Collections / Spatial transcriptomics of human brain metastases

Spatial transcriptomics of human brain metastases

Spatial transcriptomics of six surgically-resected human brain metastasis samples

Datasets6
Size~113 MB
AssayVisium
Samplehuman · brain
KindReplicates
PMID:35584630 ↗
Python · lamindb
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse179572")
coll.ordered_artifacts.df()                 # the 6 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 brain
GSM5420753
human brain breast carcinoma 34 MB 4,342 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionbreast carcinoma
Size34 MB
Obs4,342
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
GSM5420749
human brain lung adenocarcinoma 14 MB 2,112 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionlung adenocarcinoma
Size14 MB
Obs2,112
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
GSM5420752
human brain clear cell renal carcinoma 12 MB 1,298 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionclear cell renal carcinoma
Size12 MB
Obs1,298
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
GSM5420754
human brain lung adenocarcinoma 20 MB 2,152 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionlung adenocarcinoma
Size20 MB
Obs2,152
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
GSM5420750
human brain melanoma 19 MB 1,716 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionmelanoma
Size19 MB
Obs1,716
silver H&E Open in Vitessce
Open in Vitessce
Visium
Human brain
GSM5420751
human brain lung adenocarcinoma 15 MB 946 obs silver H&E
TechnologyVisium
Organismhuman
Tissuebrain
Conditionlung adenocarcinoma
Size15 MB
Obs946
silver H&E Open in Vitessce

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