Scouting Frontiers in AI for Biology: Dynamics, Diffusion, and Design, with Amelie Schreiber

Nathan welcomes back computational biochemist Amelie Schreiber for a fascinating update on AI's revolutionary impact in biology. In this episode of The Cognitive Revolution, we explore recent breakthroughs including AlphaFold3, ESM3, and new diffusion models transforming protein engineering and drug discovery. Join us for an insightful discussion about how AI is reshaping our understanding of molecular biology and making complex protein engineering tasks more accessible than ever before. Help shape our show by taking our quick listener survey at https://bit.ly/TurpentinePulse SPONSORS: Shopify: Shopify is the world's leading e-commerce platform, offering a market-leading checkout system and exclusive AI apps like Quikly. Nobody does selling better than Shopify. Get a $1 per month trial at https://shopify.com/cognitive SelectQuote: Finding the right life insurance shouldn't be another task you put off. SelectQuote compares top-rated policies to get you the best coverage at the right price. Even in our AI-driven world, protecting your family's future remains essential. Get your personalized quote at https://selectquote.com/cognitive Oracle Cloud Infrastructure (OCI): Oracle's next-generation cloud platform delivers blazing-fast AI and ML performance with 50% less for compute and 80% less for outbound networking compared to other cloud providers13. OCI powers industry leaders with secure infrastructure and application development capabilities. New U.S. customers can get their cloud bill cut in half by switching to OCI before December 31, 2024 at https://oracle.com/cognitive Weights & Biases RAG++: Advanced training for building production-ready RAG applications. Learn from experts to overcome LLM challenges, evaluate systematically, and integrate advanced features. Includes free Cohere credits. Visit https://wandb.me/cr to start the RAG++ course today. CHAPTERS: (00:00:00) Teaser (00:00:46) About the Episode (00:04:30) AI for Biology (00:07:14) David Baker's Impact (00:11:49) AlphaFold 3 & ESM3 (00:16:40) Protein Interaction Prediction (Part 1) (00:16:44) Sponsors: Shopify | SelectQuote (00:19:18) Protein Interaction Prediction (Part 2) (00:31:12) MSAs & Embeddings (Part 1) (00:32:32) Sponsors: Oracle Cloud Infrastructure (OCI) | Weights & Biases RAG++ (00:34:49) MSAs & Embeddings (Part 2) (00:35:57) Beyond Structure Prediction (00:51:13) Dynamics vs. Statics (00:57:24) In-Painting & Use Cases (00:59:48) Workflow & Platforms (01:06:45) Design Process & Success Rates (01:13:23) Ambition & Task Definition (01:19:25) New Models: PepFlow & GeoAB (01:28:23) Flow Matching vs. Diffusion (01:30:42) ESM3 & Multimodality (01:37:10) Summary & Future Directions (01:45:34) Outro SOCIAL LINKS: Website: https://www.cognitiverevolution.ai Twitter (Podcast): https://x.com/cogrev_podcast Twitter (Nathan): https://x.com/labenz LinkedIn: https://www.linkedin.com/in/nathanlabenz/ Youtube: https://www.youtube.com/@CognitiveRevolutionPodcast Apple: https://podcasts.apple.com/de/podcast/the-cognitive-revolution-ai-builders-researchers-and/id1669813431