Diffusion Based Distributional Modeling of Conformers, Blind Docking and Proteins

Diffusion Based Distributional Modeling of Conformers, Blind Docking and Proteins

Institute for Pure & Applied Mathematics (IPAM) via YouTube Direct link

Intro

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1 of 17

Intro

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Classroom Contents

Diffusion Based Distributional Modeling of Conformers, Blind Docking and Proteins

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  1. 1 Intro
  2. 2 (1) Realizing likely 3D conformers
  3. 3 (1) Torsional diffusion for conformer generation
  4. 4 Search-based methods
  5. 5 Deep learning approaches
  6. 6 Rethinking blind docking as generative modeling
  7. 7 A case for generative docking
  8. 8 Generative pose prediction
  9. 9 Technical note: forward diffusion
  10. 10 De-noising (score) model
  11. 11 DiffDock: performance with ESM folded structures
  12. 12 3D motif scaffolding
  13. 13 (3) Backbone scaffolding challenge
  14. 14 (3) Conditioning via Sequential Monte Carlo
  15. 15 (3) Motif-scaffolding case-studies
  16. 16 (3) Integrating protein folding & design
  17. 17 Poisson flow - inspired by electrostatics

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