Collections / Interleukin-34 induced Arg1+ macrophages play a key role in breast cancer brain metastasis

Interleukin-34 induced Arg1+ macrophages play a key role in breast cancer brain metastasis

We use 10x Genomics to perform the visium RNA sequencing on two tumor tissue, which showed cell type clusters and whole genome profiling in each cell clusters. Visium CytAssist Spatial Gene Expression kit was used for FFPE (Mouse Transcriptome, 6.5 mm, 4 rxns, PN-1000521,10x Genomics).

Datasets2
Size~147 MB
AssayVisium
Samplemouse · brain
KindOther
PMID:42166785 ↗
Python · lamindb
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse325996")
coll.ordered_artifacts.df()                 # the 2 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 brain
GSM9618494
mouse brain breast cancer 67 MB 3,406 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuebrain
Conditionbreast cancer
Size67 MB
Obs3,406
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
GSM9618495
mouse brain breast cancer 80 MB 4,017 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuebrain
Conditionbreast cancer
Size80 MB
Obs4,017
bronze H&E Open in Vitessce

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