iiinova — where your digital self keeps evolving

Reposted by Marten Chaillet

Lennart Pagani @lpagani.bsky.social · 07/10/2026

Check out our new preprint! We describe conformation-specific nanobodies that allow us to study Guanylate-binding proteins and target different stages of their assembly. We shed some new light on current models and hypotheses!

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Casper Berger @casperberger.bsky.social · 23/09/2026

We developed Adaptive Polishing for the consistent preparation of ~150 nm thin FIB-lamellae. This was done by using imaging feedback to adjust parameters for each lamella, or Adaptive Milling, rather than applying a fixed recipe. Preprint: doi.org/10.64898/202...

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Prof. Stefan Rahmstorf @rahmstorf.bsky.social · 19/09/2026

Sommer 2026: 16.000 Hitzetote 🥵 alleine in 🇩🇪. Dürre. Brände. 🤯 Die Bundesregierung subventioniert jetzt mit 2.500.000.000 € von unseren Steuergeldern die Ursache der Hitze: fossile Brennstoffe. Unfassbar. 🤯🤯🤯 Das meiste Geld landet dann wieder bei den Ölkonzernen, der Lobby gegen Klimaschutz.

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simon-alkema.bsky.social @simon-alkema.bsky.social · 17/09/2026

Releasing TOMATO, the TOMogram Annotation TOol! A lightweight Python GUI for going through hundreds of cryo-ET tomograms. Flag what's in each one, grade its quality, and end up with a table you can filter and act on. github.com/alkemasimon/...

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Andrew Dessler @andrewdessler.com · 14/09/2026

On The Climate Brink: The Atmosphere Just Set a Water Vapor Record. Aug. 2026 probably had more water vapor in the atmosphere than any month in the last few thousand years, if not a 100,000 years. www.theclimatebrink.com/p/the-atmosp...

theclimatebrink.com

The Atmosphere Just Set a Water Vapor Record

More water vapor means more rocket fuel for extreme rain — so this record is not good news

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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

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Arthur Oldeman @arthuroldeman.bsky.social · 14/09/2026

We gaan zeer waarschijnlijk de NLse klimaatdoelen niet halen en dat komt door politieke keuzes, zo stelt het PBL. De NLse doelen zijn eigenlijk al niet toereikbaar. Dus dit is een slechte ontwikkeling. www.pbl.nl/actueel/nieu...

pbl.nl

Grote kloof tussen ambitie en beleid richting 2040; emissiereductie 2030 stagneert

Nederland heeft een grote kloof te overbruggen om in 2040 in de buurt te komen van de Europese ambitie van 90 procent minder Europese broeikasgasemissie dan in 1990.

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Reposted by Marten Chaillet

Sergey Ovchinnikov @sokrypton.org · 14/09/2026

Finally a more intuitaive way to learn pLDDT/pAE? 😎 sokrypton.github.io/protein_figh... (Character idea from @hannes-stark.bsky.social & Alex Waldherr)

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David Ho @davidho.bsky.social · 12/09/2026

I resigned from ExxonMobil today. I spent the last three years doing fossil fuel extraction research at both BP and ExxonMobil. Neither company is acting responsibly. They are racing to maximize extraction while the window to act closes, and gambling with our lives. More below.

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Arthur Oldeman @arthuroldeman.bsky.social · 09/09/2026

In Europa zagen we een record hoeveelheid hittegolven deze zomer. En onze premier, die zogenaamd een klimaatdrammer zou zijn, gaat in diezelfde zomer op werkbezoek bij Shell. Vind jij dat ook verkeerd? Kom deze zaterdag naar de klimaatmars, in Amsterdam.

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Daniel Hurdiss @danielhurdiss.bsky.social · 09/09/2026

Our first #cryoEM map from the Krios 5 recently installed at Utrecht University as part of the EMPower-funded upgrades to NeCEN. Hopefully the first of many more!

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Arthur Oldeman @arthuroldeman.bsky.social · 31/08/2026

The Himalayas are melting. In the valley where a piece of glacier broke off on Wednesday, a quarter of the ice mass is already gone. We can - unfortunately - keep expecting devastating floods like in Nepal. Until the glaciers are gone. @klimaatveranda.bsky.social klimaatveranda.nl/2026/08/31/n...

klimaatveranda.nl

Nu overstromingen en later waterschaarste door smeltende gletsjers in de Himalaya

Een snel opwarmend klimaat en terugtrekkende gletsjers vergroten het risico op een gebeurtenis zoals die van afgelopen week in Nepal, ongeacht of we deze specifieke ramp uiteindelijk aan klimaatver…

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bioRxiv Molecular Biology @biorxiv-molbio.bsky.social · 28/08/2026

Imaging large fields-of-view at high resolution in cryo-ET with square beam montaging www.biorxiv.org/content/10.64898/20…

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Jeff Berardelli @weatherprof.bsky.social · 17/08/2026

Watch as the East Pacific Morphs into a Monster El Niño - the strongest ever observed! This shows how surface and subsurface temperatures have heated dramatically since (relative to) last fall. The heat travels there under the surface from an overheated West Pacific Warm Pool… 1/

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Kashish Singh @kashishsingh.bsky.social · 13/08/2026

Very happy to see the final version of our work on the structure and composition of cytoplasmic lattices in mouse embryos, previously shared on bioRxiv, now published in The EMBO Journal! Many thanks to our editor, Ieva Gailite, and the reviewers for their constructive input.

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c0nc0rdance @c0nc0rdance.bsky.social · 11/08/2026

The /largest/ animal in the oceans is the blue whale, but it may not be the LONGEST animal in the ocean. Colonial siphonophores like this feather boa siphonophore (Erenna richardi) can be 475 feet long (145 m), a slender wall of stinging death. Let's talk about them. (📷: MBARI, linked below)

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Marten Chaillet @martenchaillet.bsky.social · 12/08/2026

Congrats! Amazing work from Matthew

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Bronwyn Lucas @bronwynalucas.bsky.social · 12/08/2026

Now on Arxiv: arxiv.org/abs/2608.10029 Led by grad student Matthew Giammar and collaborator Alex Strang, we provide a fast algorithm to calculate a low rank approximation to large (>100 million row) matrices with high fidelity that will accelerate template matching.

arxiv.org

A fast diagonalization algorithm to enable singular value decomposition of large matrices for efficient template matching

Many computational problems possess the following three features: (1) the problem could be solved efficiently if a linear operator could be diagonalized, (2) direct diagonalization is infeasible due t...

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Reposted by Marten Chaillet

Jamie Blaza @jnb-lab.bsky.social · 10/08/2026

Permanent academic position as a Lecturer in cryo-ET open at York. We are looking for someone to lead a research program making the most of the stunning advances occurring in cryo-ET. It's a research and teaching post but with a focus on research in the early years. jobs.york.ac.uk/vacancy/lect...

jobs.york.ac.uk

Jobs - The University of York

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Marten Chaillet @martenchaillet.bsky.social · 10/08/2026

Could they at least not use a solar plant in Texas 🫠

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Ricardo D. Righetto @lifeonthewedge.bsky.social · 08/08/2026

And here we are, getting cooked to death.

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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 🧪

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Jack Ryan 🙏🧪 @jacksonwryan.com · 07/08/2026

🧪 A problem that seemed to have disappeared is still haunting new scientific papers. ...and why don't publishers just tell us the results of investigations into the weird stuff they let slip into the literature? nobreakthroughs.com/more-fishin/

nobreakthroughs.com

More Fishin'

A minor update on Latin fishies infiltrating the scientific literature.

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Reposted by Marten Chaillet

napari @napari.org · 31/07/2026

And it's a wrap! The hackathon was a fantastic success! 🥳 You can look forward to a longer post about all we did, and one of our biggest releases yet in 0.9.0! Huge thanks to all the participants 🤩, and we hope to see you at the next one!

Hackathon participants discussing a new feature demo.

Jules Vanaret shows off slicing of volumes with non-orthogonal transforms.

The naPLari hackathon crowd: Wouter-Michiel Vierdag, Grzegorz Bokota, Tim Monko, Giannis Liaskas, Draga Doncila Pop, Lorenzo Gaifas, Aroj Hada, Brian Northan, Jules Vanaret, Zuzana Čočková, Curtis Rueden, Juan Nunez-Iglesias, and Margot Chazotte.

Celebratory drink after the last full day of the hackathon. 🍻

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Reposted by Marten Chaillet

Laina Hall @lainahall.bsky.social · 25/07/2026

With Cryo-ET/EM, the macromolecules we study (and biological questions we ask) are SNR-limited. Here, we share Nilas, a low-voltage milling method named after thin sea ice. Nilas produces thin (sub 50 nm in places!), minimally damaged lamellae. biorxiv.org/content/10.64898/2026.07.21.739890v1

biorxiv.org

Optimized cryo-FIB milling strategy to generate thin, minimally damaged biological lamellae

Focused ion beam (FIB)-milling has been adapted to thin frozen cells for visualization of macromolecular structures in situ with cryogenic electron microscopy. However, only a few large and abundant c...

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Emil Gustavsson @emilgustavsson.bsky.social · 23/07/2026

Well, that's comforting...

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Hubrecht Institute @hubrechtinstitute.bsky.social · 23/07/2026

Are you excited to redefine our understanding of molecules, cells, tissues and organisms? Then we are looking for you! Applications for the Hubrecht International PhD program (HIPP) are now open and will be accepted until September 15th. Read more here 👉 www.hubrecht.eu/hipp/

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Arthur Oldeman @arthuroldeman.bsky.social · 23/07/2026

Het is niet alleen het gebrek aan regen, maar ook de intense verdamping door de extreme hitte die de droogte in Europa extra opzweept. ⤵️ www.theguardian.com/environment/...

theguardian.com

Climate crisis-driven heat ‘sucking soils dry’ as extreme drought hits Europe

Analysis shows how heatwaves are making atmosphere thirstier, damaging water supplies, food production and power generation

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Mihris Naduthodi @mihrisn.bsky.social · 22/07/2026

(1/16) Nearly two-thirds of ocean carbon fixation flows through a diverse organelle: the pyrenoid. Our new paper maps its 3D architecture in the alga Chlorella and identifies new proteins — expanding the toolkit to engineer this CO2-concentrating machine into crops🧵 #Pyrenoid #CCM #Photosynthesis

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Arjen Jakobi @cryotud.bsky.social · 20/07/2026

The LocScale 2.0 and SURFER papers are now both published in final form. LocScale 2.0: www.nature.com/articles/s41... SURFER: onlinelibrary.wiley.com/iucr/doi/10.... Led by @alok-bharadwaj.bsky.social with contributions of former MSc/Bsc students Reinier de Bruin and Lotte Veerbeek.

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Matti Pronker @mfpronker.bsky.social · 20/07/2026

We have a PhD position at Sanquin Research in Amsterdam involving protein engineering, de novo design and antibody development related to bleeding disorders. Please share this with anybody to whom this may be relevant! 🩸 🧬 🧪 🧫 www.sanquin.nl/en/working-a... www.linkedin.com/jobs/view/44...

linkedin.com

Sanquin hiring PhD Candidate: Antibody Therapy for Bleeding Disorders in Amsterdam, North Holland, Netherlands | LinkedIn

Posted 10:24:43 AM. The Division of Research and Lab Services of Sanquin is home to 250 researchers, including over 60…See this and similar jobs on LinkedIn.

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cryoEM papers @cryoempapers.bsky.social · 17/07/2026

Quinoa: Efficient and Robust CTF Estimation for CryoET Tilt Series www.biorxiv.org/content/10.64898/2026.07.15.738674v1 #cryoEM

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SAHASA 🐙🪸 @sculptedreef.com · 05/07/2026

Did you know octopuses are technically colorblind? 🌈 One photoreceptor, no color vision, should only see in grayscale. So how are they perfect color matching camouflage artists? 🐙 A thread 🧵 (with sources at the end, of course 😋) 🦑🐡

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Daniel Hurdiss @danielhurdiss.bsky.social · 02/07/2026

We are looking for an Assistant or Associate Professor to join us at the @utrechtvirology.bsky.social. Interested in building an independent research programme in a collaborative #virology environment? Please take a look and share with anyone who might be a good fit! www.uu.nl/en/organisat...

uu.nl

Assistant or Associate Professor in Virology

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Reposted by Marten Chaillet

Utz Ermel @uermel.bsky.social · 29/06/2026

I had a custom version of this and so far it seemed to work (N=4 Datasets, trained on 50% of the tilt series). Cool to see a native implementation!

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Marten Chaillet @martenchaillet.bsky.social · 29/06/2026

From v0.2.0 MissAlignment now has an inference mode where you can apply the trained models from one dataset to a new dataset to skip training time. I haven't tested it extensively, so double check if the results look decent 😉 The program calls changed slightly, see here: github.com/warpem/miss-...

github.com

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Katharina Geißler @kgeissler.bsky.social · 26/06/2026

What is the best way to distribute the electron dose across your tilt series in cryo ET? Thanks to Maarten Tuijtel, we finally know --> head over to eLife for the publication! doi.org/10.7554/eLif...

doi.org

Optimising the tilt-increment for in situ cryo-electron tomography

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Edward T Eng @edwardteng.bsky.social · 25/06/2026

What if learning structural biology felt more like playing a game? Meowtabolism aims to make the structural sciences more interactive, accessible & fun. If you have educational applications let Muyuan (or me) know. store.steampowered.com/app/4045010/... #CryoEM #ScienceOutreach #STEMEducation

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bioRxiv & medRxiv @biorxiv-medrxiv.bsky.social · 25/06/2026

Community Reviews are science in real time! Check out this new and recent example of open feedback in action: @cb99-lewis.bsky.social et al.’s preprint just got reviewed by a community-organized group through preLights! 📄 doi.org/10.64898/202... (@dbhella.bsky.social) #Preprints #openRxiv

Announcement of a new Community Review on bioRxiv (the preprint server for biology).
A screenshot of the preprint page for “Inhibition of VP2-mediated entry: a potential antiviral strategy to treat or prevent calicivirus disease" by Lewis et al. (doi:10.64898/2026.05.10.723473 ) showing the Community Reviews tab in the Reviews and Context dashboard. A link to a review from preLights is visible and highlighted with an arrow.
The footnote on the image says "bioRxiv and medRxiv are preprint servers of openRxiv."

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Nikolai Slavov @slavov-n.bsky.social · 24/06/2026

Since the 1960s, the genetic code has been used to predict protein sequences from DNA and mRNA sequences. Our @nature.com article demonstrates that these predictions miss thousands of protein sequences present in human tissues. www.nature.com/articles/s41... 1/

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Caitie McCafferty @computingcaitie.bsky.social · 22/06/2026

I will be hiring at all levels so if you are interested and want to learn more, please get in touch! 📻 ❄️ 🔬 🦠 🧬 #cilia #cryoet #proteomics #exm #protistsonsky

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Marten Chaillet @martenchaillet.bsky.social · 19/06/2026

"With these capabilities in place, the question has shifted from 'what do we see?' to 'what have we learned?'." Fully agree, very insightful review from @nanigrotjahn.bsky.social

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Ben Engel @cellarchlab.com · 18/06/2026

OK— so @phaips.vd.st & @florentwaltz.bsky.social have been testing extensively, and it's pretty clear that MissAlignment may be the best thing to happen to #TeamTomo in the last couple years. One issue: we have to re-process all our data again, hopefully for the last time 😅. Congrats and THANK YOU!!

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