There might be some algorithms that try to do some predictions, but you should take their predictions with a grain of salt, ultimately you have to actually test the vaccine in vivo.