🧬🤖 Introducing RNA-FrameFlow –– an unconditional generative model for 3D RNA backbone design! 📑: arxiv.org/abs/2406.13839 🧰: github.com/rish-16/rna-ba… Our method generates ≥ 40% self-consistent *all-atom* RNA backbones that are globally and locally realistic 💪🏻 1/9

Excited to share our latest work in PNASNews! Combining simulations and cryo-ET, we reveal how microtubules decide between growth and shortening. doi.org/10.1073/pnas.2… Maksim Vladimir Volkov 🇺🇦 Theoretical & Computational Biophysics Department MPI for Multidisciplinary Sciences Queen Mary University of London UoD Life Sciences

Excited to present CryoBoltz ❄️⚡, a multiscale guidance approach for steering AlphaFold3/Boltz-1 to sample structures that are consistent with experimental cryo-EM density maps. 🧵1/7 arxiv.org/abs/2506.04490 Joint work with Axel Levy Gordon Wetzstein & Ellen Zhong!

In the past few weeks I have been working on a Python library for analyzing, listening to and visualizing music theory. The goal is that you and I can easily build music-related apps from fundamental blocks. github.com/CarloLepelaars… Here are some of the highlights! 👇 (1/7)

Latest preprint from the lab, many years in the making! By combining #cryoEM with #AlphaFold3 modelling, we propose that NS3 forms a transmembrane RNA translocase. This could have big implications for our understanding of norovirus replication (🧵) 🔗biorxiv.org/content/10.110…

🚀 After two+ years of intense research, we’re thrilled to introduce Skala — a scalable deep learning density functional that hits chemical accuracy on atomization energies and matches hybrid-level accuracy on main group chemistry — all at the cost of semi-local DFT. ⚛️🔥🧪🧬

the 1st draft 'g' chapter of the geometric deep learning book is live! 🚀 alice enters the magical, branchy world of graphs & gnns 🕸️ (llms are there too!) i've spent 7+ years studying, researching & talking about graphs. this text conveys what i've learnt. more in thread 💎

RFpeptidesがNature Chemical Biologyにpublishされています。 日本語解説書きました blacktanktoplab.com/blog/detail/rf… Accurate de novo design of high-affinity protein-binding macrocycles using deep learning doi.org/10.1038/s41589… 実装（今のところrfpeptideブランチ） github.com/RosettaCommons…

(1/n) Sampling from the Boltzmann density better than Molecular Dynamics (MD)? It is possible with PITA 🫓 Progressive Inference Time Annealing! A spotlight GenBio Workshop @ ICML25 of ICML Conference 2025! PITA learns from "hot," easy-to-explore molecular states 🔥 and then cleverly "cools"

🧬 AlphaFold DB is aging, as all DB do. 575 / 20,504 human proteins now mismatch UniProt, while zebrafish discrepancies are at 43% 😅 Static structure banks drift as sequences evolve, risking wrong drug‑design templates

jack morris catb.org/jargon/html/W/…

Data is the oil of modern biotech. New tools allow us to model living systems too complex for unaided human cognition. Latch is releasing a new capabilities in data curation + delivery: - 30M observational cell atlas across 150 diseases, 200 tissues, 27 technologies - a

CryoDRGN-AI ❄️🐉🤖 is now published in Nature Methods!!! So excited to see this out and a huge congrats to Axel Levy and team! CryoDRGN-AI extends cryoDRGN from requiring input, fixed camera poses, to end-to-end ab initio reconstruction of biomolecules and their conformational

Excited to present one of the first experiment-guided structure generation methods using AlphaFold3 - guided by X-ray crystallography and NMR observables - at ICML Conference this week #ICML2025 Joint work with Sanketh Vedula Meital Bojan Alex Bronstein + other collaborators (1/12)

Cable bacteria link together (thousands of cells, end-to-end) to conduct electrons across distances up to 7 centimeters. They are living batteries. They were discovered in Aarhus, Denmark in 2012. I visited Aarhus last year to see them in person, and wrote about it today.

Kyle Tretina, Ph.D. No current Rosetta or AlphaFold metric correlates whatsoever with affinity. Until there a CONSISTENT affinity dataset (not a mix of random experiments like most models are trained on) is produced, we won’t have a reliable affinity predictor.

Last week, #FlatironCCM and #FlatironCCB held a Computational Cryo-EM Workshop that focused on methods for 3D heterogeneity analysis including deep learning and statistical techniques in cryo-EM. #science #biology #math

Our illustrated guide to non-Euclidian ML is finally published! Check it out for ⭐️ gorgeous figures (with new additions!) on topology, algebra, and geometry in the field ⭐️ broken down tables for easy reading ⭐️ accessible text, additional refs, and more iopscience.iop.org/article/10.108…

Benoit Mandelbrot losing his shit somewhere in the nether..

AtomWorks is out! Building upon Biotite, we built for a toolkit for all things biomolecules and trained RF3 with it. All open-source, test it via `pip install atomworks`! AtomWorks: github.com/RosettaCommons… RF3: github.com/RosettaCommons… Paper: tinyurl.com/y2w4z65b 1/6