Subcortical Spatial Transcriptomic Atlas of the Adult Rhesus Macaque: QM23.50.001.CX.46

ace-dud-was Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0) Brain Initiative Cell Atlas Network (BICAN)

Cite this dataset

Allen Institute, Lein, Ed, Zeng, Hongkui, Lein, Ed, Seeman, Stephanie, Hodge, Rebecca, McMillen, Delissa, Martin, Naomi, Valera Cuevas, Nasmil, Olsen, Paul, Campos, Jazmin, VanNess, Marshall, Nagra, Josh. (2024). Subcortical Spatial Transcriptomic Atlas of the Adult Rhesus Macaque: QM23.50.001.CX.46 [Dataset/Microscopy]. Brain Image Library.

Abstract

MERSCOPE imaging of 10µm sections of core basal ganglia regions (i.e., caudate nucleus, putamen, substantia nigra, and nucleus accumbens) of fresh-frozen macaca mulatta brain slabs. Individual sections are spaced at 1mm intervals through five consecutive tissue slabs covering ~24mm of anterior to posterior extent. Regions of interest present in the sections include the core basal ganglia structures as well as thalamus and portions of the hippocampal formation.

Contributors

Allen Institute ResearchGroup
Lein, Ed ORCID Allen Institute for Brain Science ProjectLeader
Zeng, Hongkui ORCID Allen Institute for Brain Science ProjectLeader
Lein, Ed ORCID Allen Institute for Brain Science ContactPerson
Seeman, Stephanie ORCID Allen Institute for Brain Science Researcher
Hodge, Rebecca ORCID Allen Institute for Brain Science Researcher
Waters, Jack ORCID Allen Institute for Brain Science Other
McMillen, Delissa ORCID Allen Institute for Brain Science DataCollector
Kruse, Lauren ORCID Allen Institute for Brain Science ProjectManager
Martin, Naomi ORCID Allen Institute for Brain Science DataCollector
Valera Cuevas, Nasmil ORCID Allen Institute for Brain Science DataCollector
Olsen, Paul ORCID Allen Institute for Brain Science DataCollector
Campos, Jazmin ORCID Allen Institute for Brain Science DataCollector
VanNess, Marshall ORCID Allen Institute for Brain Science DataCollector
Nagra, Josh ORCID Allen Institute for Brain Science DataCollector

Funding

National Institutes of Health 1-UM1-MH130981-01 Functionally guided adult whole brain cell atlas in human and NHP

Technical Information

Modality

spatial transcriptomics

Technique

MERFISH

Instrument

microscopetype	Epifluorescent
microscopemanufacturerandmodel	Vizgen MERSCOPE
objectivename
objectiveimmersion	Oil
objectivena
objectivemagnification	63x
detectortype
detectormodel
illuminationtypes
illuminationwavelength
detectionwavelength
sampletemperature

Specimen

localid	QM23.50.001
species	Rhesus Macaque
ncbitaxonomy	NCBI:txid9544
age	10.0
ageunit	Years
sex	Male
genotype
organlocalid	QM23.50.001.CX
organname	Brain
samplelocalid	QM23.50.001.CX.46
atlas
locations	Subcortex
linkage	[]

Image

xaxis	left-to-right
obliquexdim1
obliquexdim2
obliquexdim3
yaxis	left-to-right
obliqueydim1
obliqueydim2
obliqueydim3
zaxis	anterior-to-posterior
obliquezdim1
obliquezdim2
obliquezdim3
landmarkname
landmarkx
landmarky
landmarkz
number	NA
displaycolor	NA
representation
flurophore	DAPI, PolyT
stepsizex	0.108
stepsizey	0.108
stepsizez	1.5
stepsizet
channels	3.0
slices	7.0
z	1.0
xsize
ysize
zsize
gbytes
files
dimensionorder

Data

Analysis Ecosystem path

/bil/data/18/aa/18aa91680201e328/QM23.50.001.CX.46

Download

https://download.brainimagelibrary.org/18/aa/18aa91680201e328/QM23.50.001.CX.46

Metadata

https://api.brainimagelibrary.org/retrieve?bildid=ace-dud-was