New OpenFold3 preview out! (OF3p2)
It closes the gap to AlphaFold3 for most modalities.
Most critically, we're releasing everything, including training sets & configs, making OF3p2 the only current AF3-based model that is functionally trainable & reproducible from scratch🧵1/9
Feels like this paper on protein-templated DNA synthesis by a natural enzyme warrants some comment.
So here's a 🧵. /1
www.science.org/doi/10.1126/...
NEW PRC PAPER 🚨: A comprehensive and timely review from @harsh3b.bsky.social and Amedee des Georges examines how deep learning is automating model building in Cryo-EM, streamlining structure determination and accelerating structural biology workflows. www.frontiersin.org/journals/mol...
People interested in the VPP aspects should also see a recent paper (from the people at Biohub) showing that tilt-series alignments can be improved with phase plate usage.
journals.iucr.org/m/issues/202...
Across scales from cells🦠 to atoms⚛️ – We reveal how anaerobic #bacteria break down very stable aromatic compounds found e.g. in oil spills 🛢️ #Bioremediation #TeamTomo 🧪 🧶🧬 🔬
Awesome collab with Lena, Matthias, @schullerjm.bsky.social @rnfr2d2.bsky.social @tomaspascoa.bsky.social @tamb-o.bsky.social
Exactly this happened to us. We expected to investigate (based on previous in vitro data) a conserved protein-lipid interaction in HIV, but what we actually discovered was much more exciting and groundbreaking. One still has to have an open mind to see that in the data.
ROCKET improves experimental structure elucidation by integrating implicit structural knowledge from OpenFold with crystallography and cryo-EM data. @moalquraishi.bsky.social
www.nature.com/articles/s41...
ROCKET 🚀 inference-time optimization of AlphaFold to fit structural data is published! rdcu.be/fa9YH
Since our preprint, we’ve pushed it to regimes where other methods break: low resolution, weak signal, real experimental edge cases. Here’s what we learned: 1/15
Our latest @biorxivpreprint.bsky.social: "Prion-like transmission of human tau strains in the mouse brain" 🥳
With Michel Goedert and Masato Hasegawa.
www.biorxiv.org/content/10.6...
Reviewers 5 months after the deadline when the editor sends urgent reminders to submit their reports
Congrats Emily! :)
Postdoc position: Computational Biophysics of Disordered Proteins, Lindorff-Larsen group, University of Copenhagen, Denmark https://tinyurl.com/REWIRE-PD Deadline May 3rd, 2026
We are hiring a postdoc in computational biophysics and machine learning studies of intrinsically disordered proteins
We aim to study the function of IDPs by combining CG MD, ML and bioinformatics in collaboration with @tanjamittag.bsky.social & @rhp-lab.bsky.social
tinyurl.com/REWIRE-PD
DNA-PAINT with photocaged DNA labels = PhotoPAINT🔬. Why? No need for washing or mixing 👉🏻 higher accuracy in DNA-PAINT & other super-res methods.
Fantastic collab with Alex Heckel & driven by the 'magic team' Nina Kaltenschnee and Marina Dietz 💪
doi.org/10.1002/anie...
@goetheuni.bsky.social
Excited to share my first PhD project: LabConstrictor 📒🐍
Have you ever created a Jupyter notebook with all your love 🫶, only for others to be unable to install it 🥲? LabConstrictor, comes to solve this!
Check out how it works in the preprint 🔗 arxiv.org/abs/2603.107... or follow this thread ⬇️
That's a huge improvement, nice.
Using any kind of angular priors (e.g. sample geometry based) helps a lot with the reconstruction and it is not restricted only to STA. :)
Could you specify the gain in resolution?
Congrats Sven!
We found a viral Trojan Horse: a virus can hide inside another virus.This one surprised us: deltaviruses don’t just borrow a helper virus. They can travel inside it.
A literal Trojan Horse “virus-in-a-virus” route into cells. 🤯 Kudos to 1st author @viroscope.bsky.social and co-authors !
Figure 1. Cryo-EM of abundant protein complexes in native membranes.
Figure 2. Cryo-EM of membrane proteins in vesicles.
Figure 3. 3D reconstruction of V-ATPase in native synaptic vesicle membranes.
Figure 4. Generation of membrane vesicles for structure determination of proteins in their native lipid bilayer.
I've written a review on what I think is an extremely exciting direction in cryo-EM:
Cryo-EM of endogenous membrane proteins in their native lipid bilayer
Open access in Quarterly Reviews of Biophysics:
doi.org/10.1017/S003...
🚨Preprint! Happy to share the research from my PhD “Genome delivery of a contractile tailed phage and its superinfection exclusion mechanism”. We use cryoEM to study the genome ejection of the phage T4, revealing how the tape measure protein regulates the process.
www.biorxiv.org/content/10.6...
Out today: We discovered new viral proteins that target immune signaling molecules, solely based on their AlphaFold-predicted shapes
www.science.org/doi/10.1126/...
Congrats Nitzan Tal and coauthors! Thank you Kranzusch lab for the fun collaboration!
Linking below previous thread on our findings
A bit late to post, but check out this peer-reviewed version at PNAS 2025 here: www.pnas.org/doi/10.1073/...
Very nice work. Congratulations Zunlong! Let's gooo!
2026 has been a remarkable year for me so far (despite the current world events): opening my lab at the University of Zurich, assembling an amazing group of people in the group, and celebrating it with a fantastic lab warming party. Figured it's also time for a small profile refresh.
It’s finally out! Together with @embopress.org and
@reviewcommons.org, we conducted a structured side-by-side comparison of human peer review and our AI scientific review (see thread 👇👇👇🔥).
Since last year, I've been making a RELION GUI that supports viewing, navigating and running jobs in a way completely compatible with the original RELION pipeline. Now it's working nicely for both SPA and tomography! Please try it out - github.com/hanjinliu/hi...
#NatMicroPicks
A microbial signature of health! 🦠⚕️
A large meta-analysis highlights the importance of previously unknown and uncultured gut bacteria in maintaining human health
#MicroSky
www.cell.com/cell-host-mi...
I'm very happy to see this nice discussion. The cytosol and crowding are a big deal in cell biology, but it's still not uncommon to see cells treated as though they were a bag of dilute, well-mixed molecules...
Honored to be a finalist for the 2026 Blavanik Awards in the UK in Life Sciences. I’m grateful to past and present lab members, collaborators, colleagues and mentors, who made it possible. It’s even better to share this from
Vietnam while celebrating the Tet holidays with family.
There was so much to unpack with this data, we teamed up with the marvellous @margotriggi.bsky.social to help explain what we think is going on. (Please also check out our model of central apparatus assembly here: www.biorxiv.org/content/10.6...)
