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Timothy P. Jenkins

@tpjenkins.bsky.social

I am an Associate Professor at DTU and leading the Digital Biotechnology Lab. I am passionate about harnessing the power of modern technology such as AI Protein Design to innovate the biotechnological landscape and develop real world solutions.

77 Posts500 Follower1309 Folgt
Timothy P. Jenkins@tpjenkins.bsky.social · last yr.

While I’m bouncing between emails and desperately waiting for my holiday, it’s good to know at least something in the lab is holding it together. Thermal stability might not be glamorous, but it’s underrated. Designerbodies: even when things get heated, still doing their job ;)

AffinityAI@affinityaibio.bsky.social · last yr.

Whether you're on holiday 🏖️ or still in the lab 🧪 trying to keep cool, at least one thing isn't melting: our DesignerBodies. Generatively designed. Thermally stable ❄️ Reliable reagents that don’t need a break 💪 #ProteinDesign #AI #Biotech

Timothy P. Jenkins@tpjenkins.bsky.social · last yr.

At AffinityAI we’re moving from “finders keepers” to “designers binders”, one generative model at a time. If you could have a binder to anything, what would it be? (Proteins, obscure signalling pathways, that one reviewer who never gets back to you…;)

AffinityAI@affinityaibio.bsky.social · last yr.

We’re rethinking what a binding reagent can be. Most antibodies weren’t designed, they were discovered. At AffinityAI, we’re flipping that logic: we build binders from first principles, guided by generative AI. What targets would you be interested in having a binder to?

AffinityAI@affinityaibio.bsky.social · last yr.

Ægget redefined the lounge. We're redefining what it means to design a protein. At AffinityAI, we combine Danish design sensibilities with precision molecular engineering. Elegant. Efficient. Engineered to bind. 🧬 Discover how we’re reshaping molecular function: www.affinityai.bio

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Timothy P. Jenkins@tpjenkins.bsky.social · last yr.

Great to see #AffinityAI represented by Esperanza and Oliver at the DTU Startup Day 💪 Lots of interest in what we’re building, especially the fact that we deliver #real #reagents rather than just #AI predictions. Excited for what's to come!

AffinityAI@affinityaibio.bsky.social · last yr.

Great energy at DTU Startup Day 🎉 Big thanks to @DTUSkylab for bringing together researchers, investors, and innovators. We had a blast sharing what we're building at AffinityAI. #AffinityAI #DTUSkylab #StartupLife

Timothy P. Jenkins@tpjenkins.bsky.social · last yr.

1/ 🚀 InstaNovo just got a major upgrade. Our Nature Machine Intelligence paper with @instadeepai presents v0.1—but while the paper was under review, we kept building. Now releasing InstaNovo v1.1, with major gains. Blog: bit.ly/4lircYB 🧵

Introducing the next generation of InstaNovo models

Since our InstaNovo paper is now published, we’d like to share an update on what we’ve been working on while our manuscript was under review. With the release of our preprint over a year ago, we were ...

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Jorge Bravo Abad@bravo-abad.bsky.social · last yr.

Eloff et al.’s InstaNovo uses transformers plus a diffusion refinement to perform high-throughput de novo peptide sequencing. It recovers more novel peptides at low FDR, outperforms current tools, and extends proteomics beyond database limits. www.nature.com/articles/s42...

InstaNovo enables diffusion-powered de novo peptide sequencing in large-scale proteomics experiments - Nature Machine Intelligence

InstaNovo, a transformer-based model, and InstaNovo+, a multinomial diffusion model, enhance de novo peptide sequencing, enabling discovery of novel peptides, improved therapeutics sequencing coverage...

nature.com

Timothy P. Jenkins@tpjenkins.bsky.social · last yr.

🎉 Big news! Our paper is out in Nature Machine Intelligence! "InstaNovo enables diffusion-powered de novo peptide sequencing in large-scale proteomics experiments" 🔗 www.nature.com/articles/s42... 👇 Thread 🧵

InstaNovo enables diffusion-powered de novo peptide sequencing in large-scale proteomics experiments - Nature Machine Intelligence

InstaNovo, a transformer-based model, and InstaNovo+, a multinomial diffusion model, enhance de novo peptide sequencing, enabling discovery of novel peptides, improved therapeutics sequencing coverage...

nature.com

Nature Biotechnology@natbiotech.nature.com · 2y ago

Deep learning methods aid in de novo design of proteins to neutralize lethal snake venom toxins in vitro and protect mice from a lethal neurotoxin challenge. www.nature.com/articles/s41... #NBThighlight

De novo designed proteins neutralize lethal snake venom toxins - Nature

Deep learning methods have been used to design proteins that can neutralize the effects of three-finger toxins found in snake venom, which could lead to the development of safer and more accessible an...

nature.com

Jake Wintermute@synbio1.bsky.social · 2y ago

This pretty much settles it: we're entering the era of low-cost, on-demand binders for everything Excited to see what people build now that "inject a llama with some junk and bleed it a month later" is no longer the cutting-edge tech www.nature.com/articles/s41...

De novo designed proteins neutralize lethal snake venom toxins - Nature

Deep learning methods have been used to design proteins that can neutralize the effects of three-finger toxins found in snake venom, which could lead to the development of safer and more accessible an...

nature.com

Timothy P. Jenkins@tpjenkins.bsky.social · 2y ago

🚨 Revolutionising Snakebite Treatments with AI-Designed Proteins 🐍 I'm proud to share our latest study published in hashtag#Nature, driven by Susana Vazquez Torres, and co-led by David Baker (Institute for Protein Design, University of Washington) and myself.

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