Summary of 416-Otomo-descSPIM

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SSBD:repository
SSBD:repository URL

Title
Images of brain and xenograft obtained by descSPIM, the desktop- equipped SPIM
Description
Despite widespread adoption of tissue clearing techniques in recent years, poor access to suitable light-sheet fluorescence microscopes remains a major obstacle for biomedical end-users. Here, we present descSPIM (desktop- equipped SPIM for cleared specimens), a low-cost ($20,000–50,000), low- expertise (one-day installation by a non-expert), yet practical do-it-yourself light-sheet microscope as a solution for this bottleneck. Even the most fundamental configuration of descSPIM enables multi-color imaging of whole mouse brains and a cancer cell line-derived xenograft tumor mass for the visualization of neurocircuitry, assessment of drug distribution, and pathological examination by false-colored hematoxylin and eosin staining in a three- dimensional manner. Academically open-sourced (https://github.com/dbsb- juntendo/descSPIM), descSPIM allows routine three-dimensional imaging of cleared samples in minutes. Thus, the dissemination of descSPIM will accelerate biomedical discoveries driven by tissue clearing technologies.
Release date
2025-11-28
Updated date
-
License
CC BY
Kind
Image data based on Experiment
Number of Datasets
20 ( Image datasets: 20, Quantitative data datasets: 0 )
Size of Datasets
348.6 GB ( Image datasets: 348.6 GB, Quantitative data datasets: 0 bytes )

Organism(s)
Homo sapiens, Mus musculus
Strain(s)
B6.Cg-Tg(Thy1-YFP)HJrs/J
Cell lines(s)
BT-474 cell

Datatype
-
Molecular Function (MF)
Biological Process (BP)
Cellular Component (CC)
nucleus, plasma membrane, cytoplasm
Biological Imaging Method
selective plane illumination microscopy (SPIM), fluorescence microscopy
T scale
-

Image Acquisition
Experiment type
-
Microscope type
-
Acquisition mode
-
Contrast method
-
Microscope model
-
Detector model
-
Objective model
-
Filter set
-

Related paper(s)

Kohei Otomo, Takaki Omura, Yuki Nozawa, Steven J Edwards, Yukihiko Sato, Yuri Saito, Shigehiro Yagishita, Hitoshi Uchida, Yuki Watakabe, Kiyotada Naitou, Rin Yanai, Naruhiko Sahara, Satoshi Takagi, Ryohei Katayama, Yusuke Iwata, Toshiro Shiokawa, Yoku Hayakawa, Kensuke Otsuka, Haruko Watanabe-Takano, Yuka Haneda, Shigetomo Fukuhara, Miku Fujiwara, Takenobu Nii, Chikara Meno, Naoki Takeshita, Kenta Yashiro, Juan Marcelo Rosales Rocabado, Masaru Kaku, Tatsuya Yamada, Yumiko Oishi, Hiroyuki Koike, Yinglan Cheng, Keisuke Sekine, Jun-Ichiro Koga, Kaori Sugiyama, Kenichi Kimura, Fuyuki Karube, Hyeree Kim, Ichiro Manabe, Tomomi Nemoto, Kazuki Tainaka, Akinobu Hamada, Hjalmar Brismar, Etsuo A Susaki (2024) descSPIM: an affordable and easy-to-build light-sheet microscope optimized for tissue clearing techniques., Nature communications, Volume 15, Number 1, pp. 4941

Published in 2024 Jun 12 (Electronic publication in June 12, 2024, midnight )

(Abstract) Despite widespread adoption of tissue clearing techniques in recent years, poor access to suitable light-sheet fluorescence microscopes remains a major obstacle for biomedical end-users. Here, we present descSPIM (desktop-equipped SPIM for cleared specimens), a low-cost ($20,000-50,000), low-expertise (one-day installation by a non-expert), yet practical do-it-yourself light-sheet microscope as a solution for this bottleneck. Even the most fundamental configuration of descSPIM enables multi-color imaging of whole mouse brains and a cancer cell line-derived xenograft tumor mass for the visualization of neurocircuitry, assessment of drug distribution, and pathological examination by false-colored hematoxylin and eosin staining in a three-dimensional manner. Academically open-sourced ( https://github.com/dbsb-juntendo/descSPIM ), descSPIM allows routine three-dimensional imaging of cleared samples in minutes. Thus, the dissemination of descSPIM will accelerate biomedical discoveries driven by tissue clearing technologies.
(MeSH Terms)

Contact
Etsuo A Susaki , Juntendo University , Department of Biochemistry and Systems Biomedicine , Department of Biochemistry and Systems Biomedicine
Contributors


Dataset List of 416-Otomo-descSPIM

#
Dataset ID
Kind
Size
4D View
SSBD:OMERO
Download BDML
Download Images
# 12939
Dataset Kind Image data
Dataset Size 16.4 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12940
Dataset Kind Image data
Dataset Size 16.4 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12941
Dataset Kind Image data
Dataset Size 16.4 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12942
Dataset Kind Image data
Dataset Size 16.4 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12943
Dataset Kind Image data
Dataset Size 16.4 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12944
Dataset Kind Image data
Dataset Size 16.4 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12945
Dataset Kind Image data
Dataset Size 16.4 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12946
Dataset Kind Image data
Dataset Size 16.4 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12947
Dataset Kind Image data
Dataset Size 42.3 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12948
Dataset Kind Image data
Dataset Size 16.8 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12949
Dataset Kind Image data
Dataset Size 16.8 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12950
Dataset Kind Image data
Dataset Size 16.8 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12951
Dataset Kind Image data
Dataset Size 16.8 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12952
Dataset Kind Image data
Dataset Size 16.8 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12953
Dataset Kind Image data
Dataset Size 16.8 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12954
Dataset Kind Image data
Dataset Size 16.8 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12955
Dataset Kind Image data
Dataset Size 16.9 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12956
Dataset Kind Image data
Dataset Size 16.8 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12957
Dataset Kind Image data
Dataset Size 16.8 GB
4D view
SSBD:OMERO
Download BDML
Download Image data

# 12958
Dataset Kind Image data
Dataset Size 6.5 GB
4D view
SSBD:OMERO
Download BDML
Download Image data