Plenty of Room - Newsletter
Your guide to AI-driven protein design, DNA nanotech & more! Subscribe at plentyofroom.beehiiv.com
- Can we play Lego using proteins? Oh yeah! With some help from machine learning 🧪🧬🖥️ Read how here! plentyofroom.beehiiv.com/p/ai-designe...
- Can you use DNA traps to fight tumors? This new work uses DNA origami nanostructures to capture TGF𝛽1, a cytokine involved in tumor growth and immune suppression. The system reduces tumor size and increases survival in mice! 🧪🖥️🧬 Read the whole breakdown here 👉 tinyurl.com/ytz7e7fr
- What do emus (yeah, the bird!) and protein dynamics have in common? 🧪 More than you would expect! Don't miss this cool work at the interface of AI and protein structures 😎 Read and subscribe 👉 plentyofroom.beehiiv.com/p/ai-powered...
- 400 million tonnes of plastic are produced each year, with tons of environmental problems. Can DNA-based plastic be the solution? Super cool work! 🧪🖥️🧬 PS read and subscribe here 👉 plentyofroom.beehiiv.com/p/dna-plasti...
- Turning plastic waste into paracetamol, using bacteria? 😲 Is there something more sci-fi? 🧪 But yeah, now it's possible! Read all about it here 👉👉 plentyofroom.beehiiv.com/p/synbio-bre...
- Is AI joining the CRISPR chat? CRISPR-GPT is a new AI-collaboration tool created to make the design of gene editing experiments as easy as possible! Is this the future of science? 🤔🧪 Subscribe to get more like this plentyofroom.beehiiv.com/p/ai-joins-t...
- What do emus (yeah, the bird!) and protein dynamics have in common? 🧪 More than you would expect! Don't miss this cool work at the interface of AI and protein structures 😎 Read and subscribe 👉 plentyofroom.beehiiv.com/p/ai-powered...
- Light up the membrane! 💡🧪🧬🖥️ Transmembrane proteins are membrane gatekeepers, but designing new functional ones is hard. This paper applies the power of ML to create transmembrane proteins that can bind small molecules and fluoresce 🏮 Read and subscribe! 👉 plentyofroom.beehiiv.com/p/ai-designe...
- Reposted by Plenty of Room - Newsletter1. "'Trusting the experts is not a feature of either a science or democracy," Kennedy said." It's literally a vital feature of both science and of representative democracy. I've written a fair bit about trust in expertise as a vital mechanism in the collective epistemology of science.
- Emus and protein science? Proteins are dynamic, but it's hard to study their transitions 🧪🖥️🧬 BioEmu uses machine learning to emulate protein dynamics with high precision and speed! It complements simulations: first test with BioEmu, then continue with MD. Read and subscribe tinyurl.com/enf5apzc
- Is there something cooler than structural biology papers? 🧪🖥️🧬 Looking at RNA structures, of course! 😎 Do we know what these RNA nanocages do? No. Are they cool? Yes. Did they try to use them for drug delivery? Also yes. Subscribe and get more like this at plentyofroom.beehiiv.com/p/rna-nanoca...
- Some proteins like to fold in neat shapes, others enjoy chaos. Disordered proteins are considered "undruggable". But today a new method creates binders using the power of computational methods! 🧪🖥️🧬 Subscribe to get more like this 👉 plentyofroom.beehiiv.com/p/ai-designe...
- New issue is here 🎉 Some proteins like to fold in neat shapes, others enjoy chaos. Disordered proteins are considered "undruggable". But today a new method creates binders using the power of computational methods! 🧪🖥️🧬 Subscribe to get more like this 👉 plentyofroom.beehiiv.com/p/ai-designe...
- Do you want to save your data in DNA? Well, now is coming closer! This amazing work from University of Washington and Microsoft explore how to use CRISPR-Cas9 to access data in DNA databases. Cool! 🧪🧬🖥️ Read the whole breakdown here 👉 plentyofroom.beehiiv.com/p/crispr-bas...
- Is it possible to leverage AI to create functional RNAs? Well, from now yes! 🧪 Subscribe to get more like this 👉 plentyofroom.beehiiv.com/p/ai-rna-des... #AI #biotech
- Just in case you missed this super cool paper 😎🧪
- Bacteria turning plastic into drugs? Oh yeah! Sometimes bacteria aren't enough to solve problems. What about merging biocompatible chemistry and bacteria to turn plastic bottles into paracetamol? 🧪🖥️🧬 Want to get more like this? Just subscribe! 👉 plentyofroom.beehiiv.com/p/synbio-bre... #chemistry
- Bacteria turning plastic into drugs? Oh yeah! Sometimes bacteria aren't enough to solve problems. What about merging biocompatible chemistry and bacteria to turn plastic bottles into paracetamol? 🧪🖥️🧬 Want to get more like this? Just subscribe! 👉 plentyofroom.beehiiv.com/p/synbio-bre... #chemistry
- Gene editing is moving from the lab to the clinic, but delivering gene-sized DNA is still a problem. Today's paper evolved new CRISPR-associated transposons using phage-assisted evolution! 🧪 Subscribe to get more like this 👉 plentyofroom.beehiiv.com/p/gene-editi... #biotech #genomeediting
- What about merging protein design and regenerative medicine? This paper brings computationally designed proteins to guide tissue regeneration! 🧪 Subscribe to get more like this 👉 tinyurl.com/423u2pss #biotech #ML #Ai
- Don't miss this cool work! 🧪
- Finding new drugs is hard. Even more for macrocycles, the molecules that could be the new best thing in medicine! 🧪Enter RFpeptides, a machine learning pipeline for macrocycle binders! Great work from @uwproteindesign.bsky.social Want more like this? 👉 tinyurl.com/2da2k8dy #biotech #ML #AI 🧬🖥️
- Finding new drugs is hard. Even more for macrocycles, the molecules that could be the new best thing in medicine! 🧪Enter RFpeptides, a machine learning pipeline for macrocycle binders! Great work from @uwproteindesign.bsky.social Want more like this? 👉 tinyurl.com/2da2k8dy #biotech #ML #AI 🧬🖥️
- Nothing to read on Sunday? I got you covered! What about merging protein design and regenerative medicine? This paper brings computationally designed proteins to guide tissue regeneration! 🧪 Subscribe to get more like this 👉 tinyurl.com/423u2pss #biotech #ML #Ai
- Protein design and regenerative medicine: is this the coolest duo? Today, the authors used computationally designed proteins to guide tissue regeneration! Amazing work from @uwproteindesign.bsky.social and @upc.edu! 🧪🖥️🧬 Subscribe to get more like this 👉 tinyurl.com/423u2pss #biotech #ML #Ai
- Do you need something to fill the void until the next issue? 😎 Well, last week's is just here! 🧪 plentyofroom.beehiiv.com/p/gene-editi...
- Very cool research! 🧪
- A big step forward for proteomics, especially in areas where reference data is scarce or unavailable. It’s fast, powerful, and shows how AI can help wet lab biology in very real ways! 🧪 Read and subscribe to get more like this plentyofroom.beehiiv.com/p/ai-protein...
- Bacteria transforming plastics into paracetamol, insane! In all the good ways 🧪 www.nature.com/articles/s41...
- Protein sequencing is never easy, but it’s especially hard when there’s no database to help. But that’s exactly the case in many exciting areas of research: microbiomes, venom studies, immunopeptidomics, or synthetic proteins! 🧪
- And that’s where de novo sequencing comes in: figuring out the amino acid sequence with no references, directly from mass spectrometry data. It’s powerful, but also difficult, noisy, and often incomplete. 🧪
- 💡 🧪 This new paper introduces InstaNovo and InstaNovo+: two deep learning models that bring machine learning to peptide sequencing! Here's how it works:
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View full threadA big step forward for proteomics, especially in areas where reference data is scarce or unavailable. It’s fast, powerful, and shows how AI can help wet lab biology in very real ways! 🧪 Read and subscribe to get more like this plentyofroom.beehiiv.com/p/ai-protein...
- Gene editing is finally stepping out of the lab and into the clinic. There are over 60 trials underway, with base editors, prime editors, and programmable nucleases all available. 🧪
- But they all have a problem: they can’t insert full genes Why is it important? Many diseases are caused by multiple mutations in the same gene, and correcting them all is slow and expensive! The better solution? Just insert the healthy for a one-and-done therapy And we might be getting closer! 🧪
- 🧬🧪 Today’s paper introduces evoCAST: a new CRISPR-associated transposase system evolved for precise, full-gene insertion in human cells. Here’s how it works:
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View full threadIt’s easy to reprogram, gives high purity products and it’s safer than alternatives. What more do you want? This is big for cell therapy, rare disease, and engineered models.🧪 Full breakdown here! plentyofroom.beehiiv.com/p/gene-editi... #GeneEditing #CRISPR #SyntheticBiology #CellTherapy
- Gene editing is moving from the lab to the clinic, but delivering gene-sized DNA is a still a problem. Today's paper evolved new CRISPR-associate transposons using phage-assisted evolution! 🧪🖥️🧬
- Amazing work from @harvard.edu , @mit.edu and @columbiauniversity.bsky.social! Subscribe to get more like this 🧪👉 plentyofroom.beehiiv.com/p/gene-editi... #biotech #genomeediting
- 𝐑𝐚𝐩𝐢𝐝 𝐭𝐞𝐬𝐭𝐬 are fast, cheap, and convenient. They are everywhere, from COVID swabs to pregnancy tests. But they have a problem: low sensitivity. Rapid tests struggle to detect low levels of important biomarkers, which is fundamental for early disease diagnosis! 🧪
- So, how do we keep the speed and convenience of rapid tests without compromising on sensitivity? 🧪 This new paper shows a solution: 𝐃𝐍𝐀 𝐨𝐫𝐢𝐠𝐚𝐦𝐢 6-helix bundles for massive signal amplification!
- The structure works as a nanoscale scaffold: - The ends of the 6HB bind to detection antibodies - The middle section carries up to 180 signal-generating DNA strands - All of this flows through a standard lateral flow test strip 🧪
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View full threadThis is one of my favourite real-world examples for DNA origami uses! It leverages DNA origami’s capacity for precision positioning to create an impactful solution. It’s simple, scalable and useful! Go here to get more of this 👉🧪 plentyofroom.beehiiv.com/p/dna-origam... #diagnostics #biotech
