Collections / 10X Visium Spatial transcriptomics of murine small intestine 6 and 14 days post Heligmosomoides polygyrus infection with or without LXR agonist GW3965

10X Visium Spatial transcriptomics of murine small intestine 6 and 14 days post Heligmosomoides polygyrus infection with or without LXR agonist GW3965

In this dataset, we investigate the murine proximal small intestine spatial transcriptomic profile at the day 6 and day 14 post Heligmosomoides polygyrus infection and compare the genes alteration with and without LXR activation by sythetic ligand GW3965 diet.

Datasets4
Size~81 MB
AssayVisium
Samplemouse · small intestine
KindComparison
www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE266136 ↗
Python · lamindb
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse266136")
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()}
Open in Vitessce
Visium
Mouse small intestine
GSM8241316
mouse small intestine 24 MB 3,831 obs silver H&E
TechnologyVisium
Organismmouse
Tissuesmall intestine
Size24 MB
Obs3,831
Magnificationother · 3.507 µm/px
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse small intestine
GSM8241319
mouse small intestine 11 MB 3,478 obs silver H&E
TechnologyVisium
Organismmouse
Tissuesmall intestine
Size11 MB
Obs3,478
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse small intestine
GSM8241317
mouse small intestine 33 MB 4,679 obs silver H&E
TechnologyVisium
Organismmouse
Tissuesmall intestine
Size33 MB
Obs4,679
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse small intestine
GSM8241318
mouse small intestine 13 MB 4,346 obs silver H&E
TechnologyVisium
Organismmouse
Tissuesmall intestine
Size13 MB
Obs4,346
silver H&E Open in Vitessce

Cite this collection

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