Matthieu da Costa @mdc_biocat

Ph.D, Protein Engineer - @Abolis_Biotech - Formerly @Bayer & @CSB_UGent abolis.fr Paris, France Joined July 2013

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Kyle Tretina, Ph.D. @AllThingsApx

2 days ago

🚀 MMseqs2-GPU sets the bar for homology search: ⚡177× faster than JackHMMER Matches sensitivity (ROC1≈0.67), single query ⚡31.8× faster ColabFold MSAs TM ≈0.70, no loss ⚡27× faster Foldseek 8 GPUs Speed and sensitivity - homology search is no longer the bottleneck,…

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LiteFold @try_litefold

a week ago

If you want to learn about molecular dynamics, simulations, and force fields in the most fun and intuitive way, this blog is for you. Do give it a read. Links are in the comments. Almost every week we release blog posts on AI, structural biology, and AI for drug design. If that…

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Nature Biotechnology @NatureBiotech

2 weeks ago

Bioactive molecules unearthed by terabase-scale long-read sequencing of a soil metagenome go.nature.com/4606ozA

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Asimov Press @AsimovPress

2 weeks ago

Nearly everything in a cell happens by chance encounters among molecules. It is diffusion that dictates how quickly enzymes find substrates, how quickly signaling molecules reach receptors, and how often ribosomes collide with mRNAs. But what sets a molecule's diffusion rate?…

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Ava Amini @avapamini

2 months ago

thrilled to share The Dayhoff Atlas of protein language data and models 🚀 protein biology in the age of AI! aka.ms/dayhoff/prepri… we built + open source the largest natural protein dataset, w/ 3.3 billion seqs & a first-in-class dataset of structure-based synthetic proteins

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Structural Biology Communications @ActaCrystF

2 months ago

The structure of an apo unmutated sucrose phosphorylase from Alteromonas mediterranea shows the presence of two major catalytic conformations in the same crystal @DTUtweet @univnantes @ActaCrystF @IUCr #SucrosePhosphorylase #GH13 #Marine doi.org/10.1107/S20532…

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Andrew White 🐦‍⬛ @andrewwhite01

2 months ago

Ok @sokrypton here's what I was thinking for doing protein folding with @midjourney video. beta-lactamase folding

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Matthieu da Costa @mdc_biocat

2 months ago

Don’t ask me why but I am learning Russian.

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Kyle Tretina, Ph.D. @AllThingsApx

3 months ago

Protein structure ≠ protein folding/dynamics The new north star: energy‑landscape learning, rather than static structure prediction Next wave: AI that learns free energy for "true" inverse folding

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Gabriele Corso @GabriCorso

4 months ago

Excited to unveil Boltz-2, our new model capable not only of predicting structures but also binding affinities! Boltz-2 is the first AI model to approach the performance of FEP simulations while being more than 1000x faster! All open-sourced under MIT license! A thread… 🤗🚀

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Marinka Zitnik @marinkazitnik

5 months ago

📢 🧬 New preprint! Can we predict which cancer patients will benefit, before treatment begins? @WanXiang_Shen Immunotherapy saves lives but many patients don’t respond to treatment, and we still lack reliable tools to predict who will benefit We introduce COMPASS, foundation…

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Matthieu da Costa @mdc_biocat

5 months ago

Dans la continuité des fantasmagories américaines (Après la conférence biopunk (Sperm racing, talking animals, etc.)

The White House @WhiteHouse

5 months ago

Dans la continuité des fantasmagories américaines (Après la conférence biopunk (Sperm racing, talking animals, etc.)

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Adrian Bunzel 🇪🇺🇨🇭🇩🇪🏳️‍🌈 @AdrianBunzel

5 months ago

🚨Out now in Angewandte Chemie: AI.zymes - A modular platform for evolutionary enzyme design. AI.zymes integrates established and emerging bioengineering tools into a coherent pipeline for #enzymedesign. 💻GitHub: github.com/bunzela/AIzymes 📄Paper: doi.org/10.1002/anie.2… 1/🧵

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Matthieu da Costa @mdc_biocat

5 months ago

Ils sont complètement dans leur bulle. On est très loin du haut du panier. Ça me fait de la peine pour eux.

Elliot Roth || London @ThatMrE

5 months ago

Ils sont complètement dans leur bulle. On est très loin du haut du panier. Ça me fait de la peine pour eux.

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Kyle Tretina, Ph.D. @AllThingsApx

5 months ago

Read more: Predicting pose distribution of protein domains connected by flexible linkers is an unsolved problem biorxiv.org/content/10.110…

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Kyle Tretina, Ph.D. @AllThingsApx

5 months ago

35 teams, 10k structures later ... not one model could predict how a 6-aa linker positions two rigid domains. CASP16’s SAXS + RDC benchmark exposes the “dynamics gap” left by AlphaFold-era models — and calls for continuous SE(3) ensembles. Which next-gen BioAI will finally…

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Jason Yim @json_yim

5 months ago

RFdiffusion => generative binder design. RFdiffusion2 => generative enzyme design. It's rare to find scientists with deep knowledge in chemistry, machine learning, and software engineering like Woody. The complexity of enzymes matches the complexity of his skills. Check out RFD2

Woody Ahern @woodyahern

5 months ago

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Ming "Tommy" Tang @tangming2005

5 months ago

Making a heatmap is an essential skill for a bioinformatician. But you probably do not understand heatmap. 7 reading resources to understand heatmap! 🧵

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Rafeeque Mavoor @rafeequemavoor

5 months ago

Free alternative for ChemDraw! Meet MolDraw. 100% free to use!

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Gabriel Rocklin @grocklin

6 months ago

Small proteins can be more complex than they look! We know proteins fluctuate between different conformations- but how much? How does it vary protein to protein? Can highly stable domains have low stability segments? @ajrferrari experimentally tested >5,000 domains to find out!