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416-Otomo-descSPIM/Fig3_brain_3Drender thumbnail

416-Otomo-descSPIM/Fig3_brain_3Drender

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3D-rendered descSPIM image of Thy1-YFP-H mouse brain stained with propidium iodide
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Project
416-Otomo-descSPIM
Dataset ID
Fig3_brain_3Drender
Kind
Image data
Title
3D-rendered descSPIM image of Thy1-YFP-H mouse brain stained with propidium iodide
Description
Z-series images of Thy1-YFP-H mouse brain stained with propidium iodide, which were obtained with descSPIM, the desktop- equipped SPIM (selective plane illumination microscopy). This dataset is processed and combined data of other 8 datasets in this project.
Folder Name
Fig3_brain_3Drender
File Format
-
File Size
45.5GB
File Separation Method
-
Figure Number
Fig3
Dimensions
3862x5791x1016x2x1
X Scale
3.5 micrometer
Y Scale
3.5 micrometer
Z Scale
10 micrometer
T Scale
-
Channel
2 channel
Quantitative Data
-
Paper(s)

Biosample

Description
Thy1-YFP-H mouse brain fixed, cleared, and stained with propidium iodide
Organism
Mus musculus (NCBITaxon:10090)
Strain
-
Cell
neuron (CL:0000540)
Cell line
-
MeSH
Neurons (D009474)
Microscopy, Fluorescence (D008856)
Brain (D001921)
Cell Nucleus (D002467)
Cytoplasm (D003593)
Intrinsic Variable
Thy1-YFP-H transgenic mouse
Extrinsic Variable
-

Ontology

Anatomical Entity
-
UBERON
brain (UBERON:0000955)
Biological Process
-
Cellular Component
nucleus (GO:0005634)
cytoplasm (GO:0005737)
Molecular Function
-
MeSH Anatomy
Neurons (D009474)
Microscopy, Fluorescence (D008856)
Brain (D001921)
Cell Nucleus (D002467)
Cytoplasm (D003593)
MeSH BP
Neurons (D009474)
Microscopy, Fluorescence (D008856)
Brain (D001921)
Cell Nucleus (D002467)
Cytoplasm (D003593)
MeSH CC
Neurons (D009474)
Microscopy, Fluorescence (D008856)
Brain (D001921)
Cell Nucleus (D002467)
Cytoplasm (D003593)
MeSH MF
Neurons (D009474)
Microscopy, Fluorescence (D008856)
Brain (D001921)
Cell Nucleus (D002467)
Cytoplasm (D003593)

Genetics

Gene
-
Protein / Probe
-
Method / Genotype
transgenic / B6.Cg-Tg(Thy1-YFP)HJrs/J
Gene
-
Protein / Probe
-propidium iodide
Method / Genotype
-

Treatments

Reagent / Compound
-
Concentration
-
Fold Dilution
-

Imaging Method

Imaging Method
fluorescence microscopy (FBbi:00000246)
selective plane illumination microscopy (SPIM)
Detection Method
-
Visualization Method
propidium iodide, YFP
Illumination Method
light-sheet illumination
Source of Contrast
distribution of a specific protein、 differences in adsorption or binding of stain
Imaged Parameter
fluorescence emission
Sample Preparation Method
fixation method
MeSH
Neurons (D009474)
Microscopy, Fluorescence (D008856)
Brain (D001921)
Cell Nucleus (D002467)
Cytoplasm (D003593)

Instrument

Body
custom made
Module
-
Light Source
Cobolt Skyra 488 nm and 561 nm
Detector
Thorlabs CMOS camera CS895MU
Objective
Thorlabs TL2X-SAP (NA = 0.1, WD= 56.3mm)
Filter Set
Thorlabs, FBH520-40 and FBH600-40
Dichroic
-