iiinova — where your digital self keeps evolving

Reposted by Guillaume Gaullier

Przemek Dutka @przemekdut.bsky.social · 08/10/2026

Our latest development is now on bioRxiv: cryoSHIELDs — amphipathic peptide additives that make cryo-EM grid prep far more reliable. Tested across 24 protein systems, they enabled the first ABCC6 structure and GPCR–G protein structures at just 0.1–0.5 mg/mL! www.biorxiv.org/content/10.6...

04526

Reposted by Guillaume Gaullier

cryoEM papers @cryoempapers.bsky.social · 06/10/2026

Structural basis of PARP2 recognition of nucleosomal DNA breaks and inhibitor trapping pubmed.ncbi.nlm.nih.gov/42831429/ #cryoEM

032

Reposted by Guillaume Gaullier

Prof William Ripple @williamripple.bsky.social · 28/09/2026

We invite everyone (nonscientists) to endorse the Declaration of a Planetary Emergency, part of the upcoming World Scientists’ Warning to Humanity: A Third Notice. Add your name and share widely. Endorsement helps show public concern about the future of our planet. forms.gle/vAARd7mv2yS7...

3120104

Reposted by Guillaume Gaullier

Basil Greber @bjgreber.bsky.social · 01/10/2026

Those who had a careful look at the methods section of our work on the #cryoEM structure of the CDK11-cyclin L-SAP30BP complex will have noticed that we added a short peptide to our sample before freezing. If you wonder why...

14220

Reposted by Guillaume Gaullier

Structural Biology @actacrystd.iucr.org · 28/09/2026

After analyzing 72 structures of NcAA9D, it was found that X-rays progressively reduce the active-site copper from Cu(II) to Cu(I), forming an electron-density feature that is easy to misinterpret #RadiationDamage #LPMOs #DioxygenBinding doi.org/10.1107/S205...

041

Reposted by Guillaume Gaullier

Yuan He @yuanhejhu.bsky.social · 22/09/2026

A big week for the lab! Two new papers on how cells repair DNA double-strand breaks: one on getting NHEJ started in chromatin, one on processing the ends before ligation. Years of work by a fantastic team.

410940

Guillaume Gaullier @guillawme.eurosky.social · 18/09/2026

Interesting, but the code repository says "Anthropic does not plan further updates and does not accept pull requests". So they seem more interested in the PR stunt than in supporting science on the long term...

030

Reposted by Guillaume Gaullier

bioRxiv Biophysics @biorxiv-biophys.bsky.social · 17/09/2026

The CAHRA Challenge: A Community-Wide Assessment of Cryo-EM Heterogeneous Reconstruction Algorithms www.biorxiv.org/content/10.64898/20…

056

Reposted by Guillaume Gaullier

cryoEM papers @cryoempapers.bsky.social · 18/09/2026

Strategies for time-resolved cryogenic electrontomography of transient cellular processes pubmed.ncbi.nlm.nih.gov/42748555/ #cryoEM

013

Reposted by Guillaume Gaullier

Sergey Ovchinnikov @sokrypton.org · 17/09/2026

Introducing highly experimental localfold.org Building on @martinsteinegger.bsky.social af2 webgpu port, @milot.bsky.social optimizations & jax ports of af3-like models by @marielle.bsky.social, Choonghwan Lee, Julia Buhmann. WARNING: runs directly on your 💻, may drain 🪫 & eat data📱 & overheat 🔥💻

26826

Reposted by Guillaume Gaullier

Basil Greber @bjgreber.bsky.social · 16/09/2026

Is there a recent review that summarises all the biggest, baddest, most mind-boggling #cryoEM structures out there? What I need is basically just 10 pages worth of "look at this crazy thing!" Suggestions welcome! 😆

356

Reposted by Guillaume Gaullier

Marcin J. Suskiewicz @msuskiewicz.eurosky.social · 15/09/2026

Today, the day of the 100th anniversary symposium for Jean-Pierre Serre in Paris, I'm thinking of this quote from another mathematician, A. Connes. I do think it's important we foster confidence in our own expertise - as a nonsense filter and departure point for creativity.

063

Reposted by Guillaume Gaullier

Joy Jeongyoon Choi @joyjoychoi.bsky.social · 14/09/2026

Excited to share our new preprint on in situ chromatin structure of the inactive X chromosome in differentiated female mouse embryonic stem cells. www.biorxiv.org/content/10.6... 🧵1/8

611743

Reposted by Guillaume Gaullier

Harmit Singh Malik @harmitmalik.bsky.social · 13/09/2026

But if you gain fulfillment from the doing & the teaching, from the achievements of others, including your competitors, from those that came before you, & those that will follow, you are somewhat insulated. Ultimately, this is a good moment to reflect on what brings YOU joy & act accordingly.

2344

Reposted by Guillaume Gaullier

Structura Biotechnology @structurabio.bsky.social · 10/09/2026

💡 The idea is simple: getting to know your data is often the shortcut to more efficient particle picking. In our latest #CryoSPARC blog post, we cover how to speed up #cryoEM data processing through efficient early curation of your dataset. 👉 cryosparc.com/blog/curatio...

174

Reposted by Guillaume Gaullier

NBIS @nbis.se · 08/09/2026

A senior bioinformatician working on your project in Sweden for up to 500 hours! Apply to the next call for Bioinformatics Support Peer review track (aka WABI): www.nbis.se/services/bio... Deadline: October 1st 2026 (23:59)

nbis.se

123

Reposted by Guillaume Gaullier

Juan Carlos De la Concepcion @delaconcepcionjc.bsky.social · 08/09/2026

The beauty of posting in @biorxivpreprint.bsky.social. This amazing tool was available for the community long before it showed up on a journal. I even forgot this publication was not "peer-reviewed", but it was definitively "community-reviewed". Kudos to @lorenzlamm.bsky.social and all the authors!

1206

Reposted by Guillaume Gaullier

Magnus Bauer @kinasekid.bsky.social · 06/09/2026

AlphaFold Server’s ligand menu just got a lot bigger and I almost missed it! You can now add any ligand from the wwPDB Chemical Component Dictionary. Just enter its CCD code 🥳

16028

Guillaume Gaullier @guillawme.eurosky.social · 02/09/2026

This paper was a nice side quest that started as a random encounter with @hrbridges.bsky.social at the poster session of the 2025 @ccpem.bsky.social Spring Symposium. It was very satisfying to finally see the macro domain of ALC1 that had escaped all previous structures of ALC1-nucleosome complexes!

1195

Reposted by Guillaume Gaullier

Florent Waltz @florentwaltz.bsky.social · 07/08/2026

We've been seeing a lot of "in situ" lately in titles from fancy journals (not pointing any fingers 👀). I’ve delayed posting this, but as more and more come out, I'm afraid "in situ" is becoming an empty buzzword, much like "near-atomic" was for SPA 🔬 1/n #cryo-ET #cryo-EM #cryoET #cryoEM 🧪

85616

Reposted by Guillaume Gaullier

Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 30/08/2026

Run AlphaFold2 locally in your browser via WebGPU, no installation needed, it's just a static webpage using your own GPU or CPU. Short proteins run in seconds. Larger ones are still slow: a 291-aa protein takes ~7 minutes on my M4 Pro. ❗It's just a PoC. 🌐 martin-steinegger.github.io/alphafold2-w...

117741

Reposted by Guillaume Gaullier

Structural Biology Communications @actacrystf.iucr.org · 27/08/2026

WebCalEM is a browser-based tool that makes lattice-based pixel-size calibration a routine step in the cryo-EM workflow #CryoElectronMicroscopy #MagnificationCalibration #PixelSize doi.org/10.1107/S205...

043

Reposted by Guillaume Gaullier

Reese Richardson @reeserichardson.bsky.social · 25/08/2026

A massive update: At least ~15 companies~ are selling scientists antibodies using faked validation data. We've documented 18,000+ manipulated images on 17,000+ products sold by leading laboratory suppliers including Thermo Fisher, Abcam, Santa Cruz Biotechnology, Millipore Sigma and Bio-Techne. 1/🧵

18455329

Reposted by Guillaume Gaullier

Structural Biology @actacrystd.iucr.org · 24/08/2026

AlignPCA-2D is a principal component analysis-space Euclidean vector alignment method for fast, interpretable 2D classification in cryo-EM #3DReconstructionAndImageProcessing #SingleParticleCryoEM doi.org/10.1107/S205...

063

Reposted by Guillaume Gaullier

Protein Data Bank in Europe (PDBe) @pdbeurope.bsky.social · 06/08/2026

Out now in Journal of Applied Crystallography: mmCIF Validator, automated validation of mmCIF files against the PDBx/mmCIF dictionary Useful for structure deposition prep, biocuration, and automated QC (VS Code extension + Python/CLI) Paper: doi.org/10.1107/S160... Code: github.com/PDBeurope/mm...

doi.org

mmCIF Validator: a comprehensive validation tool for structural biology data files

The mmCIF Validator provides real-time automated validation of mmCIFs against a valid PDBx/mmCIF dictionary. The validator is available as both a Visual Studio Code extension and a standalone Python s...

096

Reposted by Guillaume Gaullier

Structural Biology Communications @actacrystf.iucr.org · 30/07/2026

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...

0128

Reposted by Guillaume Gaullier

Prism Science @prismscienceorg.bsky.social · 29/07/2026

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-...

diffuse.science

mmCIF Explorer and the Heterogeneity Proposal

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

052

Reposted by Guillaume Gaullier

Carl T. Bergstrom @carlbergstrom.com · 27/07/2026

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

36337129

Reposted by Guillaume Gaullier

Bui Lab @McGill @builab.bsky.social · 20/07/2026

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.

makerworld.com

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...

14215

Reposted by Guillaume Gaullier

Structura Biotechnology @structurabio.bsky.social · 21/07/2026

🧩 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...

1147

Reposted by Guillaume Gaullier

Michael Hothorn @structplantbio.bsky.social · 26/06/2026

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.

0135

Reposted by Guillaume Gaullier

Richard Sever @richardsever.bsky.social · 25/06/2026

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...?

3276

Guillaume Gaullier @guillawme.eurosky.social · 26/06/2026

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).

000

Reposted by Guillaume Gaullier

Dr. B. Duygu Özpolat (she/her) @biyolokum.bsky.social · 25/06/2026

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...

2152

Reposted by Guillaume Gaullier

Structura Biotechnology @structurabio.bsky.social · 25/06/2026

🚀 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.com

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

1178

Reposted by Guillaume Gaullier

Eugene Valkov @eugenevalkov.bsky.social · 23/06/2026

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

286

Reposted by Guillaume Gaullier

Jean-Paul Armache @valendraica.bsky.social · 14/06/2026

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.com

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.

1279

Reposted by Guillaume Gaullier

Biohub @biohub.org · 11/06/2026

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

Waves of laser light coming from four different directions and meeting in the middle brightly inside the cavity of the laser phase plate

15336

Guillaume Gaullier @guillawme.eurosky.social · 11/06/2026

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

youtube.com

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

YouTube video by CCP-EM

1408

Reposted by Guillaume Gaullier

Edward T Eng @edwardteng.bsky.social · 10/06/2026

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...

0148

Reposted by Guillaume Gaullier

Prism Science @prismscienceorg.bsky.social · 28/05/2026

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/

diffuse.science

Submit Examples of Heterogeneous Structural Data

The DiffUSE Project

076

Reposted by Guillaume Gaullier

cryoEM papers @cryoempapers.bsky.social · 22/05/2026

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

054

Guillaume Gaullier @guillawme.eurosky.social · 19/05/2026

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?

3183

Reposted by Guillaume Gaullier

Simon Fromm @simonfromm.bsky.social · 11/05/2026

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

12710

Guillaume Gaullier @guillawme.eurosky.social · 12/05/2026

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!

000

Reposted by Guillaume Gaullier

Admirable Women @admirablewomen.bsky.social · 10/05/2026

🔭 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

A side-by-side composite image celebrating Cecilia Payne-Gaposchkin (1900–1979), the groundbreaking astrophysicist who discovered that stars are made primarily of hydrogen and helium.

On the left is a vintage black-and-white portrait of a middle-aged Payne-Gaposchkin. She is shown from the shoulders up with a serene and contemplative expression, her light-colored eyes looking thoughtfully off-camera. She wears her hair pulled back and is dressed in a dark, patterned blouse adorned with a simple beaded necklace. On the right, her words are presented in a clean, dark script against a white background: “There’s no joy more intense than coming upon a fact that cannot be understood in terms of currently accepted ideas,” attributed to “Cecilia Payne.” The overall composition captures the quiet brilliance and intellectual courage of a woman whose 1925 doctoral thesis was called “the most brilliant PhD thesis ever written in astronomy,” despite initially being rejected by the scientific establishment.

219162