This repository is under review for potential modification in compliance with Administration directives.

Level 1 whole-brain confocal imaging

ace-bug-wit Creative Commons Attribution-ShareAlike 4.0 International (CC BY-SA 4.0) Brain Initiative Cell Census Network (BICCN)

Cite this dataset

Hong-Wei Dong. (2022). Level 1 whole-brain confocal imaging [Dataset/Microscopy]. Brain Image Library.

Abstract

Viral tracers are used to sparsely label connectionally-unique projection neurons to assess their morphological characteristics.  Following SHIELD-processing of 500-um thick sections, volumetric image stacks are acquired using a confocal microscope at 10x and 30x magnifications.

Contributors

Funding

Technical Information

Modality
connectivity
Technique
retrograde transynaptic tracing

Instrument

microscopetype Inverted Spinning Disk Confocal
microscopemanufacturerandmodel Andor Dragonfly 200
objectivename Olympus 10x UPlanApo
objectiveimmersion Air
objectivena 0.4
objectivemagnification 10x
detectortype
detectormodel
illuminationtypes
illuminationwavelength 405, 488, 561, 637
detectionwavelength
sampletemperature 27C

Specimen

localid SW220310-01
species mouse
ncbitaxonomy NCBI:txid10090
age 3.0
ageunit Months
sex Male
genotype C57BL6
organlocalid
organname Brain
samplelocalid SW220310-01
atlas AllenMousev1
locations
linkage []

Image

xaxis left-to-right
obliquexdim1
obliquexdim2
obliquexdim3
yaxis superior-to-inferior
obliqueydim1
obliqueydim2
obliqueydim3
zaxis anterior-to-posterior
obliquezdim1
obliquezdim2
obliquezdim3
landmarkname
landmarkx
landmarky
landmarkz
number 1,2,3,4,blue,green,red,far red
displaycolor (Red, green, blue)
representation
flurophore
stepsizex 0.603
stepsizey 0.603
stepsizez 2.0
stepsizet
channels 4.0
slices
z
xsize
ysize
zsize
gbytes
files
dimensionorder

Data

Visualization 27

Help with Visualization