Really great collaboration between @ManifoldBio and @nvidia to test 1M de novo designed binders against 127 targets, measuring over 100 million potential protein-protein interactions! This was a great collaboration with some very exciting results. NVIDIA's new Proteina-Complexa method is SOTA for de novo minibinder design. If you're interested in designing minibinders to targets you couldn't hit with other methods, try it out!
I'm particularly excited about what this large scale data enables. As we generate 1000s of experimentally validated structures, this data becomes the input to training new protein design models. At Manifold, we are generating datasets of this size continuously, and have experimentally validated thousands of de novo designed binders across many formats (VHH, minibinders, peptides, etc). New models will open up new hard to hit targets, paired with our large scale in vivo measurement, will enable us to create previously impossible therapeutics.
Up next is training new models on this and other data we have generated, stay tuned! And thanks to NVIDIA for setting up such a great collaboration, its been fun and fruitful!
Mar 16
🧵 We ran the largest head-to-head benchmark of protein binder design methods in the wet lab.
Project page: research.nvidia.com/labs/gen…
1 million designs. 127 targets. RFdiffusion, BindCraft, BoltzGen, and Proteina-Complexa — all tested side by side.👇
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