Aviv Spinner @AvivSpinner
Protein ML Research Fellow @Align_Bio previously phd w/ @deboramarks, ml researcher @Flagship_PI, investor @pillar_vc & scientist @scribetx. 🧬🧑💻 🏳️⚧️ they/them Joined June 2012-
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Common filtering metrics have surprisingly limited predictive power. We compared a large panel of sequence metrics, structure metrics, and model scores against actual measured protease activity (intact DNFH levels)....
Bittersweet announcement: this is the final work of my research fellowship at the Align Foundation. I am extremely proud of this experimentally heroic effort to benchmark generative AI models for protein design. doi.org/10.64898/2026.…
Benchmarking generative protein models at scale with GROQ-SEQ 📊 We built a unified benchmarking framework and experimentally tested alignment-based, language, and structure-based models on TEV protease. Structure-based models achieved up to 74% hit rates, a remarkably high
“looks good in silico” vs “actually works” is the central challenges in generative protein design right now and this is our first step in cracking open that extremely HUGE gap!!
One thing I find especially interesting: The distributions of computational scores across models were relatively tight...but the experimental distributions were broad!
Also very cool to see function persist through extreme sequence divergence and aggressive AI-driven protein shrinking. Some variants with up to 70 deletions still retained measurable activity <!!!>. Super proud of this work and the team behind it.
We didn’t just test a few conditions either - this library was profiled across 20 experimental conditions, generating the kind of rich, high-quality functional measurements that protein ML has been missing.
Really stoked to share this work!!! What if every MSA had experimentally measured function labels attached?! GROQ-seq profiled function across 11,722 sequence-diverse protease variants, including natural homologs sampled across evolution and AI-designed “shrunken” proteases
🧬 How Much Diversity Can Proteases Handle? GROQ-seq Has Answers We profiled 11,722 sequence-diverse protease homologs, including AI-designed minimized variants, and uncovered robust activity across surprisingly distant sequences. Even across extreme sequence divergence,
Aviv Spinner retweeted
This tube is a library of bacteria with every single-base-pair genome mutation, all DNA-barcoded.🧪Growth + barcode sequencing = data on millions of mutations. 📄 Report: biorxiv.org/content/10.648… Retweet if you want more data, and read on if you want to use the library! 🧵
Connor Tou @connorjtou
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Kevin K. Yang 楊凱�... @KevinKaichuang
24K Followers 6K Following Principal Researcher in BioML @MSFTResearch (@MSRNE). He/him/他. 🇹🇼
Sri Kosuri @srikosuri
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Patrick Malone, MD Ph... @patricksmalone
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Sebastian S. Cocioba�... @ATinyGreenCell
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Basem Al-Shayeb, Ph.D... @themicrobeguy
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