Collections / Integration of spatial and single cell transcriptomics localizes epithelial-immune cross-talk in kidney injury

Integration of spatial and single cell transcriptomics localizes epithelial-immune cross-talk in kidney injury

Datasets3
Size~716 MB
AssayVisium
Samplemouse · kidney
KindComparison
Python · lamindb
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="hest-integration-of-spatial-and-single-cell-transcriptomics-localizes-epithelial-immune-cross-talk-in-kidney-injury")
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()}
Open in Vitessce
Visium
Mouse kidney
NCBI597
mouse kidney ischemia reperfusion injury 234 MB 2,064 obs silver H&E
TechnologyVisium
Organismmouse
Tissuekidney
Conditionischemia reperfusion injury
Size234 MB
Obs2,064
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse kidney
NCBI598
mouse kidney 242 MB 1,835 obs silver H&E
TechnologyVisium
Organismmouse
Tissuekidney
Size242 MB
Obs1,835
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse kidney
NCBI596
mouse kidney bacterial infectious disease with sepsis 241 MB 1,888 obs silver H&E
TechnologyVisium
Organismmouse
Tissuekidney
Conditionbacterial infectious disease with sepsis
Size241 MB
Obs1,888
silver H&E Open in Vitessce