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Valentin Dunsing-Eichenauer

@dunsingvalentin.bsky.social
559 followers 620 following 41 posts

HFSP Postdoc @Charité Berlin @Hocke Lab, Microscopy Facility Lead @Si-M. Previous postdoc @Equipe_lenne @IBDMmarseille. PhD @schiantia lab @unipotsdam. Physics @humboldtuni. Into quantitative microscopy, organoids & embryos (from molecules to morphologies)

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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 26/09/2026
Good luck! And sure, feel free to reach out! Great#!
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 26/09/2026
Thank you Pleasantine! Yes, sure. The movie was acquired on a Zeiss Lattice Light-sheet system. Cilia were stained with SiR-tubulin. Imaging was performed in a single 2D cross-section with very short camera exposure time (2ms). The sample is a 7w ALI culture from primary patient-derived lung cells.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 25/09/2026
#FluorescenceFriday: Given the recently grown interest in ciliary beating, here is a movie of beating cilia in a human airway model that I captured last week with lattice light-sheet microscopy. No AI „processing“, this is the raw data! Frame rate is ca. 170fps, displayed here at 25fps.
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Reposted by Valentin Dunsing-Eichenauer
eLife @elife.bsky.social · 02/07/2026
A quantitative pipeline for whole-mount deep imaging and analysis of multi-layered organoids across scales elifesciences.org/articles/107...
elifesciences.org
A quantitative pipeline for whole-mount deep imaging and analysis of multi-layered organoids across scales
The Tapenade pipeline enables single-cell, whole-mount 3D quantification in dense multilayer organoids, linking spatial gene co-expression and nuclear deformation to emerging tissue-scale…
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 06/07/2026
Already out for a while as the final version: Our @elife.bsky.social paper presenting an experimental and computational pipeline for whole mount deep imaging and multi-scale analysis of organoid systems: elifesciences.org/articles/107... A great collaboration during my postdoc in Marseille.
elifesciences.org
A quantitative pipeline for whole-mount deep imaging and analysis of multi-layered organoids across scales
The Tapenade pipeline enables single-cell, whole-mount 3D quantification in dense multilayer organoids, linking spatial gene co-expression and nuclear deformation to emerging tissue-scale organization...
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Reposted by Valentin Dunsing-Eichenauer
epithelial mechanics fan club @epimechfc.bsky.social · 12/04/2026
How does an orbiting spherical tissue suddenly break symmetry and sprout invasive strands? We can predict this behavior from the initial morphology! Hi, I’m @jiwon-kim.bsky.social from @ianywonglab.bsky.social.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 22/04/2026
Today we celebrated the opening of Si-M (The Simulated Human), a new joint institute by Charité and TU Berlin. Si-M combines expertise in biology and medicine with engineering and data science to advance human model systems for biomedical research and translation into diagnostics and therapy.
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Reposted by Valentin Dunsing-Eichenauer
Joachim Goedhart @joachimgoedhart.bsky.social · 13/04/2026
📣 New preprint alert! Co-authored by @spalaciosm.bsky.social and @andreacaldarola.bsky.social : Quantitative imaging of calcium dynamics with a green fluorescent biosensor and fluorescence lifetime imaging www.biorxiv.org/content/10.6...
Image of a calcium calibration curve, calcium concentration traces of individual cells and lifetime images of cells
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Reposted by Valentin Dunsing-Eichenauer
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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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 07/04/2026
Painted 100+ lung organoids for Easter, stained with live-cell Cell Tracker/ @spirochrome.com dyes, imaged at our @leicamicrosystems.bsky.social Viventis Deep light-sheet 🔬 at Charité (soon @Si-M - Der Simulierte Mensch) and visualized using inverted lookup tables designed by @christlet.bsky.social
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 07/04/2026
And very well deserved recognition!
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 07/04/2026
Félicitations @shamtlili.bsky.social!🥳 Nice to see some familiar images and faces in this video🙂
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 25/03/2026
Join us this Friday in the Euro-BioImaging #VirtualPub!🔬
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Reposted by Valentin Dunsing-Eichenauer
Spirochrome @spirochrome.com · 10/03/2026
🧵 1/5 A new BioRxiv preprint reveals that membrane tension acts as a mechanical gate for lung cell fate during development! 🫁 Our Flipper-TR probe was key to assess live Cell Membrane Tension (CMT) Here’s how Flipper-TR unlocked a hidden layer of lung development & fibrosis. 👇 #Mechanobiology
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 04/03/2026
I am looking forward to present our recent works on volumetric light-sheet FLIM (www.nature.com/articles/s42...) and two-photon multiscale imaging & analysis (elifesciences.org/reviewed-pre...) of organoids in the Euro-BioImaging #VirtualPub on March 27th!
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 24/02/2026
I’d like to thank @hfspo.bsky.social for continuous support with a long-term fellowship, providing the freedom to embark on such exciting projects.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 24/02/2026
This was a fantastic collaboration with @mundhegayatri.bsky.social, Claudio Collinet and @thomaslecuit.bsky.social at @ibdm.bsky.social during my postdoc time in Marseille. The paper is available in Nat. Comms., featured in the collection “Organizers and self-organization in developmental biology”.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 24/02/2026
New paper out! In this project, we focused on the question how tissue mechanics is spatially controlled during development. We show that the GPCR ligand Fog acts as a “mechanogen” during Drosophila gastrulation, driving a self-organized wave of tissue invagination: www.nature.com/articles/s41...
nature.com
Spatial patterning of contractility by a self-organized mechanogen activity gradient underlies Drosophila gastrulation - Nature Communications
During morphogenesis patterned contractility drives tissue shape changes. Here they show that GPCR signaling and integrin activation give rise to a dynamically translocating gradient of contractility ...
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miquelsendra.bsky.social @miquelsendra.bsky.social · 06/02/2026
To turn spatial data into a 3D object, check our protocol (open source, napari plug-in). @guignardlab.bsky.social @adrianobolondi.bsky.social @ibdm.bsky.social For example, if you have spatial RNA-seq as sections, you can align them automatically to analyse directly in 3D. bio-protocol.org/e5607
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 16/12/2025
For good reasons. Some of my favourite SPIM acronyms were born back then!
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 15/12/2025
Oh, I am very sorry. I thought we had cited and listed all previous SPIM-FLIM publications. We missed yours somehow (by no means intentionally of course!). Your implementation was frequency domain based then?
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 15/12/2025
Thank you! This is fully volumetric time lapse FLIM data over a ca. 50 um depth range (1 plane every 2 um). In the end we only analysed Flipper-TR lifetimes in one 2d section per cell, but in principle one could analyse individual cells or junctions and their dynamics in 3D.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 15/12/2025
Thank you Amir!
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 15/12/2025
Thank you Joachim! I think there are many cool applications that hopefully we and others will explore in the future. Could be also promising in combination with OPM-like systems.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 15/12/2025
Lastly, I want to thank the Human Frontier Science Program @hfspo.bsky.social for continuous support with a long-term postdoctoral fellowship.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 15/12/2025
I want to thank my postdoc mentor Pierre-François Lenne @pflenne.bsky.social for giving me the freedom to embark on this exciting project.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 15/12/2025
This project was a great collaboration with Johan Hummert and colleagues at @picoquant.bsky.social kindly providing equipment, PI Imaging Technologies in Lausanne where the detector was developed, co-workers in Marseille and in Bordeaux and Singapore that originally developed the soSPIM microscope.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 15/12/2025
Our implementation opens up new applications for fluorescence lifetime based sensing (e.g. of forces, metabolites, pH, protein-protein interactions) in 3D specimen at sub-cellular resolution using light-sheet microscopy. Analysis code is available on GitHub: github.com/ValDunsing/s....
github.com
GitHub - ValDunsing/soSPIM-FLIM: Python code associated to "Fast volumetric fluorescence lifetime imaging of multicellular systems using single-objective light-sheet microscopy" by Dunsing-Eichenauer,...
Python code associated to "Fast volumetric fluorescence lifetime imaging of multicellular systems using single-objective light-sheet microscopy" by Dunsing-Eichenauer, Hummert et al., bio...
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 15/12/2025
Finally, by sub-sampling our data, we show that sub-100ms acquisition times can still provide robust lifetime estimates.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 15/12/2025
We also achieved time-lapse 3D imaging of membrane tension in live organoids. This revealed illumination-induced lifetime changes of Flipper-TR requiring further investigation. Strikingly though, we could detect subtle changes in individual cells and junctions tracked over time with 1s frame times.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 15/12/2025
This allowed us to perform 3D FLIM and volumetric lifetime-multiplexed imaging on dense multicellular aggregates (embryonic organoids).
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 15/12/2025
We benchmarked soSPIM-FLIM with both static and scanning light-sheet illumination, making our implementation transferable to many light-sheet configurations. We achieved excellent quantitative agreement to confocal FLIM at orders of magnitude shorter acquisition times, down to 100ms per image.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 15/12/2025
New paper out! Combining single-objective light-sheet microscopy and time-resolved SPAD array detection, we massively accelerate fluorescence lifetime imaging (FLIM) compared to confocal FLIM, making FLIM applicable to 3D specimen such as organoids and embryos. www.nature.com/articles/s42...
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 12/12/2025
Thanks! You are very welcome to visit! It has BIMSB-like stairs, just wider, and microscopes will be on an upper floor and not in the basement :)
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 12/12/2025
Thank you, Helge! You are welcome to visit once the doors are opened.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 12/12/2025
My research activities will continue and exciting projects are ahead.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 12/12/2025
Personally, I seriously doubted a future in academia and its compatibility with family life after just missing out on a DFG Emmy Noether Grant at the final Interview stage in June, when our twins were just 5 months old. The long-term perspective of the new position brought back a lot of motivation.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 12/12/2025
I look forward to contribute my expertise in quantitative optical microscopy and biophysics to the interdisciplinary scope of Si-M to make an impact for the biomedicine of the future.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 12/12/2025
Very happy to share that starting in January, I will take on a new position as microscopic imaging facility leader and researcher at Der Simulierte Mensch (Si-M), a new joint institute by Charité and TUBerlin, which aims at advancing human model systems (e.g. organoids) for biomedical research.
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 22/10/2025
Of course. Too tempting 😄 Looking forward to see more!
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Reposted by Valentin Dunsing-Eichenauer
Falk Schneider @faldalf.bsky.social · 22/10/2025
mStayRose is published in JBC 🥳🎉 Congratulations @wsctt.bsky.social @sporemohan.bsky.social and team for the monumental effort to make a non-natural amino acid incorporating fluorescent protein accessible. It's based on mStayGold, bright, and photostable: www.jbc.org/article/S002...
jbc.org
StayRose: a photostable StayGold derivative red-shifted by genetic code expansion
Photobleaching of fluorescent proteins often limits the acquisition of high-quality images in microscopy. StayGold, a novel dimeric green fluorescent protein recently monomerised through sequence engi...
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 22/10/2025
Very nice, congratulations! I am sure you did try FCS on it!?
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 24/09/2025
It has been great two days of scientific exchange at @picoquant.bsky.social 30th Single Molecule Workshop in Berlin #WS30. Looking forward to present a poster on in vivo applications of FCS tomorrow and a talk on fast, volumetric light-sheet FLIM in organoids on Friday!
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Reposted by Valentin Dunsing-Eichenauer
Michalis Averof @michalis-averof.bsky.social · 08/08/2025
Latest paper elifesciences.org/articles/107... closes an important cycle in our efforts to study regeneration: week-long recordings allow us to observe the behaviour of cells during the entire course of regeneration in a crustacean leg – bright objects in movie are fluorescent nuclei of cells. 1/6
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IBDM, Institut de Biologie du Développement de Marseille @ibdm.bsky.social · 27/06/2025
🥇Sham Tlili has been awarded the CNRS 2025 Bronze Medal! She studies how physical forces shape living tissues by using mouse stem cell models known as gastruloids. A unique blend of physics & biology. 🔗 Read more: www.ibdm.univ-amu.fr/sham-tlili-w...
ibdm.univ-amu.fr
Sham Tlili, winner of the CNRS 2025 bronze medal - IBDM | Institut de Biologie du Développement de Marseille
A distinction that rewards a promising and already fruitful scientific career.
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Nature Methods @natmethods.nature.com · 17/03/2025
A computational framework links transcriptomic analyses with mechanical signatures to study the interplay between cell mechanical forces and gene expression. www.nature.com/articles/s41...
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Valentin Dunsing-Eichenauer @dunsingvalentin.bsky.social · 06/03/2025
Congratulations Kristina!! Great news!!
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Florian Jug @florianjug.bsky.social · 11/02/2025
🔬🎤 As pre-announced a few days ago... please let us proudly present to you: 𝑴𝒊𝒄𝒓𝒐𝕊𝒑𝒍𝒊𝒕 - your ticket to imaging more, imaging more gentle, and/or imaging more efficient. 🔬 doi.org/10.1101/2025... Like ❤️, repost 🔂, and most importantly... please send feedback ✉️ our way! 🙏
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Roman Tsukanov @romantsukanov.bsky.social · 31/01/2025
Thrilled to share our latest review paper, "Advanced Fluorescence Lifetime-Enhanced Multiplexed Nanoscopy of Cells", co-authored with @samratb.bsky.social, now published in Methods in Microscopy! 🚀✨ Check it out here: www.degruyter.com/document/doi... #FLIM #SMLM #FLPAINT #FLSMLM #MIETPAINT
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Philippe Roudot @philipperoudot.bsky.social · 17/01/2025
Hello bsky :). Application still opened for an exciting @centuri-ls.bsky.social PhD project with C. Collinet combining AI and stochastic modeling to understand how living embryos rearrange their own shape! Project & application details here: centuri-livingsystems.org/application-... DL Jan 27th.
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