Chetan Poudel
@biofizzycist.bsky.social
Assitant Professor of Medicine at Indiana University studying the kidney in 3D with lightsheet microscopy.
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!
Super-resolved optical imaging, reconstruction, and spatial analysis of whole mouse glomeruli via the Glomerulus Mapping and Analysis Pipeline
doi.org/10.1016/j.kint.2025.07.024
#NephSky #MedSky #glomerulus @uwchemistry.bsky.social @uwcse.bsky.social @uwnephrology.bsky.social
doi.org/10.1016/j.kint.2025.07.024
#NephSky #MedSky #glomerulus @uwchemistry.bsky.social @uwcse.bsky.social @uwnephrology.bsky.social
September 2, 2025 at 7:44 PM
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!
We were already using #cellpose to segment kidney tubules but this combination with SAM should make it even more generalizable and powerful! Very exciting!
🚀🔬🦠 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
paper: www.biorxiv.org/content/10.1...
w/ @computingnature.bsky.social 1/n
May 5, 2025 at 2:32 AM
We were already using #cellpose to segment kidney tubules but this combination with SAM should make it even more generalizable and powerful! Very exciting!
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
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.
rdcu.be
April 23, 2025 at 5:57 PM
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
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!
April 22, 2025 at 7:09 AM
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!
Reposted by Chetan Poudel
Reposted by Chetan Poudel
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.
February 14, 2025 at 12:04 PM
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.
Reposted by Chetan Poudel
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...
www.nature.com/articles/s41...
February 12, 2025 at 11:41 AM
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...
www.nature.com/articles/s41...
Reposted by Chetan Poudel
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.
I do not recommend this life style, it sucks
Most of us just want to do important science unpeturbed.
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 .
media.tenor.com
February 12, 2025 at 9:22 PM
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.
I do not recommend this life style, it sucks
Most of us just want to do important science unpeturbed.
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/...
Paper here: www.science.org/doi/10.1126/...
December 13, 2024 at 5:47 PM
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/...
Paper here: www.science.org/doi/10.1126/...