DeepMind's AlphaFold 2 Explained! AI Breakthrough in Protein Folding! What we know (& what we don't)
#deepmind #biology #ai
This is Biology's AlexNet moment! DeepMind solves a 50-year old problem in Protein Folding Prediction. AlphaFold 2 improves over DeepMind's 2018 AlphaFold system with a new architecture and massively outperforms all competition. In this Video, we take a look at how AlphaFold 1 works and what we can gather about AlphaFold 2 from the little information that's out there.
OUTLINE:
0:00 - Intro & Overview
3:10 - Proteins & Protein Folding
14:20 - AlphaFold 1 Overview
18:20 - Optimizing a differentiable geometric model at inference
25:40 - Learning the Spatial Graph Distance Matrix
31:20 - Multiple Sequence Alignment of Evolutionarily Similar Sequences
39:40 - Distance Matrix Output Results
43:45 - Guessing AlphaFold 2 (it's Transformers)
53:30 - Conclusion & Comments
AlphaFold 2 Blog: https://deepmind.com/blog/article/alphafold-a-solution-to-a-50-year-old-grand-challenge-in-biology
AlphaFold 1 Blog: https://deepmind.com/blog/article/AlphaFold-Using-AI-for-scientific-discovery
AlphaFold 1 Paper: https://www.nature.com/articles/s41586-019-1923-7
MSA Reference: https://arxiv.org/abs/1211.1281
CASP14 Challenge: https://predictioncenter.org/casp14/index.cgi
CASP14 Result Bar Chart: https://www.predictioncenter.org/casp14/zscores_final.cgi
Paper Title: High Accuracy Protein Structure Prediction Using Deep Learning
Abstract:
Proteins are essential to life, supporting practically all its functions. They are large complex molecules, made up of chains of amino acids, and what a protein does largely depends on its unique 3D structure. Figuring out what shapes proteins fold into is known as the “protein folding problem”, and has stood as a grand challenge in biology for the past 50 years. In a major scientific advance, the latest version of our AI system AlphaFold has been recognised as a solution to this grand challenge by the organisers of the biennial Critical Assessment of protein Structure Prediction (CASP). This breakthrough demonstrates the impact AI can have on scientific discovery and its potential to dramatically accelerate progress in some of the most fundamental fields that explain and shape our world.
Authors: John Jumper, Richard Evans, Alexander Pritzel, Tim Green, Michael Figurnov, Kathryn Tunyasuvunakool, Olaf Ronneberger, Russ Bates, Augustin Žídek, Alex Bridgland, Clemens Meyer, Simon A A Kohl, Anna Potapenko, Andrew J Ballard, Andrew Cowie, Bernardino Romera-Paredes, Stanislav Nikolov, Rishub Jain, Jonas Adler, Trevor Back, Stig Petersen, David Reiman, Martin Steinegger, Michalina Pacholska, David Silver, Oriol Vinyals, Andrew W Senior, Koray Kavukcuoglu, Pushmeet Kohli, Demis Hassabis.
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Видео DeepMind's AlphaFold 2 Explained! AI Breakthrough in Protein Folding! What we know (& what we don't) канала Yannic Kilcher
This is Biology's AlexNet moment! DeepMind solves a 50-year old problem in Protein Folding Prediction. AlphaFold 2 improves over DeepMind's 2018 AlphaFold system with a new architecture and massively outperforms all competition. In this Video, we take a look at how AlphaFold 1 works and what we can gather about AlphaFold 2 from the little information that's out there.
OUTLINE:
0:00 - Intro & Overview
3:10 - Proteins & Protein Folding
14:20 - AlphaFold 1 Overview
18:20 - Optimizing a differentiable geometric model at inference
25:40 - Learning the Spatial Graph Distance Matrix
31:20 - Multiple Sequence Alignment of Evolutionarily Similar Sequences
39:40 - Distance Matrix Output Results
43:45 - Guessing AlphaFold 2 (it's Transformers)
53:30 - Conclusion & Comments
AlphaFold 2 Blog: https://deepmind.com/blog/article/alphafold-a-solution-to-a-50-year-old-grand-challenge-in-biology
AlphaFold 1 Blog: https://deepmind.com/blog/article/AlphaFold-Using-AI-for-scientific-discovery
AlphaFold 1 Paper: https://www.nature.com/articles/s41586-019-1923-7
MSA Reference: https://arxiv.org/abs/1211.1281
CASP14 Challenge: https://predictioncenter.org/casp14/index.cgi
CASP14 Result Bar Chart: https://www.predictioncenter.org/casp14/zscores_final.cgi
Paper Title: High Accuracy Protein Structure Prediction Using Deep Learning
Abstract:
Proteins are essential to life, supporting practically all its functions. They are large complex molecules, made up of chains of amino acids, and what a protein does largely depends on its unique 3D structure. Figuring out what shapes proteins fold into is known as the “protein folding problem”, and has stood as a grand challenge in biology for the past 50 years. In a major scientific advance, the latest version of our AI system AlphaFold has been recognised as a solution to this grand challenge by the organisers of the biennial Critical Assessment of protein Structure Prediction (CASP). This breakthrough demonstrates the impact AI can have on scientific discovery and its potential to dramatically accelerate progress in some of the most fundamental fields that explain and shape our world.
Authors: John Jumper, Richard Evans, Alexander Pritzel, Tim Green, Michael Figurnov, Kathryn Tunyasuvunakool, Olaf Ronneberger, Russ Bates, Augustin Žídek, Alex Bridgland, Clemens Meyer, Simon A A Kohl, Anna Potapenko, Andrew J Ballard, Andrew Cowie, Bernardino Romera-Paredes, Stanislav Nikolov, Rishub Jain, Jonas Adler, Trevor Back, Stig Petersen, David Reiman, Martin Steinegger, Michalina Pacholska, David Silver, Oriol Vinyals, Andrew W Senior, Koray Kavukcuoglu, Pushmeet Kohli, Demis Hassabis.
Links:
YouTube: https://www.youtube.com/c/yannickilcher
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Minds: https://www.minds.com/ykilcher
Parler: https://parler.com/profile/YannicKilcher
LinkedIn: https://www.linkedin.com/in/yannic-kilcher-488534136/
If you want to support me, the best thing to do is to share out the content :)
If you want to support me financially (completely optional and voluntary, but a lot of people have asked for this):
SubscribeStar: https://www.subscribestar.com/yannickilcher
Patreon: https://www.patreon.com/yannickilcher
Bitcoin (BTC): bc1q49lsw3q325tr58ygf8sudx2dqfguclvngvy2cq
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Monero (XMR): 4ACL8AGrEo5hAir8A9CeVrW8pEauWvnp1WnSDZxW7tziCDLhZAGsgzhRQABDnFy8yuM9fWJDviJPHKRjV4FWt19CJZN9D4n
Видео DeepMind's AlphaFold 2 Explained! AI Breakthrough in Protein Folding! What we know (& what we don't) канала Yannic Kilcher
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