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Josiah Passmore

@jpassmore.bsky.social
411 followers 598 following 25 posts

Making cells run in circles, and gels with squares in them. Automated optogenetics, Smart microsopy, Expansion microscopy, GelMap. Postdoc @ Utrecht University | visualise.bio.

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Reposted by Josiah Passmore
Anh Hoang Le, PhD 🏳️‍🌈🏴󠁧󠁢󠁳󠁣󠁴󠁿🇻🇳 @anhhle2702.bsky.social · 07/09/2026
Very happy to share my postdoc paper is out now in @natcellbio.nature.com titled "Tissue flow acts as a guidance cue for immune cell polarization and directional migration". If you love imaging and immune cells, this is for you! #microscopymonday www.nature.com/articles/s41... A 🧵: 1/n
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Reposted by Josiah Passmore
Lucien Hinderling @lhinderling.bsky.social · 07/09/2026
fiber immersion 3D printing, based on the open micro-manipulator project www.youtube.com/watch?v=UvV2...
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Reposted by Josiah Passmore
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/🧵
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jared toettcher @toettch.bsky.social · 24/07/2026
New Toettchlab paper alert! Harrison Oatman just published his beautiful work combining software design for "smart" microscopy+optogenetics and some really beautiful work understanding EGFR-driven collective cell migration. www.cell.com/cell-systems...
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Reposted by Josiah Passmore
Will Scott @wsctt.bsky.social · 24/07/2026
Recently we were trying to change the colour of superfolder GFP and accidentally engineered a great probe for expansion microscopy! Read about it in our first micropublication - lnkd.in/eCxYcCJZ
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Reese Richardson @reeserichardson.bsky.social · 05/06/2026
The Thermo Fisher situation keeps getting worse. We've now collected 450+ problematic images presented as verification data in TF's antibody catalog. This includes: 🖌️ Dozens more images with duplications or painting 🖨️ Hundreds of blots that all share the same background (behold slideshow below)
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Reese Richardson @reeserichardson.bsky.social · 28/05/2026
TL;DR: We've identified more than 100 cases of apparent manipulation in Thermo Fisher Scientific's antibody verification data. @sholtodavid.bsky.social @johanduchene.bsky.social reeserichardson.blog/2026/05/28/h...
reeserichardson.blog
How much of Thermo Fisher’s antibody data has been manipulated?
We’ve documented more than 100 instances of apparent data manipulation in Thermo’s catalog
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Reposted by Josiah Passmore
Journal of Cell Biology @jcb.org · 26/05/2026
Saishree S. Iyer and Anna Akhmanova @utrechtuniversity.bsky.social review the mechanisms controlling plus-end elongation of centriolar and ciliary #microtubules, revealing shared principles. rupress.org/jcb/article/... #Centrioles #Cilia #Cytoskeleton
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Nature Methods @natmethods.nature.com · 22/05/2026
MOSAIC: a versatile multimodal microscopy that seamlessly transitions between light-sheet, 2-photon, label-free and super-resolution modalities. @supgokul.bsky.social www.nature.com/articles/s41...
nature.com
A multimodal adaptive optical microscope for in vivo imaging from molecules to organisms - Nature Methods
MOSAIC is a versatile multimodal microscope that allows seamless transition between various light-sheet, two-photon, label-free and super-resolution modalities. It is demonstrated in various systems r...
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Reposted by Josiah Passmore
Luke Lavis @rhodamine110.bsky.social · 15/04/2026
Out in @natmethods.nature.com: More dyes. They work. Quite well. And blink. Pick the one that fits your target, your technique, and your labeling density. With too many collaborators and institutes to list, but anchored at @hhmijanelia.bsky.social www.nature.com/articles/s41...
nature.com
A series of spontaneously blinking dyes for super-resolution microscopy - Nature Methods
A series of spontaneously blinking dyes in the far-red range facilitate single-molecule localization microscopy. These dyes vary in their blinking properties and can be matched to the applications and...
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clementhelsens.bsky.social @clementhelsens.bsky.social · 11/04/2026
We tracked a zebrafish tail tip for 30h of light-sheet imaging. It didn’t exist at t=0. LiLiTTool: CoTracker3 + object detection → real-time microscope steering. 3D, multi-ROI, open source. www.biorxiv.org/content/10.6... #bioimaging #lightsheet thanks @jytinevez.bsky.social
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Visualise.bio @visualise.bio · 24/03/2026
How is expansion microscopy pushing beyond the original ~4× expansion limit, to unlock new ways to visualise biological structure at increasingly fine detail? Check out our review article "𝐁𝐞𝐲𝐨𝐧𝐝 𝟰×: 𝐩𝐚𝐭𝐡𝐰𝐚𝐲𝐬 𝐭𝐨 𝐡𝐢𝐠𝐡𝐞𝐫 𝐞𝐱𝐩𝐚𝐧𝐬𝐢𝐨𝐧 𝐟𝐚𝐜𝐭𝐨𝐫𝐬 𝐢𝐧 𝐞𝐱𝐩𝐚𝐧𝐬𝐢𝐨𝐧 𝐦𝐢𝐜𝐫𝐨𝐬𝐜𝐨𝐩𝐲" www.degruyterbrill.com/document/doi...
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Reposted by Josiah Passmore
Joyce Meiring @joycemeiri.bsky.social · 09/03/2026
I collaborated with Peter Friedl's team, @jpassmore.bsky.social and @ekatrukha.bsky.social to make this short video on cancer cell invasion. Check it out! youtu.be/EH4vgUfr1jI?...
youtu.be
Invasion and Metastasis - How cancer cells become invasive
YouTube video by IMAGINE! microscopy
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Reposted by Josiah Passmore
Journal of Cell Science @jcellsci.bsky.social · 29/01/2026
JCS snapshot - Tracking coordinated cellular dynamics in time-lapse microscopy with ARCOS.px @macdobry.bsky.social presents the key findings from their recent JCS paper with @bgraedel.bsky.social and colleagues @olivierpertz.bsky.social. journals.biologists.com/jcs/article/...
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Guillaume Jacquemet @guijacquemet.bsky.social · 15/01/2026
🚨 Job Alert! 🚨 We have an opening at our Microscopy Core Facility in Turku 🇫🇮. If you love imaging 🔬 and helping scientists succeed, we want you! 👇 abo.rekrytointi.com/paikat/index... #Microscopy #ScienceJobs #CoreFacility #Imaging @turkubioscience.bsky.social
abo.rekrytointi.com
Laboratory Engineer (Senior), in Advanced Imaging, 1.5.2026-31.12.2028
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Lucien Hinderling @lhinderling.bsky.social · 07/01/2026
Won best thesis award with this video! 4 years of research and play in 3 minutes :') youtu.be/so0fPlK1-LM
youtu.be
Smart microscopy, computer vision, and controlling cells with light -- my PhD thesis in 3 minutes
YouTube video by Pertz Lab
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Olivier Pertz @olivierpertz.bsky.social · 21/12/2025
🔬📊 PhD (100%) – Statistics & ML for self-driving microscopy Joint PhD with David Ginsbourger (Stats) & Pertz Lab (Cell Biology). Gaussian Processes, Bayesian design, active learning on live-cell experiments. ohws.prospective.ch/public/v1/jo... #PhD #Statistics #MachineLearning #Bayesian
ohws.prospective.ch
Uni Bern: PhD Position in Statistics with a focus on Statistical Machine Learning for Self-Driving Microscopy
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epithelial mechanics fan club @epimechfc.bsky.social · 14/12/2025
Cells can sense the geometry of their environment, from tiny subcellular features to whole-tissue patterns. How can we engineer environments to systematically probe these responses? 🧵 I'm @lhinderling.bsky.social from @olivierpertz.bsky.social lab, let’s do a short tour on microfabrication!
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Paul & Virginie - Centriole Lab @centriolelab.bsky.social · 10/12/2025
We’re excited to announce the opening of the Geneva Expansion Microscopy Facility (GenExM)! GenExM is a full-service U-ExM platform (U-ExM, Cryo-ExM, iU-ExM), delivering nanoscale imaging. Led by Dr. Olivier Mercey, GenExM welcomes academic & industrial collaborations. 👉 www.unige.ch/genexm/
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Eugene Katrukha 🇺🇦 @ekatrukha.bsky.social · 21/11/2025
Finally, the first public release of #BigVolumeBrowser, so after teasers, you can try it yourself. For details, please check the announcement post (1/2) forum.image.sc/t/bigvolumeb...
forum.image.sc
BigVolumeBrowser: a new 3D multi volume/mesh/point clould (SMLM) data viewer
Hello everyone, I’d like to share with you another 3D viewer for FIJI, BigVolumeBrowser (full documentation link). It‘s a first initial public release, so there is still space for improvements. Le...
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Omaya Dudin 𓂆 ¦🍉¦🦠¦🔬¦ @dudinlab.bsky.social · 31/10/2025
🚨Our collaboration with @centriolelab.bsky.social & @gautamdey.bsky.social is out today in @cp-cell.bsky.social We show that #Expansion #Microscopy is a broad-spectrum modality for Euks, enabling 3D phenotypic maps rooted to phylogeny. #ProtistsOnSky #SciComm #SciSky www.cell.com/cell/fulltex...
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Andrew Payne @andrewcpayne.bsky.social · 01/10/2025
E11 Bio is excited to unveil PRISM technology for mapping brain wiring with simple light microscopes. Today, brain mapping in humans and other mammals is bottlenecked by accurate neuron tracing. PRISM uses molecular ID codes and AI to help neurons trace themselves. Read more: e11.bio/blog/prism
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Nadja M. Hümpfer @nadjahuempf.bsky.social · 28/09/2025
Now out on bioRxiv. 🥳My research on #cytokinesis, averaging thousands of #ExM images🔬, creating a dynamic atlas of cytokinesis 🦠⏳. Here's an animated sneak peek of what we found. Better resolution on bioRxiv😄 #PSFoftheGIF
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Eugene Katrukha 🇺🇦 @ekatrukha.bsky.social · 05/09/2025
Our new preprint is about the airway epithelium microtubule network, cilia, basal body protein composition, averaging of volumetric fluorescence data, and expansion microscopy. Four years of very hard work from our very talented Emma van Grinsven. www.biorxiv.org/content/10.1... (1/N)
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Jonatan Alvelid @jonatanalvelid.bsky.social · 02/09/2025
Excited to share my postdoc work from the Eggeling lab in Jena (@leibnizipht.bsky.social, #FSUJena, #KTHuniversity) on bringing smart microscopy to super-resolution MINFLUX: event-triggered MINFLUX microscopy.
Demonstrative schematics and example timeline of event-triggered MINFLUX microscopy.
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epithelial mechanics fan club @epimechfc.bsky.social · 23/08/2025
Collective cell motion has many forms, but rotation is the coolest of them all. I'm @onenimesa.bsky.social , and in this short🧵, I'll highlight some instances of global tissue rotation like this one from @BauschLab
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Lucien Hinderling @lhinderling.bsky.social · 21/08/2025
Automated optogenetic control of hundreds of cells in parallel. Each cell is individually steered, collectively acting as a "tissue printer". Preprint & code out! www.biorxiv.org/content/10.1...
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Malte Kuehl @maltekuehl.com · 18/07/2025
🚨Scaling multiplexed imaging 📈 We are excited to share Pathology-oriented multiPlexing (PathoPlex). Now out in @nature.com: www.nature.com/articles/s41... 🧵Walk-through thread below ⬇️
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Jenna Elliott @jennaelliott.bsky.social · 18/06/2025
9/ The observed patterns matched our model, and their parameters place these systems near the predicted optimal filtering regime -- These NPCs may act as efficient spatial thresholding filters! #Microscopy #QuantBio #Microtubules #UExM
Expansion microscopy image, and accompanying sketch, of S. arctica nucleus with labelled microtubules and nuclear pore complexes.
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HMS Image Analysis Collaboratory @hms-iac.bsky.social · 06/06/2025
🎀✨Recording now available ✨🎀 youtu.be/jtDunWK8g1o?...
youtu.be
Talley Lambert (PhD): Simulating realistic light microscopy images using microsim
YouTube video by IAC HMS
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Aafke Gros @aafkegros.bsky.social · 23/05/2025
In the context of our @reviewcommons.org revision process, I'm happy to announce Microscopy Nodes v2.2.0! This packs lots of new fun features, including new color management 🌈, clearer transparency handling 🫥, custom default settings 🔧 and more! Preprint at doi.org/10.1101/2025...
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Blake Hernandez @loxstoplox.bsky.social · 23/05/2025
I’m excited to announce that my paper describing non-canonical mitotic mechanisms in the early mouse embryo is out in @science.org ! (link at end of 🧵)
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voigtvision.bsky.social @voigtvision.bsky.social · 08/05/2025
Thanks to expansion microscopy, clever labeling, and modern segmentation approaches, doing connectomics with #light #microscopy has become feasible - huge congratulations Mojtaba & the Danzl lab at @istaresearch.bsky.social ! www.nature.com/articles/s41...
nature.com
Light-microscopy-based connectomic reconstruction of mammalian brain tissue - Nature
A technique called LICONN (light-microscopy-based connectomics) allows mapping of brain tissue at synapse level and simultaneous measurement of molecular information, thus enabling quantification of c...
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Shane Herbert @shaneherbert.bsky.social · 06/05/2025
My first post on Bluesky! Very excited to share our work just published in @science.org. We find that “Interphase cell morphology defines the mode, symmetry, and outcome of mitosis” - in angiogenesis and other tissues! www.science.org/doi/abs/10.1... www.science.org/doi/abs/10.1...
science.org
Interphase cell morphology defines the mode, symmetry, and outcome of mitosis
During tissue formation, dynamic cell shape changes drive morphogenesis while asymmetric divisions create cellular diversity. We found that the shifts in cell morphology that shape tissues could conco...
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Jupiter Algorta @jupiteralgorta.bsky.social · 06/05/2025
If you're curious about how cells make decisions in complex environments, and how mathematical models can capture such behaviour, our preprint is now live! Check it out here: www.biorxiv.org/content/10.1...
biorxiv.org
Investigating Local Negative Feedback of Rac Activity by Mathematical Models and Cell Motility Simulations
For polarization and directed migration, cells use a combination of local positive feedback and long-range inhibition. We have previously used mathematical models to show the ability of this core…
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Marius Pachitariu @marius10p.bsky.social · 03/05/2025
🚀🔬🦠 Releasing 🤖Cellpose-SAM🤖, a cellular segmentation algorithm with superhuman generalization 🦸‍♀️. Try it now on 🤗 huggingface.co/spaces/mouse... paper: www.biorxiv.org/content/10.1... w/ @computingnature.bsky.social 1/n
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Erwin Frey @physicsoflifelmu.bsky.social · 31/03/2025
We may not have really squared the circle — but we came close! 😉 In our @NaturePhysics paper w/ @fakhrilab.bsky.social, light-triggered membrane excitability enables programmable shapes — a step toward engineering living matter. 🔗 www.nature.com/articles/s41... #biophysics #syntheticcell #softmatter
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epithelial mechanics fan club @epimechfc.bsky.social · 20/04/2025
1/14 “Epithelial” & “Mesenchymal” aren’t binary categories—they form a spectrum, or better yet, a multidimensional space. This becomes especially clear in collective cell migration, which often depends on a finely tuned degree of “mesenchymal-ness”. #cellbio #devbio #cellmigration
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Andy Moore @aaandmoore.bsky.social · 22/04/2025
Happy to officially introduce FilaBuster - a strategy for rapid, light-mediated intermediate filament disassembly. Compatible with multiple IF types, modular in design, and precise enough to induce localized filament disassembly in live cells. www.biorxiv.org/content/10.1...
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Suliana Manley @sulianamanley.bsky.social · 06/04/2025
Our latest preprint www.biorxiv.org/content/10.1..., describes Willi Stepp’s project to make smart microscopy even gentler by doing event detection in phase contrast. We developed neural networks to detect mito-LD and mito-lysosome contacts, as well as mitochondrial pre-fission constrictions.
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Josiah Passmore @jpassmore.bsky.social · 28/03/2025
An MRC5 cell labelled for microtubules and actin. #FluorescenceFriday
Fluorescence microscopy of an MRC5 cell highlighting the microtubule and actin cytoskeleton. Stained with:
🔵 DAPI – Nucleus (blue)
🟠 Tyrosinated tubulin – Dynamic microtubules (orange)
🔷 Acetylated tubulin – Stable microtubules (cyan)
⚪ Phalloidin – Actin filaments (grey)
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Josiah Passmore @jpassmore.bsky.social · 24/03/2025
Join the biocontrol seminar tomorrow to hear about the fun things we are doing with controlling cells!
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Malina Iwanski @mkiwanski.bsky.social · 09/02/2025
My main PhD paper is on bioRxiv! 🥳 We used motor-PAINT, expansion microscopy, and live-cell imaging of StableMARK to map out how the microtubule cytoskeleton reorganizes during neuronal development. www.biorxiv.org/content/10.1...
biorxiv.org
Polarity reversal of stable microtubules during neuronal development
Neurons critically depend on long-distance transport orchestrated by motor proteins walking over their highly asymmetric microtubule cytoskeleton. These microtubules are organized uniformly in axons w...
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Ryota IINO 飯野亮太 @ryotaiino.bsky.social · 01/02/2025
On-Demand Photoactivation of DNA-Based Motor Motion pubs.acs.org/doi/10.1021/...
pubs.acs.org
On-Demand Photoactivation of DNA-Based Motor Motion
A major challenge in the field of synthetic motors relates to mimicking the precise, on-demand motion of biological motor proteins, which mediates processes such as cargo transport, cell locomotion, and cell division. To address this challenge, we developed a system to control the motion of DNA-based synthetic motors using light. DNA motors are composed of a central chassis particle modified with DNA “legs” that hybridize to RNA “fuel”, and move upon enzymatic consumption of RNA. We first concealed RNA fuel sites using photocleavable oligonucleotides that block DNA leg binding. Upon UV activation, the RNA blocking strands dissociate, exposing the RNA fuel and initiating active, directional motion. We also created a “brake” system using photocleavable DNA stalling strands, anchoring the motors until UV light removes the “brake” while simultaneously “fueling” the motors, initiating spatiotemporally controlled stop → go motion. Additionally, we modified the “brake” system to activate the motors via a chemical input, while an optical input is required to fuel the motors. This dual-input approach, functioning as an “AND” gate, demonstrates the potential for DNA motors to perform light-triggered computational tasks. Our work provides a proof of concept for enhancing the complexity and functionality of synthetic motors.
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Aafke Gros @aafkegros.bsky.social · 30/01/2025
Now out in PLOS CB: Spherical Texture extraction! doi.org/10.1371/jour... This method quantifies the intensity distribution in microscopy objects, and is implemented parameter-free in @ilastik-team.bsky.social object classification! We show applications in cells, C. elegans and Drosophila! 😁
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Aafke Gros @aafkegros.bsky.social · 15/01/2025
Microscopy Nodes is now up on bioRxiv! 🚀 This is a Blender extension that seamlessly integrates and visualizes 3D microscopy data (TIF & @zarr.dev). High-quality volume rendering for anyone, in both EM and fluorescence, regardless of computational expertise! 🔬 www.biorxiv.org/content/10.1...
FIB-SEM dataset visualized with Microscopy Nodes, data from Mocaer et al 2023
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Zach Marin @zacsimile.bsky.social · 24/12/2024
Incredible new work from Yongdeng Zhang demonstrating live 4Pi SIM--and in two colors! www.nature.com/articles/s41...
nature.com
Elucidating subcellular architecture and dynamics at isotropic 100-nm resolution with 4Pi-SIM - Nature Methods
The 4Pi-SIM microscope combines the benefits of structured illumination microscopy with 4Pi geometry for improved axial resolution, offering isotropic, multicolor super-resolution imaging of dynamic p...
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Wallace Marshall @wallaceucsf.bsky.social · 23/12/2024
Mitochondria consist of networks of cylindrical tubes, right? Not necessarily! - in our new preprint, @gavsturm.bsky.social investigates how mitochondria transiently adopt a beads-on-a-string morphology www.biorxiv.org/content/10.1...
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Omaya Dudin 𓂆 ¦🍉¦🦠¦🔬¦ @dudinlab.bsky.social · 18/12/2024
🍾Our small #UExM adventure is only starting! #ProtistsOnSky We are happy to announce that the Moore Foundation will be funding our efforts in creating an Expansion Microscopy atlas of #Microbial #Eukaryotes with @gautamdey.bsky.social @UNIGE @embl.org LINK: www.unige.ch/sciences/chi... 1/4
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Andy Moore @aaandmoore.bsky.social · 18/12/2024
Really bummed to have missed ASCB this year due to some last-minute circumstances, but excited that our manuscript describing an IF disassembly tool will (hopefully) be posted soon. Here's a movie of vimentin color-coded by orientation.
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