Simon Mathis @SimMat20
PhD @Cambridge_Uni | AI in protein design & engineering | biotech & environmental applications | enzymes | geometric DL | prev. @ETH_physics simonmathis.org Cambridge, UK Joined April 2020-
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We sought to make proteins both potent and FAST. We used #proteindesign to design precise control over protein interaction lifetimes, enabling us to construct rapid-response circuits, biosensors, and switchable cytokines. Now published @Nature! Links to paper and tutorial below.
We asked ourselves what could we do if we worked cooperatively as a team to create a single model that could design any biomolecular interactions. Yesterday, we reported details of RFdiffusion3, the next step towards building functional proteins straight from the computer.
Very excited to share our paper "De novo Design of All-atom Biomolecular Interactions with RFdiffusion3", now on BioRXiv. biorxiv.org/content/10.110… 1/n
La-Proteina open source now, excited to see what people build with it!
La-Proteina open source now, excited to see what people build with it!
Thrilled to announce I'm starting as a Principal Investigator at #Aithyra in Vienna! We'll be developing generative models to understand cell biology and design proteins. I'm hiring PhDs, Postdocs, & Visiting Researchers! PhD applications by Sept 10: apply.cemm.at
Check out our new perspective "Illuminating the universe of enzyme catalysis in the era of artificial intelligence" now out in @CellSystemsCP ! We discuss a vision and path forward for genetically encoding almost all chemistry, powered by new AI tools: authors.elsevier.com/c/1lg4h8YyDfuZ…
Where are all the de novo designed therapeutics? In a guest post by @frdreyer, we break down what the actual bottlenecks, challenges, and opportunities are in building and deploying purely in silico drug discovery engines, with a focus on antibody structure. Link below 👇
Great to finally have this available for people 🙌 Thank you to everyone involved, especially @nscorley & @r_krishna3! We'll be pushing a few smaller updates in the coming days to enhance usability for everyone (including some docs on what you can do with it) - so stay tuned (:
Great to finally have this available for people 🙌 Thank you to everyone involved, especially @nscorley & @r_krishna3! We'll be pushing a few smaller updates in the coming days to enhance usability for everyone (including some docs on what you can do with it) - so stay tuned (:
Today, we're releasing a software suite to train biomolecular neural networks called AtomWorks. We have already used it to train performant networks in our group -- we hope that others find it as useful as we do! Check it out at github.com/RosettaCommons…
Today, we're releasing a software suite to train biomolecular neural networks called AtomWorks. We have already used it to train performant networks in our group -- we hope that others find it as useful as we do! Check it out at github.com/RosettaCommons…
Atomsworks and RF3 is finally here!! I was very fortunate to get early access to atomworks and it really lowers the activation energy todo some really cool stuff with the PDB very quickly. Might share fun examples later Huge congrats to @SimMat20 and team!!! ✨
RosettaFold 3 is here! 🧬🚀 AtomWorks (the foundational data pipeline powering it) is perhaps the really most exciting part of this release! Congratulations @SimMat20 and team!!! ❤️
RNA-FrameFlow has found a new home in TMLR @TmlrPub 🥳 Over the past one year, we've spent quite some time making our method faster, developing more intricate evaluation pipelines, thinking about conditional design, and assessing/ablating our modeling choices Here are some…
RNA-FrameFlow has found a new home in TMLR @TmlrPub 🥳 Over the past one year, we've spent quite some time making our method faster, developing more intricate evaluation pipelines, thinking about conditional design, and assessing/ablating our modeling choices Here are some…
Introducing Latent-X — our all-atom frontier AI model for protein binder design. State-of-the-art lab performance, widely accessible via the Latent Labs Platform. Free tier: platform.latentlabs.com Blog: latentlabs.com/latent-x/ Technical report: tinyurl.com/latent-X
Check out La-Proteina, our new model for all-atom structure generation at scale! Was a very fun project to work on with @tomasgeffner and the rest of the team. Two things I am particularly excited about in 🧵 1/n
Check out La-Proteina, our new model for all-atom structure generation at scale! Was a very fun project to work on with @tomasgeffner and the rest of the team. Two things I am particularly excited about in 🧵 1/n
Many top academic AI researchers are GPU poor. The Sovereign AI Unit wants to change this story. We are seeking ambitious AI research proposals for UK academics aiming to take their research to the next level. Read below to find out more and apply 🧵👇
Exciting! 🙌
Sharing a surprising result on AI molecule generation with Transformers: All-atom DiT with minimal molecular inductive bias is on par with SOTA equivariant diffusion (SemlaFlow, a very strong and optimized model) Scaling pure Transformers can alleviate explicit bond prediction!
Following our successful SF event, we (compmotifs.com) are running another hackathon! When? 7-8 June Where? London Who? Builders & researchers from academia & industry What? Develop computational tools to advance the natural sciences Join us: lu.ma/apsqlxlj?utm_s….
Equivariance is dead - long live equivariance? Scaling pure Transformers is the future of molecular generative models? I think its a lot more nuanced -- I tried to give some perspectives in my spotlight talk at #ICLR2025 AI4Mat Workshop last week
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Ryan Bailey @BioExplorr
193 Followers 935 Following Protein Design & Engineering, Vaccinology & Immunology. PhD student in the lab of Dr. Iain MacPherson at the University of Hawaii.
Saman Salike @samansalike31
44 Followers 282 Following intellectual flaneur, lover of (designed) proteins
Petar Veličković @PetarV_93
41K Followers 555 Following Senior Staff Research Scientist @GoogleDeepMind | Affiliated Lecturer @Cambridge_Uni | Assoc @clarehall_cam | GDL Scholar @ELLISforEurope. Monoids. 🇷🇸🇲🇪🇧🇦
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