Collections / Effects of inhibiting stearoyl-CoA desaturase (SCD) on the spatial transcriptome in a mouse model of Alzheimer's disease (AD)

Effects of inhibiting stearoyl-CoA desaturase (SCD) on the spatial transcriptome in a mouse model of Alzheimer's disease (AD)

Here, the effects of a stearoyl-CoA desaturase inhibitor (SCDi) on the mouse brain spatial transcriptome was investigated. More precisely, wild-type and 3xTg-AD female mice were infused in the brain left lateral ventricle with control (DMSO) or SCDi during 28 days (after the implantation of electrodes for electrocorticography and electromyography). Brains were sampled on the morning of Day 31 after the beginning of treatment, and immediately frozen. Brains were treated and libraries were prepared according to 10x Genomics protocols for Visium Spatial Gene Expression. Sequencing was conducted by Genome Quebec (Montreal, QC, Canada).

Datasets4
Size~193 MB
AssayVisium
Samplemouse · brain
KindComparison
PMID:41539386 ↗
Download the whole collection
Python · lamindb 
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse275131")
coll.ordered_artifacts.df()                 # the 4 members, ordered

# download every member .zarr to the local cache:
paths = [a.cache() for a in coll.ordered_artifacts.all()]

# …or load each straight into memory as a SpatialData object:
sdatas = {a.key: sd.read_zarr(a.cache()) for a in coll.ordered_artifacts.all()}
Member datasets · 4
Open in Vitessce
Visium
Mouse brain
GSM8471251
mouse brain 44 MB 4,969 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size44 MB
Obs4,969
Magnificationother · 3.840 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
GSM8471249
mouse brain 49 MB 4,953 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size49 MB
Obs4,953
Magnificationother · 3.688 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
GSM8471252
mouse brain Alzheimer disease 53 MB 4,992 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuebrain
ConditionAlzheimer disease
Size53 MB
Obs4,992
Magnificationother · 3.966 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
GSM8471250
mouse brain Alzheimer disease 46 MB 4,984 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuebrain
ConditionAlzheimer disease
Size46 MB
Obs4,984
Magnificationother · 4.033 µm/px
bronze H&E Open in Vitessce

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