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Reconstruction
Full resolution image description
Coronal mice brain tissue stained with Fluoromyelin(green), DiI(red), and TO-PRO3(blue) which labels for myelin, blood vessels, and cells respectively
Downsampled image description
Downsized reconstruction volume with a resolution of 36 pixels/inch of a coronal mice brain tissue stained with Fluoromyelin(green), DiI(red), and TO-PRO3(blue) which labels for myelin, blood vessels, and cells respectively
File format
TIFF
Volume_dimension
8933, 10823, 1
Volume scale
0.62, 0.62, 5

Image 2D
Full resolution image description
Coronal mice brain tissue stained with Fluoromyelin(green), DiI(red), and TO-PRO3(blue) which labels for myelin, blood vessels, and cells respectively

License
Attribution Only: This image is licensed under a Creative Commons Attribution License. View License Deed | View Legal Code

CCDB:7294*  Cite 
Project: P2023
Project name
Whole Brain Catalog Project
Description
The Whole Brain Catalog™ is a ground-breaking, open-source, 3-D virtual environment developed by a team of researchers from UC San Diego under the Whole Brain Project™. The Catalog aims to connect members of the international neuroscience community to facilitate solutions for today's intractable challenges in brain research through cooperation and crowd sourcing. CCDB provides the backend services for very large scale image data sets on mouse brain derived from high resolution light and electron microscopy
Funding agency
Ted Waitt Family Foundation
Leader(s)
Mark Ellisman
Stephen Larson
Collaborator(s)
Sarah Maynard
Eric Bushong
Maryann Martone
Start date
08-05-2009
End date
unspecified
 
Experiment
Experiment ID
7281
Experiment date
10-01-2009
Title
Reconstruction of light level brain mosaics
Purpose
To reconstruct a three dimensional volume of brain slices using three different stains as reference points for reconstruction
Experimenter(s)
Eric Bushong
Monica Berlanga
Microscopy product
Microscopy product ID
7294
Instrument
Olympus Fluoview 1000
Microscopy type
LASER SCANNING CONFOCAL
Product type
MOSAIC
Image basename
3 stain_091409_T4
Spatial Axis Image Size Pixel Size
X 8932px 0.62 um/pixels
Y 11743px 0.62 um/pixels
Y 1px
Subject
Species
Mouse
Scientific name
Mus Musculus
Strain
Balb C mouse
Group by
Light Microscopy
Treatment
Phosphate buffer wash and then stained with fluoromyelin, hoescht, and diI
Age
2 months
Age class
Young Adult
Tissue section
Anatomical location
Bregma -1.70
Microtome
Vibratome
Tissue product storage
Gelvatol
Thickness
50 µm
Specimen description
Organ
brain
System
central nervous system
Tissue
mouse
Imaging parameters
Type
Light microscopy product
Immersion medium
oil
Mounting medium
gelvatol
Lens
FV1000
Notes
bphung
Specimen preparation
Protocol used
Perfuse animal with Ringer's solution for 2 minutes followed by DiI for 10 minutes, and then 2% paraformaldehyde for 10 minutes. Remove tissue and fix overnight. Then the tissue is further dissected.3 five minute washes with cold PBS 1XStain with Fluoromyelin 1:100 overnight in cold room3 five minute washes with cold PBS 1XStain with Neurotrace 1:100 and TO-PRO3 1:3000 for 45 minutes at room tempWash once with PBS 1XStain with Neurotrace 1:100 for 45 minutes at room temperature3 five minute washes with PBS 1XMount using Gelvatol