Collections / Fibroblast-Derived Thrombospondin 2 Shapes the Immune-Exclusionary Environment at Invasive Fronts in Colorectal Cancer [Visium

Fibroblast-Derived Thrombospondin 2 Shapes the Immune-Exclusionary Environment at Invasive Fronts in Colorectal Cancer [Visium

Fibrotic colorectal cancers (CRC) are characterized by immune exclusion driven by activated stroma, particularly by cancer-associated fibroblasts (CAFs). This study aims to describe characteristics of spatial immune landscape of CRCs, which are subtyped by transcriptomic signatures and microsatellite instability.

Datasets4
Size~124 MB
AssayVisium
Samplehuman · colorectum
KindOther
PMID:41276505 ↗
Download the whole collection
Python · lamindb 
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse285505")
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()}
Member datasets · 4
Open in Vitessce
Visium
Human colorectum
GSM8703566
human colorectum colorectal carcinoma 31 MB 3,415 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuecolorectum
Conditioncolorectal carcinoma
Size31 MB
Obs3,415
Magnificationother · 4.052 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human colorectum
GSM8703563
human colorectum colorectal carcinoma 36 MB 3,493 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuecolorectum
Conditioncolorectal carcinoma
Size36 MB
Obs3,493
Magnificationother · 4.054 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human colorectum
GSM8703565
human colorectum colorectal carcinoma 39 MB 3,563 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuecolorectum
Conditioncolorectal carcinoma
Size39 MB
Obs3,563
Magnificationother · 4.054 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human colorectum
GSM8703564
human colorectum colorectal carcinoma 18 MB 2,473 obs bronze H&E
TechnologyVisium
Organismhuman
Tissuecolorectum
Conditioncolorectal carcinoma
Size18 MB
Obs2,473
bronze H&E Open in Vitessce

Cite this collection

No linked publication found — please cite the data source.