Chetan Poudel

Congrats to Adil Ali for getting his paper accepted at KI! He worked hard getting high-fidelity segmentation of all major structures of the kidney glomerulus, which was imaged at 100nm resolution! Check out a ton of interesting 3D data in the repository- including 3D printable files!

02.09.2025 19:44 — 👍 1    🔁 0    💬 0    📌 0

We were already using #cellpose to segment kidney tubules but this combination with SAM should make it even more generalizable and powerful! Very exciting!

05.05.2025 02:32 — 👍 3    🔁 0    💬 0    📌 0

Imaging 3D cell cultures with optical microscopy Nature Methods - This Review discusses current 2D and 3D microscopy methods for imaging three-dimensional cell cultures and emerging strategies to address key challenges.

Our new review article on "Imaging 3D cell cultures with optical microscopy" is now out in @naturemethods.bsky.social. Congrats to Huai-Ching from Jon Liu's lab at UW for leading this effort! Open-access link here: rdcu.be/eh8g0

23.04.2025 17:57 — 👍 2    🔁 0    💬 0    📌 0

Thanks Romain! Will be fun to build some lightsheet scopes and dive into computational analysis

22.04.2025 21:10 — 👍 1    🔁 0    💬 0    📌 0

Thrilled to announce that I will be joining Indiana University School of Medicine as an Assistant Professor this summer! A primary focus of my lab will be to develop technologies to study #kidney diseases in 3D at the organ-scale. Lots of fun imaging to follow!

22.04.2025 07:09 — 👍 4    🔁 0    💬 1    📌 0

Screen shot of the article

01.03.2025 10:22 — 👍 192    🔁 78    💬 7    📌 6

My annual Valentine’s post of this image that happens to land on #FluorescenceFriday this year! An axon approaching a kidney glomerulus doing its best to look like a rose.

14.02.2025 12:04 — 👍 269    🔁 36    💬 7    📌 2

Improvements in LM (top) and EM (bottom) of our micro-sam model (finetuned) compared to the default SAM model.

After a long journey, Segment Anything for Microscopy is now published in Nature Methods! We significantly improve SAM for interactive and automatic segmentation in light and electron microscopy and build a user-friendly tool.
www.nature.com/articles/s41...

12.02.2025 11:41 — 👍 351    🔁 120    💬 11    📌 7

an elderly woman is riding a roller coaster with her mouth open . ALT: an elderly woman is riding a roller coaster with her mouth open .

Live footage of the average NIH-funding academic as we cycle between maybe no longer having a job and court rulings allow NIH to resume evaluating and funding grants.
I do not recommend this life style, it sucks
Most of us just want to do important science unpeturbed.

12.02.2025 21:22 — 👍 734    🔁 89    💬 29    📌 7

That is very cool, I'll have to try that. I have so many videos on my ppts without source files

01.02.2025 01:36 — 👍 0    🔁 0    💬 1    📌 0

Very cool! I wondered what the best way to transfer or move Zarr files on Windows is? Convert it to some single file zipped format?

28.01.2025 17:13 — 👍 0    🔁 0    💬 0    📌 0

Our work on multiplexed imaging using polymer dots made it to the cover of Science Advances! Out today and very timely for #fluorescencefriday

Paper here: www.science.org/doi/10.1126/...

13.12.2024 17:47 — 👍 5    🔁 1    💬 0    📌 0