We are pleased to announce the AI4PD Workshop 2023. This workshop focused on the intersection of AI and Protein Design will be held in Puerto Varas, Chile. Below is a highlight of the scientific sessions.
To successfully set up the workshop environment on AWS, follow the steps below:
- First, clone the AI4PD_2023 repository along with its submodules using the following git command:
git clone --recurse-submodules https://github.com/pb3lab/AI4PD_2023.gitThis command will download the main repository and all associated submodules. If using Amazon SageMaker, use the interface to clone repo into folder.
- Navigate into the cloned repository:
cd AI4PD_2023- Now, install the ColabDesign package. This package contains useful tools for protein design. You can install it using pip:
python3.9 -m pip install -q git+https://github.com/sokrypton/ColabDesign.gitAfter following these steps, you should have a working environment ready for the AI4PD workshop. If you encounter any problems during the installation, please contact the workshop organizers for assistance.
- Opening Remarks by César Ramírez-Sarmiento (UC, Chile)
- Introduction to Protein Design by Alejandro Fernandez (UNAM, Mexico)
- The Advent of AI in Protein Design presented by Chris Bahl (AI Proteins, USA) & Manuel Rozas (Kura Biotech, Chile)
- Introduction to the Workshop by All Instructors
- Introduction to Structure Prediction by Sergey Ovchinnikov (Harvard University, USA)
- Tutorial on Structure Prediction by Sergey Ovchinnikov (Harvard University, USA)
- Introduction to Protein Design Tools (Backbone Design, Sequence Design) by Helen Eisenach (U Washington, USA) & Ben Meinen (AI Proteins, USA)
- Tutorials on Protein Design Tools (Backbone Design, Sequence Design) by Helen Eisenach (U Washington, USA) & Ben Meinen (AI Proteins, USA)
- Peptide and Binder Design by Ben Meinen (AI Proteins, USA) & Susana Vázquez Torres (U Washington, USA)
- Prediction of Alternative Conformations by Felipe Engelberger (Leipzig University, Germany) & Sergey Ovchinnikov (Harvard University, USA)
- Functional Site Scaffolding by Helen Eisenach (U Washington, USA)
- Hackathon 5 | Wrapping Up!
- Flash talks from each group
diffusion notebook: https://colab.research.google.com/github/sokrypton/ColabDesign/blob/main/rf/examples/diffusion.ipynb
installation of submodules: git pull --recurse-submodules