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mesoSPIM
Switzerland
Приєднався 25 лют 2018
Mouse brain cleared with CUBIC
Mouse brain labelled with SYTOX-G (cell death marker, magenta) and aSMA-A594 (Alexa Fluor® 594 Anti-alpha smooth muscle actin, yellow), cleared with CUBIC, imaged at 2x magnification with Benchtop mesoSPIM.
Sample courtesy: Etsuo A. Susaki, Chika Shimizu, Hiroki R. Ueda.
mesoSPIM project links:
The mesoSPIM initiative: www.mesospim.org
On Twitter: MesoSpim
On Github: github.com/mesoSPIM
github.com/mesoSPIM/benchtop-hardware
Sample courtesy: Etsuo A. Susaki, Chika Shimizu, Hiroki R. Ueda.
mesoSPIM project links:
The mesoSPIM initiative: www.mesospim.org
On Twitter: MesoSpim
On Github: github.com/mesoSPIM
github.com/mesoSPIM/benchtop-hardware
Переглядів: 15 892
Відео
Piece of human cortex (occipital lobe V2 of visual cortex) from 90 y.o. male donor
Переглядів 4139 місяців тому
Piece of human cortex (occipital lobe V2) from 90 y.o. male donor, stained with neutral red and cleared with the MASH-NR protocol (Nissl staining with neutral red; ECi as immersion medium), imaged at 5x magnification (Supplementary Movie 8). Citation: Vladimirov, Voigt et al, Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 2024...
One hemisphere of a mouse brain with sparse neuronal labeling (Thy1)
Переглядів 7 тис.9 місяців тому
One hemisphere of Thy1-YFP AF-561 mouse, cleared with iDISCO, imaged at 5x magnification (Supplementary Movie 7). Citation: Vladimirov, Voigt et al, Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 2024. link.springer.com/article/10.1038/s41467-024-46770-2 Project links: The mesoSPIM initiative: www.mesospim.org On Twitter: twit...
Glutamatergic neurons in the mouse brain (sparse labeling)
Переглядів 8 тис.9 місяців тому
Brain of Vglut2-Cre mouse with retrograde AAV cre-dependent variant of td-Tomato (ssAAV-retro/2-CAG-dlox-tdTomato (rev)-dlox-WPRE-bGHp(A), cleared with iDISCO, imaged at 4x magnification (Supplementary Movie 6). Citation: Vladimirov, Voigt et al, Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 2024. link.springer.com/article/10...
Mouse brain stained for amyloid plaques (green) and arteries (magenta).
Переглядів 3,3 тис.9 місяців тому
Brain of APP/PS-1 mouse, stained with hFTAA (amyloid plaques) and SMA-Cy3 (arterial vessels), cleared with iDISCO, imaged at 1.2x magnification (Supplementary Movie 5). Citation: Vladimirov, Voigt et al, Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 2024. link.springer.com/article/10.1038/s41467-024-46770-2 Project links: The...
Contrast map of Olympus XLFluor 4x/0.28
Переглядів 629 місяців тому
Contrast map of Olympus XLFluor 4x/0.28 objective based on imaging a 40lp/mm Ronchi grid through 20 mm of high-index medium (RI 1.52). The Z axis represents focus depth F [µm] scaled by 10x for demonstration purpose. (SI Video 1). Citation: Vladimirov, Voigt et al, Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 2024. link.spri...
Light-sheet excitation arm components
Переглядів 205Рік тому
Exploded view of the Benchtop mesoSPIM light-sheet microscope excitation arm. Wiki: github.com/mesoSPIM/benchtop-hardware/wiki/Excitation-arms-assembly Citation: Vladimirov, Voigt et al, Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 2024. link.springer.com/article/10.1038/s41467-024-46770-2 The mesoSPIM initiative: www.mesosp...
Mouse brain with spinal cord imaged at 5x magnification.
Переглядів 23 тис.Рік тому
Sample: Mouse brain with spinal cord dissected from a 2.5-month-old Thy1-GFP-M animal, cleared with vDISCO and imaged at 5x magnification. Citation: Vladimirov, Voigt et al, Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 2024. link.springer.com/article/10.1038/s41467-024-46770-2 The mesoSPIM initiative: www.mesospim.org On Twi...
Whole mouse imaged at 0.9x magnification
Переглядів 2,2 тис.Рік тому
Sample: whole mouse P14 stained with propidium iodide and cleared with vDISCO, imaged at 0.9x magnification. Citation: Vladimirov, Voigt et al, Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 2024. link.springer.com/article/10.1038/s41467-024-46770-2 The mesoSPIM initiative: www.mesospim.org On Twitter: MesoSpim On ...
Chicken embryo imaged at 1.2x magnification
Переглядів 2,3 тис.Рік тому
Sample: Chicken embryo at E9 stage stained with M Anti-RMO270, G Anti-Mouse Cy3, cleared with BABB, imaged at 1.2x magnification. Citation: Vladimirov, Voigt et al, Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 2024. link.springer.com/article/10.1038/s41467-024-46770-2 The mesoSPIM initiative: www.mesospim.org On Twitter: twi...
Nervous system of Xenopus tadpole imaged at 5x magnification.
Переглядів 6 тис.Рік тому
Xenopus tadpole stage 58, stained with Atp1a1 AF-555, cleared with BABB, imaged at 5x (Supplementary Movie 10). Citation: Vladimirov, Voigt et al, Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 2024. link.springer.com/article/10.1038/s41467-024-46770-2 Project links: The mesoSPIM initiative: www.mesospim.org On Twitter: twitte...
Benchtop mesoSPIM detection arm assembly (exploded view)
Переглядів 221Рік тому
Citation: Vladimirov, Voigt et al, Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 2024. link.springer.com/article/10.1038/s41467-024-46770-2 The mesoSPIM initiative: www.mesospim.org On Twitter: MesoSpim On Github: github.com/mesoSPIM The mesoSPIM hardware documentation & wiki: github.com/mesoSPIM/benchtop-hardware
Mounting Thorlabs galvo mirror and heatsink for Benchtop mesoSPIM excitation arm.
Переглядів 969Рік тому
Heat sink made of aluminium sheets and galvo mount from modified Thorlabs LCP03/M cage plate, for Thorlabs galvo QS15X-AG. By Nikita Vladimirov. Citation: Vladimirov, Voigt et al, Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 2024. link.springer.com/article/10.1038/s41467-024-46770-2 The mesoSPIM initative: www.mesospim.org O...
Benchtop mesoSPIM assembly.
Переглядів 297Рік тому
The Benchtop mesoSPIM light-sheet microscope assembled from modules in 50 minutes, by Nikita Vladimirov. Citation: Vladimirov, Voigt et al, Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples. Nature Communications, 2024. link.springer.com/article/10.1038/s41467-024-46770-2 Event: EMBO Course "3D Developmental imaging", 2022 The mesoSPIM initiative: www.m...
Mollusc-inspired multi-immersion microscope objectives
Переглядів 1,4 тис.2 роки тому
Mollusc-inspired multi-immersion microscope objectives
Johannes Paetzold: Machine learning for vascular structures in microscopic data.
Переглядів 4732 роки тому
Johannes Paetzold: Machine learning for vascular structures in microscopic data.
Stephan Preibisch: Towards reconstruction of peta-scale lightsheet microscopy datasets.
Переглядів 6712 роки тому
Stephan Preibisch: Towards reconstruction of peta-scale lightsheet microscopy datasets.
Benjamin Schmid: Intuitive rendering of 3D animations from microscope data using 3Dscript.
Переглядів 1722 роки тому
Benjamin Schmid: Intuitive rendering of 3D animations from microscope data using 3Dscript.
Laura Batti: ALICe, Advanced Lightsheet Imaging Center.
Переглядів 4292 роки тому
Laura Batti: ALICe, Advanced Lightsheet Imaging Center.
José María Mateos: Experiences running the MesoSPIM in a Core Facility.
Переглядів 972 роки тому
José María Mateos: Experiences running the MesoSPIM in a Core Facility.
Thomas Naert: mesoSPIM and U-Net deep learning: three-dimensional modeling of embryonic development
Переглядів 1752 роки тому
Thomas Naert: mesoSPIM and U-Net deep learning: three-dimensional modeling of embryonic development
Nikita Vladimirov: mesoSPIM development and updates, testing the lens field curvature.
Переглядів 2322 роки тому
Nikita Vladimirov: mesoSPIM development and updates, testing the lens field curvature.
Nikita Vladimirov: Demo of mesoSPIM software and image acquisition workflow
Переглядів 5172 роки тому
Nikita Vladimirov: Demo of mesoSPIM software and image acquisition workflow
Sven Hildebrand: Investigating the human neocortex in 3D...
Переглядів 2132 роки тому
Sven Hildebrand: Investigating the human neocortex in 3D...
Shan Zhao: The challenges of human tissue clearing, imaging and application.
Переглядів 3932 роки тому
Shan Zhao: The challenges of human tissue clearing, imaging and application.
Etsuo Susaki: CUBIC for whole-organ/body cell circuit and tissue architecture analysis.
Переглядів 3132 роки тому
Etsuo Susaki: CUBIC for whole-organ/body cell circuit and tissue architecture analysis.
Alba Vieites Prado: iDISCO+ tissue clearing and ClearMap for the analysis of axonal projections...
Переглядів 9202 роки тому
Alba Vieites Prado: iDISCO tissue clearing and ClearMap for the analysis of axonal projections...
Fritjof Helmchen "Welcome" talk at the 1-st mesoSPIM User Meeting, March 10, 2022.
Переглядів 2992 роки тому
Fritjof Helmchen "Welcome" talk at the 1-st mesoSPIM User Meeting, March 10, 2022.
Stitching 3D images from tiles using Fiji/BigStitcher
Переглядів 5 тис.3 роки тому
Stitching 3D images from tiles using Fiji/BigStitcher
ETL adjustment trick using the laser beam
Переглядів 4433 роки тому
ETL adjustment trick using the laser beam
Great video! Very useful! Thank you
❤
Диформсція левого колена.
Спасиби.
Ребятя, звук есть, но его очень трудно услышать. Я включила громкость на всю и поднесла к уху динамик. Периодическое потрескивание, жужжание и в ушах появляется очень высокий тон, еле поддающийся слуху.
ADded home mapped gps Google maps online datas uploaded in phone Rog phone updates
Звука нет!🤔
Não tem som é assim mesmo?
🤔🤔🤔😳😳😳
Где звук и что это?
WOW!!! 😊❣️. Such an AMAZING IMAGE,, I see the beyond our understanding “magnificence of this universe “. It is so VAST, SUCH INTELLIGENCE, WE ARE ALL PART OF IT. 👏👏👏
Aldas❤❤❤❤❤❤
Спасибо ! Но почему-то нет звука !
😅😮😅😅😅😅😅😅well information good show you can get 😅😅😅
Звука нет..... Так надо?
This is just mesmerizing and beautiful and amazing and everything!!!!! Is those little dots the neurons in the second shot???????😮😮😮❤❤❤❤😊😊😊😊😊😊😊
Thanks! The little dots are cell nuclei, they may be neurons or some other brain cells. SYTOX-G stains cells independently of their type. However, most of these cells are likely neurons, especially in cerebellum (big magenta volume in the lower part of the brain).
@@mesoSPIM omg thank you 😊😍🩷
Что,это,такое?😢
Great job!
Thank you!
Hi Nikita, thanks for this nice video. I managed to merge 8 tiles, but in the final merged image I can see different intensities between the tiles, which makes the final result heterogeneous as we could recognize the different tiles. Do you have any idea why?
I sometimes also see stitching marks between the tiles, especially if the underlying signal is homogeneous (such as auto-fluorescence). Not sure why, this is maybe a question to BigStitcher development team.
The really cool thing is that you don't even have to do this at all. Saved time and effort
I was expecting a fish
Magnifique 🎉❤
This îs very interising! I loved❤
Wow. That's like some deep space nebula❤
but...this is neuroscience....
#hungry #20calories #makeitanugget
looks great
Mouse
Cool!
Wow! That looks amazing!
Hello! I am medical student from Uzbekistan. I wonder, would it be possible for people like me to work as an assistant there? Greet regards
Hi, you may contact ALICE team directly with this question: wysscenter.ch/facilities/alice
Just had the chance to read the paper in Nat Biotech. Fantastic work.
waooh, that bada... wait... is that a pair of cheap Nikon 50mm photography lens ? :D
Yes, and they are awesome both both photography AND microscopy.
This is so cool!! I didn't understand - why does the focusing ability not depend on the index of the immersion media?
All of the glass/fluid interface refractions happen at very-nearly normal incidence, so very little deviation occurs. The resulting deviation is of course medium-index dependent, but for sufficiently-nearly-normal incidence, the deviation becomes very small and the medium-index dependence becomes very weak.
Hi Nikita, many thanks for the video, I have a quick question, how do you select the best channel for stitching? Does it has to be a channel that has the brightest intensity or most interest points in common?
Hi, you can choose the brightest channel, or average of several channels. I usually pick the brightest one. The default stitching algorithm does not depend on interest points, it uses cross-correlation of image intensities.
So cool!
Nikita, very nice! Thanks for the video!
Very cool! Thanks for sharing!
Glad you like it!
Awesome Nikita! Thanks :)
You are welcome :)