Christopher Frank
@chrisfrank662
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De novo Protein Designer DNA Origami wizzard I like lifting rocks PhD student @TU_Muenchen
Hallbergmoos
Joined June 2013
Finally, out in @ScienceMagazine today, our work on de novo protein design. Together with @HattoriLab , @sokrypton & @hendrik_dietz we showed how we can drastically improve AF2 based hallucination, surpassing, or reaching SOTA diffusion models https://t.co/VSbKR3JQLS
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Me at home: God, hope somebody at the IPD will not scoop my protein design research Met at vacation: Climbs up some mountain in the middle of Borneo to explore a cave and again - the IPD was faster😅
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Shots fired 😂
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🥳
The MLSB workshop will be in San Diego, CA (co-located with NeurIPS) this year for its 6th edition in December 🧬🔬 Stay tuned @workshopmlsb as we share details about the stellar lineup of speakers, the official call for papers, and other announcements!🌟
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Thats how one does ads 😅
Ski fast…and sequence faster. Plasmidsaurus now lives in Germany! 🇩🇪 Overnight sequencing for ALL of Europe Pickup ~4PM → Results 8AM 🦖 Dropboxes in 14 European countries...and the dino is looking for MORE! Request your free dropbox here: https://t.co/TZ754nqt2V Sequence
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New enzymes can unlock chemistry we never had access to before. Here, we introduce RFdiffusion2 (RFD2), a generative model that makes significant strides in de novo enzyme design. Preprint: https://t.co/cAWGkrSxBo Code: coming soon Animation credit: https://t.co/Th9ZjsYeX2 (1/n)
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I became aware of the true Munich-Augsburg rivalry today🚀
Dear rocket colleagues from the neighboring city, we send our very best wishes for your launch campaign of Spectrum! 🚀 We know very well what an incredible challenge it is to develop, build, test and finally launch a rocket. And how much passion, perseverance, nerves of steel
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Estonia is now 0% bureaucrazy! We’re proud to announce that every government service in Estonia is now fully digital. Whether signing documents, starting a business, paying taxes, or sorting out your healthcare, it’s all handled with a click. #digitalnation #eestonia #bureaucrazy
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🧵1/8 In ~2020, diffusion models gained popularity with famous AIs like DALL-E. But diffusion models work well for protein design? Yes! Chroma is a diffusion model that designs proteins from scratch, with its details described in >100 pages (compared to the 62p of AlphaFold2)
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I somebody up to date about the legal aspect of redesigning existing antibodies etc? Just wondering how dis-similar a sequence needs to be, to be able to be used again? Nevertheless, the results are 🔥🚀
PROTEIN DESIGN COMPETITION ROUND 2 The long awaited results are here -- and they don’t disappoint! 📈 We doubled the number of proteins we tested in our lab from 200 to 400! 🧬 Out of those 400 proteins, 378 expressed (95% expression rate!) 🚀 Out of those 378 expressed
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For round three we need a @Foldit puzzle Would be hilarious if some random person outperforms all the ML methods 😅
Our 2nd protein design competition saw designers racing to optimize their protein scores until the last minute. Want to know which were the most successful ML methods? Was RFdiffusion more popular than Bindcraft? Check out our analysis of the submissions in our new blog post
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This is awesome! Generate a binder, insert it onto a CAR, kill cancer cells reliably! Stunning results!
Cancer escapes immunotherapies by mutating its surface. This means even groundbreaking #CARTCell therapies fail too often because of cancer resistance. But what if we could use #GenerativeAI to design CAR-T with de novo binders faster and smarter, targeting even resistant tumors?
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Alphafold2 refinement improves designability of large de novo proteins • Introducing af2cycler, a pipeline that enhances the designability of large de novo protein backbones, combining AlphaFold2’s refinement and ProteinMPNN for sequence optimization. • Af2cycler achieves
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If you have questions, suggestions etc, please let us know! We are still trying to make things better, get more data, controls and expand usefulness and obviously – if you wanna look at one if this letters in cryo: we are more than happy to help you out! :)
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Code is available through Colabdesign:
github.com
Making Protein Design accessible to all via Google Colab! - sokrypton/ColabDesign
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This was a super fun collaboration with @sokrypton & @hendrik_dietz . Thanks to @DominikSchiwie0 for all the help with designing shapes and twitterless Lara Fuß for all the help with colony picking.
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Now, where is the limit? We went even further, testing 2000 AA designs in silico, but up to this point we haven’t succeeded in finding a designable sequence for our protein pretzel :D
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