A new type of article for Acta F: Protocols The purpose of this new category is to provide to the reader procedures that are sufficiently detailed so other researchers can reproduce the described workflow. Find out more in 'Show me how it's done: introducing Protocols': doi.org/10.1107/S205...

An mmCIF file can say a residue has two alternate conformations and how often each appears. It cannot say which alternates occur together in the same copy. A draft proposal for recording that correlation, plus a tool to inspect it: diffuse.science/posts/mmcif-...

mmCIF Explorer and the Heterogeneity Proposal

A playground for the PDBx/mmCIF file exploration, a look at the current proposal for encoding correlated heterogeneity

diffuse.science

A question: does anyone know about communities or groups for scientists who are committed to writing without the use of LLMs / genAI?

Interested in 3D-printed models of cryo-EM grids, autogrid and cryo-FIB for visual teaching/decoration. Download our model and print: makerworld.com/en/models/30... Designed in Blender by Khan Bao, an undergrad in the lab.

Cryo-EM Grids for Teaching - Free 3D Print Model - MakerWorld

Download this free 3D print file designed by CiliaBuilder. EM Grid Scaled ModelScaled up and simplified 3D model of EM grids and autogrids for demonstration of preparation process and milling. Content...

makerworld.com

🧩 Why can two refinements with very different particle counts produce nearly identical maps? Our new “Digging Deeper” series breaks down #CryoSPARC case studies in a practical way, starting with how refinement parameters shape reconstruction quality. Read more 👉 cryosparc.com/blog/paramet...

7. For scientific progress and OUR understanding of the world this is of course very bad news. The only way to change this is to refocus on discovery NOT being prolific. In our days Galileo would have had not time to look at Jupiter, he would have reported telescopes in different colors instead.

This is an interesting idea. Since journals are keen to make authors declare when they have used AI, might authors want editors to do the same...?

Drew Steen@drewsteen.bsky.social · last mo.

I think @richardsever.bsky.social has it right here - if you want your work to be freely available, it’s going to be freely available to everyone, including shitty AI bots. What I’d like is statements from journal editors that they will not use AI judgment for any part of the editorial process.

If you posted your preprint under a CC-BY license, you already gave permission to this kind of re-use, whether you like it or not. But very relevant question for preprints posted with the option "all rights reserved", or under a CC license with clauses NC (non-commercial) and/or ND (no derivatives).

Yasin Dagdas@plantophagy.bsky.social · last mo.

@richardsever.bsky.social Is it correct that @qedscience.bsky.social scored all #preprints from last year and made those scores public? Was this cleared by authors?If editors or reviewers can see those scores isn’t this unfair to all of us that want to share our science @biorxivpreprint.bsky.social?

It is just so unfortunate that you chose to fuel a similar kind of "top dog / alpha male" culture by using language (1%) that is associated with extremely rich people whose ethics are questionable at best. I am actually excited about what you are doing with QED, this "best" papers thing...

🚀 Can automation scale #cryoEM? We recently demonstrated it is possible to make #cryo-EM more routine and scalable testing across 21 challenging #GPCR datasets, a real-world scenario for #SBDD, achieving results equal or better than manual processing. Read more 👉 cryosparc.com/blog/automat...

CryoSPARC | Automated Workflows in CryoSPARC™

How to make use of one-click, automated data processing workflows that can provide equal or better results as manual processing

cryosparc.com

#cryoem folks- we keep seeing this popping up in 2d classes. Sample is a recombinant complex from insect cells

We are sharing a tool developed initially for internal use called VOSE (Volume Operations Simplified Edition) today. It is written specifically to work in ChimeraX (version 1.5+), with no additional libraries necessary to be installed. github.com/jparmachelab...

GitHub - jparmachelab/ChimeraX-VOSE: ChimeraX Volume Operations Simplified Edition

ChimeraX Volume Operations Simplified Edition . Contribute to jparmachelab/ChimeraX-VOSE development by creating an account on GitHub.

github.com

In a series of 3 papers and preprints, we’re thrilled to share with you the working laser phase plate. In collaboration with research led by Holger Müller at UC Berkeley, this is a huge innovation in imaging to make small and faint objects inside cells visible. bit.ly/4vK9LVn

I learned so much from watching past editions of @ccpem.bsky.social Spring Symposium, so I agreed to my talk being recorded even though this is stepping well out of my comfort zone (public speaking isn't my strongest skill). Anyway, here is the recording: www.youtube.com/watch?v=AKTf... #CCPEM

Atomic resolution structure of spinach rubisco reveals protons and dynamics | Guillaume Gaullier

YouTube video by CCP-EM

youtube.com

The next #CryoEM Current Practices Webinar speaker will be Mark Herzik from UCSD speaking on "Old tools, new tricks: engineering better cryoEM sample preparation workflows through design and chemistry" 6/25/2026 at 12 PM ET / 9AM PT Register here : us02web.zoom.us/webinar/regi...

If you know someone who would be a good cryoEM facility manager, please encourage them to apply at jobs.rutgers.edu/postings/273... .

The DiffUSE Project wants examples where structural heterogeneity matters but cannot be encoded in PDBx/mmCIF. X-ray, cryo-EM, time-resolved, multi-map, or fragment screening data welcome. Submit yours: diffuse.science/submit/

Submit Examples of Heterogeneous Structural Data

The DiffUSE Project

diffuse.science

Cryo-EM structure of ALC1 in an open conformation bound to a PARylated nucleosome pubmed.ncbi.nlm.nih.gov/42159202/ #cryoEM

It is beyond me why anyone would want to automate away one of the most exciting parts of this job. "Let AI play your video games so you don't have to." You absolutely can't become an expert model builder without doing the "grunt work". Who will evaluate the results if there are no more experts?

cryoEM papers@cryoempapers.bsky.social · 3mo ago

StructAgent: Orchestrating Cryo-EM Model Building and Refinement with a Multi-Agent LLM System www.biorxiv.org/content/10.64898/2026.05.18.725842v1 #cryoEM

New preprint🧊🔬Introducing LowDoseWizard—a guided SerialEM workflow for rapid, standardised cryo-TEM setup! Setting up low-dose can be slow & daunting, especially for new users. LowDoseWizard automates optics, camera, and alignment steps from minimal input — full setup in <15 min. #cryoEM #SerialEM

cryoEM papers@cryoempapers.bsky.social · 3mo ago

LowDoseWizard - rapid and standardised setup of low-dose cryo-TEM imaging in SerialEM www.biorxiv.org/content/10.64898/2026.05.05.722937v1 #cryoEM

Very interesting to see that it is the same "difficult" particles that trip up classification methods with completely different underlying formalism. Also great to now have a dataset with known ground truth assignments!

cryoEM papers@cryoempapers.bsky.social · 3mo ago

Heterogeneous reconstruction algorithms for cryoEM achieve limited particle classification accuracy on real benchmark datasets www.biorxiv.org/content/10.64898/2026.05.08.722747v1 #cryoEM

🔭 Astronomer Cecilia Payne-Gaposchkin made one of the most fundamental discoveries in the history of science: stars are made primarily of hydrogen & helium. Her 1925 PhD thesis is widely regarded as the most brilliant ever written in #astronomy. She was born #OTD in 1900. #WomenInSTEM #AstroSky

Finally we can study interesting things (like chromatin 😇) in situ, beyond boring ribosomes. 😜

Dimitry Tegunov@dtegunov.bsky.social · 3mo ago

What if you're not interested in ribosomes? First, HOW DARE YOU. Second, MissAlignment's got you covered. We took a tiny subset of EMPIAR-11830 containing parts of the nucleus and looked for nucleosomes. Here, further reference-based alignment with M made no difference.

A 37-million-particle dataset from over 250 experiments to accelerate data-driven cryo-EM analysis www.biorxiv.org/content/10.64898/2026.04.29.720997v1 #cryoEM

Structural Insights into the Coupling Mechanism of Vectorial CO2 Uptake by DAB1 www.biorxiv.org/content/10.64898/2026.05.01.722082v1 #cryoEM

I noticed that the results of CS denoising were good, but a bit stochastic (some particles were gone in one run, but clearly visible in another). Combining the results of multiple denoising models by taking the minimum value at each pixel helps. github.com/olibclarke/c...

Been training for this moment my whole life.

@olibclarke.bsky.social finally listened to your ccpem talk, the calmodulin result is very intriguing! I wonder what you would get with data from a more recent detector as you said, but also from a HexAuFoil grid. The example of CODH (Emma Hesketh's talk) suggests it helps for small particles.

We're super excited to share MissAlignment: a new ML-based approach to reference-free tilt series alignment, spearheaded by @martenchaillet.bsky.social. We think it's going to make your cryo-ET life a lot better. Preprint: www.biorxiv.org/content/10.6... Code: github.com/warpem/miss-... 🧶 Thread: