Collections / Spatial Transcriptomics Reveals Local Subtype-Specific Identity and Signaling within Multifocal Small Intestinal Neuroendocrine Tumors

Spatial Transcriptomics Reveals Local Subtype-Specific Identity and Signaling within Multifocal Small Intestinal Neuroendocrine Tumors

Small intestinal neuroendocrine tumors (SI-NETs) frequently present as multifocal lesions, but the spatial and molecular mechanisms underlying their development and heterogeneity remain unclear. This study aimed to characterize the phenotypic subtypes of tumor cells across anatomical sites in multifocal SI-NETs and identify local microenvironmental factors influencing tumor development.

Datasets8
Size~126 MB
AssayVisium
Samplehuman · small intestine
KindReplicates
PMID:41779010 ↗
Download the whole collection
Python · lamindb 
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse301265")
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
Open in Vitessce
Visium
Human small intestine
GSM9078982
human small intestine small intestine neuroendocrine neoplasm 12 MB 1,099 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuesmall intestine
Conditionsmall intestine neuroendocrine neoplasm
Size12 MB
Obs1,099
Magnificationother · 3.521 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human small intestine
GSM9078979
human small intestine small intestine neuroendocrine neoplasm 17 MB 1,177 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuesmall intestine
Conditionsmall intestine neuroendocrine neoplasm
Size17 MB
Obs1,177
Magnificationother · 3.571 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human small intestine
GSM9078984
human small intestine small intestine neuroendocrine neoplasm 16 MB 823 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuesmall intestine
Conditionsmall intestine neuroendocrine neoplasm
Size16 MB
Obs823
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human small intestine
GSM9078977
human small intestine small intestine neuroendocrine neoplasm 18 MB 979 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuesmall intestine
Conditionsmall intestine neuroendocrine neoplasm
Size18 MB
Obs979
Magnificationother · 3.527 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human small intestine
GSM9078980
human small intestine small intestine neuroendocrine neoplasm 18 MB 1,120 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuesmall intestine
Conditionsmall intestine neuroendocrine neoplasm
Size18 MB
Obs1,120
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human small intestine
GSM9078981
human small intestine small intestine neuroendocrine neoplasm 11 MB 1,110 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuesmall intestine
Conditionsmall intestine neuroendocrine neoplasm
Size11 MB
Obs1,110
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human small intestine
GSM9078978
human small intestine small intestine neuroendocrine neoplasm 16 MB 972 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuesmall intestine
Conditionsmall intestine neuroendocrine neoplasm
Size16 MB
Obs972
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human small intestine
GSM9078983
human small intestine small intestine neuroendocrine neoplasm 17 MB 1,015 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuesmall intestine
Conditionsmall intestine neuroendocrine neoplasm
Size17 MB
Obs1,015
bronze H&E Open in Vitessce

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