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Casper Berger

@casperberger.bsky.social
72 followers 105 following 4 posts

Cryo-ET & (plasma) FIB lamella milling. Senior Application Expert @ The Rosalind Franklin Institute

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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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Bronwyn Lucas @bronwynalucas.bsky.social · 25/07/2026
New preprint from the lab! Led by graduate student @lainahall.bsky.social we show a new method to thin cells for cryo-EM imaging with minimal damage. www.biorxiv.org/content/10.6...
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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The Rosalind Franklin Institute @rosfrankinst.bsky.social · 22/07/2026
Applications are open for the final UK Home candidate place in our 2026–2027 PhD cohort. Join our fully funded interdisciplinary PhD programme and help develop new technologies for the life sciences. Learn more and apply: www.rfi.ac.uk/careers-stud... 📅 Deadline: 14th August
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Biohub @biohub.org · 16/06/2026
Cryo-ET gives unparalleled views of cellular structures, but targeted sample preparation by cryo-FIB milling has been a constraint. No longer! A new workflow yields close to 100% targeting success for centrioles & other small structures. Read the preprint ⤵️ www.biorxiv.org/content/10.6...
Diagram of FIB-SEM with integrated fluorescence microscope alongside cryo lamella micrograph and 3D segmentation highlighting targeted centrioles
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Diepold Lab @diepold-lab.bsky.social · 12/06/2026
Exciting PhD position available in the Diepold lab @kit.edu ! We're especially interested in international students with expertise in molecular biology and ready to lead a cutting-edge research project in molecular machines and infection biology. Find out more at diepoldlab.com.
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Allegretti Lab @matteoall.bsky.social · 27/05/2026
We're happy to announce our new preprint! 🐸 easymode: general pretrained networks for cellular cryo-ET. Segment ~20 cellular features – ribosomes, microtubules, mitochondria, nuclei & more – with zero model training. 🔗 doi.org/10.64898/202... 🧵👇
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Tanmay Bharat @tbharat-lab.bsky.social · 25/05/2026
Sub-cellular chemical mapping using correlated cryogenic electron and mass spectrometry imaging online @natmethods.nature.com, led by Hannah Ochner, collaboration with @catfranco.bsky.social and @kiranrpatil.bsky.social labs doi.org/10.1038/s415...
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Marten Chaillet @martenchaillet.bsky.social · 03/05/2026
MissAlignment is out!!! Our new software that improves reference-free tilt series alignment by mimicking human intuition. Check out Dimitry's beautiful thread for a quick summary! And the preprint for more details: www.biorxiv.org/content/10.6... The program: github.com/warpem/miss-...
biorxiv.org
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Helena Watson @helenawatson.bsky.social · 25/04/2026
Preprint 🧵! I’m really excited to introduce BIGSMALL, an interleaved multi-magnification cryo-ET scheme bridging molecular and cellular scales in a single acquisition! BIGSMALL = 𝐁road 𝐈nformation 𝐆athering 𝐒trategy by 𝐌ultiscale 𝐀cquisition of lame𝐋𝐋a www.biorxiv.org/content/10.6... (1/6)
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The Rosalind Franklin Institute @rosfrankinst.bsky.social · 22/04/2026
📢 We’re hiring a Research Software Engineer Work at the intersection of AI, data science, and life sciences—developing software, supporting research teams, and building HPC/cloud infrastructure. Join a collaborative team driving scientific innovation. Apply: opportunities.rfi.ac.uk/vacancy/rese...
Person working on a laptop with code and graphs on screens, with “We’re Hiring – Research Software Engineer” text on a pink and grey background
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Caitie McCafferty @computingcaitie.bsky.social · 08/04/2026
I am excited to share our most recent work collaborating with @centriolelab.bsky.social and @stearnslab.bsky.social to look at the ciliary base of mammalian multiciliated cells w/ cryo-ET, XL/MS, and U-ExM www.biorxiv.org/content/10.6...
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Daniel Hurdiss @danielhurdiss.bsky.social · 27/03/2026
The newly established NeCEN Utrecht is looking for a #cryoEM scientist! www.uu.nl/en/organisat... Work with a new Krios 5 + pFIB and support cutting-edge life science research. 📍 Utrecht | 🗓 Apply by 30 April Please share with your network!
uu.nl
Cryo-electron microscopy scientist
Join our team to contribute to the operation and innovation of state-of-the-art cryo-electron microscopes and empower groundbreaking research.
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Image Cooperative @image.coop · 16/03/2026
Hello, world! We are starting a worker cooperative to build, maintain, teach, and support open source scientific imaging software. image.coop/blog/posts/2...
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Yamuna Krishnan @krishnanyamuna.bsky.social · 17/12/2025
Organelles do NOT have a single uniform pH. And if you think they must, because “protons diffuse fast,” this paper is for you. A thread on why that assumption is wrong; and what we found instead. 🧵 1/n
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James Briscoe @jamesbriscoe.bsky.social · 05/12/2025
BBC News - Top UK scientist says research visa restrictions endanger economy www.bbc.com/news/article...
bbc.com
Top UK scientist says research visa restrictions endanger economy
Prof Sir Paul Nurse says the UK is "shooting itself in the foot" with its visa system for researchers.
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The Rosalind Franklin Institute @rosfrankinst.bsky.social · 02/12/2025
📢 We are on the lookout for Research Associates to support our Multidimensional Imaging Team across several cutting-edge projects in the following areas: • Electron ptychography • Liquid phase electron microscopy • Electron spectroscopy and diffraction Find out more: tinyurl.com/4ce5t7sm
Laboratory setting with gloved hands preparing a sample for loading in a microscope and computer screens displaying imaging data. Text on the right reads ‘WE’RE HIRING’ in bold white letters on a pink background, followed by ‘Research Associates’ and a row of white chevrons pointing right. The Rosalind Franklin Institute logo appears at the top.
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Rémi Fronzes @fronzeslab.bsky.social · 21/11/2025
Our latest T7SS study is now out in Science Advances! We solved the cryoEM structure of the T7SSb core unit (T7bCU) composed of YukB, YukC, and YukD from Bacillus subtilis, revealing how these components assemble within the secretion machinery. www.science.org/doi/10.1126/...
science.org
A ubiquitin-like protein controls assembly of a bacterial type VIIb secretion system
Cryo-EM structure reveals how a ubiquitin-like protein orchestrates assembly of a bacterial weapon system.
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Diepold Lab @diepold-lab.bsky.social · 12/11/2025
What if even the core of bacterial nanomachines wasn’t static? We found that the T3SS core protein SctD in Yersinia dynamically exchanges subunits — and this flexibility is essential for proper assembly & function. 🔗 www.nature.com/articles/s41... @kit.edu @t3sss.bsky.social
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Friedrich Förster @fridof.bsky.social · 04/11/2025
Very happy that NWO supports this major upgrade of our national EM infrastructure. It is great that this initiative got broad support all over NL, and it will EMPower fantastic science - looking forward to that! www.uu.nl/en/news/33-m...
uu.nl
33 million euro investment for national electron microscope facility EMPower
A major new national facility for electron microscopy, called EMPower, has been awarded to a consortium of Dutch universities and medical centers. EMPower aims to pave the way for major discoveries im...
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Guenter Resch @nexperion.net · 23/09/2025
Happy to announce "Technical Innovations Using #SerialEM: A Community Meeting", a new format of hybrid meeting David Mastronarde and I are organizing in April 2026. For more info, a preliminary list of speakers, pre-registration etc. visit www.nexperion.net/semcm2026
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Dr Alessio Veneziano @aveneziano.bsky.social · 24/08/2025
Political choices have direct effects on #science 🧪 and a cascading impact on society, health, economy, etc. Many are still convinced that science should be apolitical........
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Max Planck Institute of Biophysics @mpibp.bsky.social · 25/07/2025
In their new study, Beata Turoňová and Tomáš Majtner trained 13 neural networks to automatically detect and remove those corrupted frames, speeding up processing and saving time for tomographers 🥳
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Michael Grange @michaelgrange.bsky.social · 21/07/2025
And here it is now in print! www.cell.com/cell-reports... With a front cover splash 😍
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Michael Grange @michaelgrange.bsky.social · 17/06/2025
Proud to share our latest paper. doi.org/10.1016/j.cr... Through the dedication of @glynnca.bsky.social and @cryingem.bsky.social we report a thorough method to image molecular organisation within hippocampus tissue. Structural biology in tissue is well and truly here! @rosfrankinst.bsky.social
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Arjen Jakobi @cryotud.bsky.social · 22/05/2025
We are happy to release LocScale2.0: a tool for context-aware, confidence-weighted cryoEM map optimisation. Taking two half maps as input, LcoScale-2.0 produces feature-enhanced maps along with a robust confidence score that guides objective map interpretation. cryotud.github.io/locscale/
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Ben Engel @cellarchlab.com · 07/05/2025
“The Website” is here! It can be intimidating getting into analysis of #CryoET data, and software is evolving all the time👩‍💻🚀. @phaips.vd.st & @florentwaltz.bsky.social put our lab’s workflows into an online guide. We hope this helps lower the bar to joining #TeamTomo. Feedback much appreciated! 🧪🧶🧬🔬
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Rita Strack @ritastrack.bsky.social · 02/05/2025
Another super paper came out this week from Amit Kohli and Laura Waller on Ring deconvolution microscopy. This one is fairly technical, but essentially it's a computational approach that lets you do deconvolution when there is a spatially varying PSF. www.nature.com/articles/s41...
nature.com
Ring deconvolution microscopy: exploiting symmetry for efficient spatially varying aberration correction - Nature Methods
Ring deconvolution microscopy leverages symmetry to provide fast and straightforward spatially varying deblurring and offers improved speed and image quality compared to standard approaches across div...
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Martin Walsh @walshdls.bsky.social · 24/04/2025
Maud Dumoux from RFI tune in on zoom to find out more now! @ccpem.bsky.social @diamondlightsource.bsky.social
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MRC Laboratory of Molecular Biology @mrclmb.ac.uk · 23/04/2025
A colder frontier in cryo-EM 🧪🔬 Chris Russo’s group, inc. Joshua Dickerson, adapted #cryoEM to work at liquid helium temperatures (13 kelvins), where every frame captured contains more information than the equivalent using liquid nitrogen (81 kelvins). Read more: tinyurl.com/mwwcunkc #LMBResearch
The electron cryo-microscope adapted for use at liquid nitrogen temperatures within its custom-made black box.
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BK. Titanji @boghuma.bsky.social · 02/04/2025
Very compelling study showing the association between herpes zoster vaccination and dementia prevention. The authors leveraged a unique cohort for this natural experiment which shows a reduction in dementia risk of 20% in vaccinated individuals. #MedSky #IDSky 🧪 www.nature.com/articles/s41...
nature.com
A natural experiment on the effect of herpes zoster vaccination on dementia - Nature
Using a natural experiment that avoids common bias concerns, this study finds that the live-attenuated shingles vaccine reduced the probability of a new dementia diagnosis within a follow-up period of...
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the Node @the-node.bsky.social · 27/03/2025
📸 Nadisha Gamage @rosfrankinst.bsky.social took a photo with the Node's polaroid frame during the poster session yesterday #biologists100 The key words of her research are #nucleosomes #cryoEM #stemcells #chromatin #FIBSEM
Nadisha Gamage posing with the Node's polaroid frame in front of her poster. The text on the frame reads: "Nadisha Gamage #nucleosomes #cryoelectronmicroscopy #stemcells #chromatin #fibsem"
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Science Magazine @science.org · 20/03/2025
In a new Science study, cryo–electron tomography captures the in-cell architecture of the mitochondrial respiratory chain, illuminating how the coordinated action of molecular machines drives life’s fundamental energy conversion. Learn more in this week's issue: scim.ag/3FA3Ygq
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bioRxivpreprint @biorxivpreprint.bsky.social · 15/03/2025
Automated Removal of Corrupted Tilts in Cryo-Electron Tomography www.biorxiv.org/content/10.1101/202…
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cryoEM papers @cryoempapers.bsky.social · 14/03/2025
AreTomoLive: Automated reconstruction of comprehensively-corrected and denoised cryo-electron tomograms in real-time and at high throughput www.biorxiv.org/content/10.1101/2025.03.11.642690v1 #cryoEM
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The Rosalind Franklin Institute @rosfrankinst.bsky.social · 07/03/2025
Published in @naturecomms.bsky.social, Franklin researchers describe a high-throughput methodology for cryo focused ion beam lamella preparation. This technique enabled a high-resolution structure (4.0 Å) of an E. coli ribosome using sub volume averaging. Read the full article here: zurl.co/WhpcB
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The Rosalind Franklin Institute @rosfrankinst.bsky.social · 06/03/2025
Dr Liang Wu and his team investigate the function of enzymes in heparan sulfate production – long, complex chains of sugar molecules found in every cell of the body. In this latest science update, Liang reflects on how new imaging techniques are helping in this area. Read more here - zurl.co/aB4ks
zurl.co
Uncovering the hidden lives of complex sugars with cutting-edge imaging - Rosalind Franklin Institute
Dr Liang Wu is a Wellcome Trust Sir Henry Dale Fellow at the Rosalind Franklin Institute. Since joining the Franklin in 2020, Dr Wu’s team has been investigating the role and function of enzymes in th...
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Michael Grange @michaelgrange.bsky.social · 07/03/2025
Check out our paper on Xenon milling of HPF samples, now online @naturecomms.bsky.social rdcu.be/eczIb
rdcu.be
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cryoEM papers @cryoempapers.bsky.social · 16/02/2025
In situ and in vitro cryo-EM reveal structures of mycobacterial encapsulin assembly intermediates pubmed.ncbi.nlm.nih.gov/39955411/ #cryoEM
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