Eugene Katrukha 🇺🇦

We are planning the build of a light sheet setup and are considering a Powell lens to generate the sheet.
I've not been able to find a discussion of the pros and cons in literature, so if you ever used a Powell lens or have considered using one in your setup, I would love to hear your opinion. THX!

Exciting day for the lab: our 1rst paper is officially out in @currentbiology.bsky.social 🥳 Wonderful collaboration wt @gautamdey.bsky.social showing how Cryo-ExM achieves consistent immunostaining in diverse diatoms, from the lab and the natural environment 1/n
#ProtistsOnSky
tinyurl.com/2zxaund7

🚨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...

That I don't know, gonna check. The other day I was telling my friend working in flow cytometry that now we can do 8 color microscopy. He was not impressed to say the least.

Chromatic correction Detection of Molecules plugin for ImageJ, Utrecht University - UU-cellbiology/DoM_Utrecht

Mmm, it could be, I guess, if you segment fluorogram and intensity not changing much in the process. But I expect it would not work well, since it is pixel wise and color aberration usually affects small % of total pixels. I would stick with Gaussian fitting github.com/UU-cellbiolo...

The macro is on the GitHub Gist, yes!
Obviously, you didn't have time to click the link. :)

The image shows two cytofluorograms for the same two images, the left one built with linear axes and the right one with logarithmic axes.

How a trick from flow cytometry can help colocalization visualization for microscopy forum.image.sc/t/cytofluoro...

Tracing fluorescence tracking’s past, present, and future Artificial intelligence and parallel computing could refine studies of the movement of single molecules inside cells.

Tracking has always been at the ❤️ of the scientific method, from planetary motion to single particles.

Weiqing’s thesis intro on tracking was so beautiful we turned it into a perspective in JCP who then selected it as a #Scilight.

Take a look! 😊

www.aip.org/scilights/tr...

five logos, each representing three 3D cubes in green-gray-white palette in different orientations

six logos, each representing three 3D cubes in green-gray-white palette in different orientations

Internet people, please help me to decide on the logo for #bigvolumebrowser, a multi-volume 3D viewer plugin for Fiji I'm working on. Please vote by replying with a number or liking one that was already mentioned. My favorites are 6, 7, 8 and 10 so far.

PAPER OUT ✨ What if you could use your microscope as a 3D printer? Prototype microfluidics in-house, <5$ in material costs per chip. From idea to experiment within a day. Now published in Lab-on-a-Chip (open-access): doi.org/10.1039/D5LC...

The #mesoSPIM symposium really opened my eyes to the power of open source hardware. I've highlighted some of the surprising outcomes in a new blog post:

How Open Source Microscopy is Solving the Funding Crisis: Insights from the mesoSPIM 10-Year Symposium

www.syglass.io/blog/how-ope...

From my observation, "age transition to PI" naturally involves more interest in "other PIs, who got what, moved where, published how, knows who" rumours and less time/interest to discuss specific science/experiments details.

But the N number in this study is small, not ready for submission yet.

Mesoscale volumetric fluorescence imaging at nanoscale resolution by photochemical sectioning Optical nanoscopy of intact biological specimens has been transformed by recent advancements in hydrogel-based tissue clearing and expansion, enabling the imaging of cellular and subcellular structure...

for #FluorescenceFriday : is your ExM sample too large to be imaged with high NA objectives? VIPS it! Very clever way to tackle one of the biggest challenge in large volumetric ExM www.science.org/doi/10.1126/...

AI Engineer - Evolutionary Protein Language Models Primary Work Address: 19700 Helix Drive, Ashburn, VA, 20147 Current HHMI Employees, click here to apply via your Workday account. Intro: AI@HHMI: HHMI is investing $500 million over the next 10 years ...

We are looking for an #AIEngineer to help build protein language models that capture evolutionary constraints with @matsen.bsky.social and @jbloomlab.bsky.social at #AI@HHMI @hhmijanelia.bsky.social
hhmi.wd1.myworkdayjobs.com/en-US/Extern...

Hello dear diary, today I've added some minor features, like highlighting boxes and canvas selecting objects + manual transform mode. Small update, mucho trabajo, but it should be helpful for user experience #bigvolumebrowser

We hire!
The CytoMorpho Lab is looking for an engineer with a background in cell and molecular biology to join our team in Paris. This is a 18-month contract position, but we're open to exploring long-term opportunities.
More details here:
cytomorpholab.com/index.php/jo...

Perspective from Richard McIntosh describing the history of research on #microtubule polymerization in terms of the ideas, technologies, and observations that have emerged as countless researchers have studied the dynamics of these essential cytoskeletal polymers. rupress.org/jcb/article/...

I found these immune cells just finished mitosis but their midbody is still yet to be resolved. How cool? If you zoom in to the midbody, you can see its classical shape just like in the textbooks. I love these little details.

The connectome of the entire male Drosophila central nervous system is out!! Acquired using FIB-SEM @ 8x8x8nm, we aligned 7.5 mio 2D images aligned into one seamless 3D volume, which was used to segment & proofread neurons and synapses. @hhmijanelia.bsky.social

www.biorxiv.org/content/10.1...

Very excited about this project: we believe that 3D anatomical atlases have a huge potential for developmental biology. As a starting point, we made the first ever Drosophila wing disc atlas!

mitochondria from bipolar patients are closer to the nucleus in these images; control patients' are spread out further

15 years in the making, we confirmed that mitochondria - the powerhouse of the cell - have an unusual localization in patients who experience psychosis (including schizophrenia and bipolar disorders). You’ll never guess what kind of patient cells we used to make this discovery… 🧵

First example (attractor) solids with occlusion. The end of the second example is a kind of emitters with transparency (and different blending modes are possible).

And z-depth color coding and opacity mapping to localization precision make 3D SMLM render more pretty

LUT color mapping for spots/particles rendering in #bigvolumeviewer is almost finished. The speed is mapped by color (middle) and color + spot size (right).

#QuPath + Imglib2 and #BDV ❤️

Promising start!

(Mainly Léo and Pete's work github.com/qupath/qupat... + a small addition)

Structure and Function of the Cytoskeleton The cytoskeleton, a dynamic and intricate network of protein filaments, is found within the cytoplasm of all cells, from bacteria and archaea to complex eukaryotes. This essential cellular component …

Learn all things #cytoskeleton #research in an interdisciplinary environment at EMBO Workshop "Structure and Function of the Cytoskeleton" in Paris, FR, 7–10 April 2026.

Deadline: 20 December 2025

https://meetings.embo.org/event/26-cytoskeleton
#EMBOCytoskeletalFunction #EMBOevents #conference 🧪

Research engineer in Bioimage Analysis for the researchers of the inIdEx FORMULA Hi all We are looking for a bioimage analysis to work in an image analysis core facility in beautiful Paris. Can I ask you to share this opportunity with your networks? The position is in the Instit...

Job alert!

We are looking for a bioimage analysis to work in an image analysis core facility in beautiful Paris. Can I ask you to share this opportunity with your networks?

See also on the forum:
forum.image.sc/t/research-e...

We present multi-immersion Oblique Plane microscope (miOPM), a light-sheet platform that can be adapted to a wide range of applications, from sensitive live cell imaging to imaging organs and cleared tissues.
www.biorxiv.org/content/10.1...

I’m happy to share some plugins I’ve been developping this summer: "Channels and Contrast" and LUTs Manager!
I can’t find new bugs and ideas by now so I need your help to please test them in your machines and report bugs, feedbacks and ideas! forum.image.sc/t/looking-fo...

See this? This = implanting mouse embryo. Usually this happens inside its mother and is invisible to us, but we can actually watch implantation ex vivo with the hope of understanding why implantation goes awry in embryos of older women. A 🧵...