Collections / Orthotopic 4T1 tumors spatial transcriptomics

Orthotopic 4T1 tumors spatial transcriptomics

4T1 tumors, 4 weeks after implantation were excised and analyzed using the 10X Visium technology.

Datasets4
Size~183 MB
AssayVisium
Samplemouse · mammary gland
KindOther
PMID:40670787 ↗
Python · lamindb
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse230098")
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()}
Visium
Mouse mammary gland
GSM7186933
mouse mammary gland breast carcinoma 43 MB 4,392 obs silver H&E
TechnologyVisium
Organismmouse
Tissuemammary gland
Conditionbreast carcinoma
Size43 MB
Obs4,392
silver H&E
Open in Vitessce
Visium
Mouse mammary gland
GSM7186934
mouse mammary gland breast carcinoma 59 MB 4,185 obs silver H&E
TechnologyVisium
Organismmouse
Tissuemammary gland
Conditionbreast carcinoma
Size59 MB
Obs4,185
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse mammary gland
GSM7186935
mouse mammary gland breast carcinoma 39 MB 3,924 obs silver H&E
TechnologyVisium
Organismmouse
Tissuemammary gland
Conditionbreast carcinoma
Size39 MB
Obs3,924
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse mammary gland
GSM7186932
mouse mammary gland breast carcinoma 43 MB 3,787 obs silver H&E
TechnologyVisium
Organismmouse
Tissuemammary gland
Conditionbreast carcinoma
Size43 MB
Obs3,787
silver H&E Open in Vitessce

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