Visium Mouse descending colon
GSM7508783
mouse descending colon 10 MB 502 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuedescending colon
Obs502
Magnificationother · 4.637 µm/px
bronze H&E
Collections / Spatial Transcriptomic profiling of day2 wounds and intact tissues of Hgfac WT and KO mice
Spatial Transcriptomic profiling of day2 wounds and intact tissues of Hgfac WT and KO mice
Wound healing is orchestrated by a spatial and temporal network of intercellular communication between epithelial cells, the stromal compartment, and the immune system. Our scRNA-seq analysis of Hgfac WT and KO wounds reveals that Aldh1a3 is downstream of the HGFAC system and Aldh1a3 is highly upregulated in wound-asociated epithelial (WAE) cells in responce to endoscopic wounding, suggesting WAE cells can potentially secrete retinoic acid into wound bed. To dissect the healing responce in the intestinal mucosa, we peformed spatial transcriptomics analysis.
Datasets3
Size~34 MB
AssayVisium
Samplemouse · descending colon
KindComparison
Download the whole collection
Python · lamindb
import lamindb as ln
import spatialdata as sd
coll = ln.Collection.get(key="geo-gse235742")
coll.ordered_artifacts.df() # the 3 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 · 3
Visium 
Visium Mouse descending colon
GSM7508784
mouse descending colon 13 MB 640 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuedescending colon
Obs640
Magnificationother · 4.638 µm/px
bronze H&E
Visium Mouse descending colon
GSM7508785
mouse descending colon 11 MB 572 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuedescending colon
Obs572
Magnificationother · 4.641 µm/px
bronze H&E
Cite this collection
No linked publication found — please cite the data source.