Collections / Spatial transcriptome analysis for squamous cell carcinoma arising from mature teratoma

Spatial transcriptome analysis for squamous cell carcinoma arising from mature teratoma

Squamous cell carcinoma arising from mature teratoma (SCC-MT) is one of the rare ovarian malignancies. Therefore, the molecular background of SCC-MT remains largely unelucidated. In this study, we performed the spatial transcriptomics for SCC-MT.

Datasets4
Size~98 MB
AssayVisium
Samplehuman · ovary
KindReplicates
PMID:39948701 ↗
Python · lamindb
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse272833")
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
Human ovary
GSM8413264
human ovary ovarian squamous cell carcinoma 32 MB 2,750 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueovary
Conditionovarian squamous cell carcinoma
Size32 MB
Obs2,750
Magnificationother · 4.046 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human ovary
GSM8413262
human ovary ovarian squamous cell carcinoma 22 MB 869 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueovary
Conditionovarian squamous cell carcinoma
Size22 MB
Obs869
Magnificationother · 3.619 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human ovary
GSM8413261
human ovary ovarian squamous cell carcinoma 13 MB 476 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueovary
Conditionovarian squamous cell carcinoma
Size13 MB
Obs476
Magnificationother · 3.621 µm/px
bronze H&E Open in Vitessce
Visium
Human ovary
GSM8413263
human ovary ovarian squamous cell carcinoma 32 MB 2,597 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueovary
Conditionovarian squamous cell carcinoma
Size32 MB
Obs2,597
bronze H&E

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