Reto Fiolka
@retof.bsky.social
Optical imaging, interested in STEM topics.
First generation graduate from ETH Zürich
Associate Professor at UT
Southwestern Medical Center
First generation graduate from ETH Zürich
Associate Professor at UT
Southwestern Medical Center
Felix Zhou's u-Segment3D is out:
www.nature.com/articles/s41...
It leverages 2D cell segmentations from orthoviews to generate a ‘consensus’ 3D segmentation.
It does a great job on segmenting densely packed samples, and we have used the algorithm in many applications.
www.nature.com/articles/s41...
It leverages 2D cell segmentations from orthoviews to generate a ‘consensus’ 3D segmentation.
It does a great job on segmenting densely packed samples, and we have used the algorithm in many applications.
November 12, 2025 at 2:41 AM
Felix Zhou's u-Segment3D is out:
www.nature.com/articles/s41...
It leverages 2D cell segmentations from orthoviews to generate a ‘consensus’ 3D segmentation.
It does a great job on segmenting densely packed samples, and we have used the algorithm in many applications.
www.nature.com/articles/s41...
It leverages 2D cell segmentations from orthoviews to generate a ‘consensus’ 3D segmentation.
It does a great job on segmenting densely packed samples, and we have used the algorithm in many applications.
“Lights all askew in the heavens”
Theory of general relativity confirmed by measuring gravitational lensing during the 1919 solar eclipse.
Nov. 9 1919 NYT full article timesmachine.nytimes.com/timesmachine...
Theory of general relativity confirmed by measuring gravitational lensing during the 1919 solar eclipse.
Nov. 9 1919 NYT full article timesmachine.nytimes.com/timesmachine...
November 10, 2025 at 1:44 AM
“Lights all askew in the heavens”
Theory of general relativity confirmed by measuring gravitational lensing during the 1919 solar eclipse.
Nov. 9 1919 NYT full article timesmachine.nytimes.com/timesmachine...
Theory of general relativity confirmed by measuring gravitational lensing during the 1919 solar eclipse.
Nov. 9 1919 NYT full article timesmachine.nytimes.com/timesmachine...
Enviable discipline in the @kevin-dean.bsky.social lab:
While Kevin is far away discussing the future of microscopy, his lab meeting is carried out independently.
I snapped the first slide for illustration of the seriousness of the business discussed (suppl. Figure 2: zoom-in).
While Kevin is far away discussing the future of microscopy, his lab meeting is carried out independently.
I snapped the first slide for illustration of the seriousness of the business discussed (suppl. Figure 2: zoom-in).
November 4, 2025 at 1:52 AM
Enviable discipline in the @kevin-dean.bsky.social lab:
While Kevin is far away discussing the future of microscopy, his lab meeting is carried out independently.
I snapped the first slide for illustration of the seriousness of the business discussed (suppl. Figure 2: zoom-in).
While Kevin is far away discussing the future of microscopy, his lab meeting is carried out independently.
I snapped the first slide for illustration of the seriousness of the business discussed (suppl. Figure 2: zoom-in).
Sunrise on Jeju island.
October 31, 2025 at 11:05 PM
Sunrise on Jeju island.
Morning dawns at the Seongsan Ilchulbong Volcano.
October 31, 2025 at 3:14 AM
Morning dawns at the Seongsan Ilchulbong Volcano.
Not sure why they put so many Swiss flags on that hike, but the view was good.
October 29, 2025 at 8:35 AM
Not sure why they put so many Swiss flags on that hike, but the view was good.
A lot of pumpkins at work!
October 24, 2025 at 12:19 PM
A lot of pumpkins at work!
First lecture over.
But the blackboard I was promised kinda sucks.
Horrible to clean.
But the blackboard I was promised kinda sucks.
Horrible to clean.
October 21, 2025 at 7:18 PM
First lecture over.
But the blackboard I was promised kinda sucks.
Horrible to clean.
But the blackboard I was promised kinda sucks.
Horrible to clean.
Dallas in the morning.
October 14, 2025 at 1:46 PM
Dallas in the morning.
Boeing 777 sporting the mask of Zorro…
October 12, 2025 at 9:30 PM
Boeing 777 sporting the mask of Zorro…
Normal size and 4x EXM!
October 10, 2025 at 6:15 PM
Normal size and 4x EXM!
Expansion microscopy is getting out of hand.
4X and 10X expanded wine barrels😳!
#SeeingIsBelieving
#EMBL
4X and 10X expanded wine barrels😳!
#SeeingIsBelieving
#EMBL
October 10, 2025 at 6:13 PM
Expansion microscopy is getting out of hand.
4X and 10X expanded wine barrels😳!
#SeeingIsBelieving
#EMBL
4X and 10X expanded wine barrels😳!
#SeeingIsBelieving
#EMBL
October 9, 2025 at 12:05 PM
Retro Pacific Southwest Airlines livery on an AA Airbus 320.
October 7, 2025 at 7:54 PM
Retro Pacific Southwest Airlines livery on an AA Airbus 320.
3D tracking of mitochondria DNA (green dots) in a HeLa cell.
October 7, 2025 at 3:43 PM
3D tracking of mitochondria DNA (green dots) in a HeLa cell.
Volumetric imaging of 384 wells in a contact free format using an air lens.
Importantly, the 3D imaging remains diffraction limited and distortion-free, despite the large refractive index mismatch from air to water.
Importantly, the 3D imaging remains diffraction limited and distortion-free, despite the large refractive index mismatch from air to water.
October 6, 2025 at 6:47 PM
Volumetric imaging of 384 wells in a contact free format using an air lens.
Importantly, the 3D imaging remains diffraction limited and distortion-free, despite the large refractive index mismatch from air to water.
Importantly, the 3D imaging remains diffraction limited and distortion-free, despite the large refractive index mismatch from air to water.
Segmented nuclei (gray) and nucleoli (color) in an expanded liver slice:
October 6, 2025 at 6:36 PM
Segmented nuclei (gray) and nucleoli (color) in an expanded liver slice:
Movies:
Microvili formation and dynamics in T-cells.
Microvili formation and dynamics in T-cells.
October 6, 2025 at 6:35 PM
Movies:
Microvili formation and dynamics in T-cells.
Microvili formation and dynamics in T-cells.
Lastly, the zoom lens allows to adapt miOPM to samples with refractive indices (R.I.) different from water, such as cleared tissues.
Below is a comparison of doing CLARITY cleared imaging, with and without adapting the system to the different R.I.
Below is a comparison of doing CLARITY cleared imaging, with and without adapting the system to the different R.I.
October 6, 2025 at 6:28 PM
Lastly, the zoom lens allows to adapt miOPM to samples with refractive indices (R.I.) different from water, such as cleared tissues.
Below is a comparison of doing CLARITY cleared imaging, with and without adapting the system to the different R.I.
Below is a comparison of doing CLARITY cleared imaging, with and without adapting the system to the different R.I.
We can even use an air objective and still perform distortion free and diffraction limited imaging in watery samples.
This can be leveraged to perform contact-free multi-well imaging.
This can be leveraged to perform contact-free multi-well imaging.
October 6, 2025 at 6:27 PM
We can even use an air objective and still perform distortion free and diffraction limited imaging in watery samples.
This can be leveraged to perform contact-free multi-well imaging.
This can be leveraged to perform contact-free multi-well imaging.
The same system equipped with a water immersion objective can image larger samples, like an expanded liver slice, organoids or neurons on an EM grid.
October 6, 2025 at 6:27 PM
The same system equipped with a water immersion objective can image larger samples, like an expanded liver slice, organoids or neurons on an EM grid.
miOPM can use a high numerical oil immersion objective, and perform sensitive live-cell imaging, which we have leveraged to look at T-cell dynamics and track mitochondria DNA in 3D.
October 6, 2025 at 6:25 PM
miOPM can use a high numerical oil immersion objective, and perform sensitive live-cell imaging, which we have leveraged to look at T-cell dynamics and track mitochondria DNA in 3D.
Unlike prior light-sheet systems, miOPM can use a variety of objectives, can be adapted to a wide range of refractive indices and is compatible with standard sample mounting. This comes from two innovations; the any immersion remote refocusing concept, and a zoom lens to adapt the system.
October 6, 2025 at 5:53 PM
Unlike prior light-sheet systems, miOPM can use a variety of objectives, can be adapted to a wide range of refractive indices and is compatible with standard sample mounting. This comes from two innovations; the any immersion remote refocusing concept, and a zoom lens to adapt the system.
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...
www.biorxiv.org/content/10.1...
October 6, 2025 at 5:52 PM
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...
www.biorxiv.org/content/10.1...
Ahh, North Texas is just beautiful in Fall.
Soaking in the views from the Lewisville Landfill.
Soaking in the views from the Lewisville Landfill.
October 2, 2025 at 4:49 PM
Ahh, North Texas is just beautiful in Fall.
Soaking in the views from the Lewisville Landfill.
Soaking in the views from the Lewisville Landfill.