Collections / Spatial transcriptomics on treatment-naïve pancreatic ductal adenocarcinoma (PDAC) patients
Spatial transcriptomics on treatment-naïve pancreatic ductal adenocarcinoma (PDAC) patients
To investigate the spatial distribution of different cell types within the tumor microenvironment in PDAC, we performed Visium spatial transcriptomics (10X Genomics) on FFPE samples from five treatment-naïve PDAC patient tissues.
Datasets5
Size~233 MB
AssayVisium
Samplehuman · pancreas
KindOther
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Python · lamindb
import lamindb as ln
import spatialdata as sd
coll = ln.Collection.get(key="geo-gse274103")
coll.ordered_artifacts.df() # the 5 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 · 5
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