Collections / Spatial transcriptomics reveals ovarian cancer subclones with different microenvironments
Spatial transcriptomics reveals ovarian cancer subclones with different microenvironments
8 spatial RNA-seq experiments (10x Genomics Visium) and 5 single-cell RNA-seq experiments (10x Genomics Chromium) using high-grade serous ovarian carcinoma (HGSOC) samples obtained from the ovaries during the interval debulking surgery
Datasets8
Size~238 MB
AssayVisium
Samplehuman · ovary
KindComparison
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Python · lamindb
import lamindb as ln
import spatialdata as sd
coll = ln.Collection.get(key="geo-gse211956")
coll.ordered_artifacts.df() # the 8 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 · 8
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