Collections / Spatial transcriptomics analysis identifies a unique tumor-promoting function of the meningeal stroma in melanoma leptomeningeal disease.

Spatial transcriptomics analysis identifies a unique tumor-promoting function of the meningeal stroma in melanoma leptomeningeal disease.

Leptomeningeal disease (LMD) remains a rapidly lethal complication for late-stage melanoma patients. The inaccessible nature of the disease site and lack of understanding of the biology of this unique metastatic site are major barriers to developing efficacious therapies for patients with melanoma LMD. This study aims to characterize the tumor microenvironment of the leptomeningeal tissues and patient-matched extra-cranial metastatic sites using spatial transcriptomic analyses.

Datasets9
Size~130 MB
AssayVisium
Samplehuman · multiple
KindReplicates
PMID:38866016 ↗
Download the whole collection
Python · lamindb 
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse250636")
coll.ordered_artifacts.df()                 # the 9 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 · 9
Open in Vitessce
Visium
Human skin of body
GSM7983359
human skin of body melanoma 20 MB 1,667 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueskin of body
Conditionmelanoma
Size20 MB
Obs1,667
Magnificationother · 3.303 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human leptomeninx
GSM7983360
human leptomeninx melanoma 25 MB 3,787 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueleptomeninx
Conditionmelanoma
Size25 MB
Obs3,787
Magnificationother · 3.343 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human skin of body
GSM7983365
human skin of body melanoma 17 MB 1,789 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueskin of body
Conditionmelanoma
Size17 MB
Obs1,789
Magnificationother · 3.339 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human skin of body
GSM7983366
human skin of body melanoma 17 MB 3,263 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueskin of body
Conditionmelanoma
Size17 MB
Obs3,263
Magnificationother · 3.590 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human leptomeninx
GSM7983361
human leptomeninx melanoma 18 MB 2,577 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueleptomeninx
Conditionmelanoma
Size18 MB
Obs2,577
Magnificationother · 3.540 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human skin of body
GSM7983364
human skin of body melanoma 9.2 MB 840 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueskin of body
Conditionmelanoma
Size9.2 MB
Obs840
Magnificationother · 3.351 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human leptomeninx
GSM7983363
human leptomeninx melanoma 7.6 MB 769 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueleptomeninx
Conditionmelanoma
Size7.6 MB
Obs769
Magnificationother · 3.347 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human leptomeninx
GSM7983358
human leptomeninx melanoma 8.0 MB 520 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueleptomeninx
Conditionmelanoma
Size8.0 MB
Obs520
Magnificationother · 3.349 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human leptomeninx
GSM7983362
human leptomeninx melanoma 9.0 MB 637 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueleptomeninx
Conditionmelanoma
Size9.0 MB
Obs637
bronze H&E Open in Vitessce

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