Visium Mouse colon
GSM5213483
mouse colon 45 MB 2,604 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuecolon
Obs2,604
Magnificationother · 4.063 µm/px
bronze H&E
Collections / 10X Visium Spatial transcriptomics of murine colon in steady state and during recovery after DSS colitis
10X Visium Spatial transcriptomics of murine colon in steady state and during recovery after DSS colitis
The limitation of single-cell or bulk transcriptomic profiling is the lack of spatial topographical context. Spatial transcriptomics (ST) allows sequencing of polyadenylated transcripts from a tissue section which can be spatially mapped onto the histological brightfield image using an array of barcoded oligo-dT capturing probes. Using the 10X Visium platform, here, we unbiasedly characterized the spatial transcriptomic landscape of murine colon in steady state and during mucosal healing upon dextran sodium sulfate (DSS) induced injury
Datasets2
Size~101 MB
AssayVisium
Samplemouse · colon
KindComparison
Download the whole collection
Python · lamindb
import lamindb as ln
import spatialdata as sd
coll = ln.Collection.get(key="geo-gse169749")
coll.ordered_artifacts.df() # the 2 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 · 2
Visium 
Visium Mouse colon
GSM5213484
mouse colon colitis 56 MB 3,630 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuecolon
Conditioncolitis
Obs3,630
Magnificationother · 3.672 µm/px
bronze H&E
Cite this collection
No linked publication found — please cite the data source.