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VOICE ARCHIVE

@rolanddunbrack

@rolanddunbrack
7 posts
2024-05-09
Demis — I think AlphaFold3 is really exciting. As Reviewer #3, I got great results from the server. I tried hard to get @Nature to urge you to release the code but was unsuccessful. I did not get it for re-review so I don't know if you responded. So why no code? @GoogleDeepMind
2024-05-09 View on X
Financial Times

Google DeepMind and Isomorphic Labs detail AlphaFold 3, an AI model to predict interactions and structures of proteins, DNA, RNA, more, beating many top methods

DeepMind adds a diffusion engine to latest protein-folding software … Glyn Moody / @glynmoody@mastodon.social : AlphaFold 3 predicts the structure and interactions of all of life's...

View original
@simocristea ... I don't know if the other reviewers saw the revised manuscript or not. I might have been removed from reviewing because I was quite insistent on downloadable code. But Nature editors never responded to my concerns despite repeated emails. I tried; I failed.
2024-05-09 View on X
Financial Times

Google DeepMind and Isomorphic Labs detail AlphaFold 3, an AI model to predict interactions and structures of proteins, DNA, RNA, more, beating many top methods

DeepMind adds a diffusion engine to latest protein-folding software … Glyn Moody / @glynmoody@mastodon.social : AlphaFold 3 predicts the structure and interactions of all of life's...

View original
In my review, I made a list of much science that happened bc AlphaFold2 code was released. I suggested that so much science will not happen if AlphaFold3 code is not released (or not with AF3 itself). We've made ~100k models with AF2 code. How could we use a server for all that? [image]
2024-05-09 View on X
Financial Times

Google DeepMind and Isomorphic Labs detail AlphaFold 3, an AI model to predict interactions and structures of proteins, DNA, RNA, more, beating many top methods

DeepMind adds a diffusion engine to latest protein-folding software … Glyn Moody / @glynmoody@mastodon.social : AlphaFold 3 predicts the structure and interactions of all of life's...

View original
Json example for batch jobs on AlphaFold3 “error: Not found.” Since you can only do 10 a day, let's call that a “mini batch.” Not clear if you put 50 jobs in the json, whether they will just run over 5 days or whether you have to babysit them. @GoogleDeepMind [image]
2024-05-09 View on X
Financial Times

Google DeepMind and Isomorphic Labs detail AlphaFold 3, an AI model to predict interactions and structures of proteins, DNA, RNA, more, beating many top methods

DeepMind adds a diffusion engine to latest protein-folding software … Glyn Moody / @glynmoody@mastodon.social : AlphaFold 3 predicts the structure and interactions of all of life's...

View original
@GrassoGianvito ... I was not given the code despite being asked to install and test the code when I got the paper. After asking for code, after a week+ delay I got anonymous access to the server until @nature made a decision for major revisions. I never saw the paper or server again until today.
2024-05-09 View on X
Financial Times

Google DeepMind and Isomorphic Labs detail AlphaFold 3, an AI model to predict interactions and structures of proteins, DNA, RNA, more, beating many top methods

DeepMind adds a diffusion engine to latest protein-folding software … Glyn Moody / @glynmoody@mastodon.social : AlphaFold 3 predicts the structure and interactions of all of life's...

View original
@simocristea ... Yes, I wrote to the handling editor several times & the Nature senior editor & was effectively ghosted. I know they sent the initial reviews to the authors but I never saw any response to the reviewers. They fixed up the server along the lines of my review somewhat.
2024-05-09 View on X
Financial Times

Google DeepMind and Isomorphic Labs detail AlphaFold 3, an AI model to predict interactions and structures of proteins, DNA, RNA, more, beating many top methods

DeepMind adds a diffusion engine to latest protein-folding software … Glyn Moody / @glynmoody@mastodon.social : AlphaFold 3 predicts the structure and interactions of all of life's...

View original
@pedrobeltrao As a reviewer #3 of the paper, I tried REALLY HARD to get @Nature to demand downloadable code. The editors just ghosted me. I wrote extensively that the server needed work but I was not given the paper to re-review so I don't know if they improved it. It's not available yet.
2024-05-09 View on X
Financial Times

Google DeepMind and Isomorphic Labs detail AlphaFold 3, an AI model to predict interactions and structures of proteins, DNA, RNA, more, beating many top methods

DeepMind adds a diffusion engine to latest protein-folding software … Glyn Moody / @glynmoody@mastodon.social : AlphaFold 3 predicts the structure and interactions of all of life's...

View original