Denoising the Noise (ML for Bio) Journal Club
Conformation Sampling with Protein Folding Models
Presenter: Stephen Lu (Yun Song Lab)
Recent advances in protein folding models have dramatically improved structure prediction but generating diverse and biologically relevant conformational ensembles remains a major challenge.
In this journal club, Stephen Lu will discuss Conformix (Dror Lab), a recent method that applies guidance during the diffusion process to optimize conformational ensemble diversity. The presentation will begin with a brief introduction to AlphaFold 3 and then place Conformix in the context of several related approaches, including methods that incorporate cryo-EM, NMR, and X-ray crystallography data, as well as techniques that directly optimize protein folding model representations!
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