Collections / Characterizing Neonatal Heart Maturation, Regeneration, and Scar Resolution Using Spatial Transcriptomics [spatial]

Characterizing Neonatal Heart Maturation, Regeneration, and Scar Resolution Using Spatial Transcriptomics [spatial]

We use spatial transcriptomics to establish regional transcriptional profile of neonatal heart tissue obtained at indicated timpoints after apical resection surgery.

Datasets4
Size~107 MB
AssayVisium
Samplemouse · heart
KindTime course
PMID:35050211 ↗
Python · lamindb
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse188888")
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()}
Open in Vitessce
Visium
Mouse heart
GSM5691527
mouse heart 27 MB 1,374 obs silver H&E
TechnologyVisium
Organismmouse
Tissueheart
Size27 MB
Obs1,374
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse heart
GSM5691526
mouse heart 16 MB 959 obs silver H&E
TechnologyVisium
Organismmouse
Tissueheart
Size16 MB
Obs959
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse heart
GSM5691528
mouse heart 35 MB 1,722 obs silver H&E
TechnologyVisium
Organismmouse
Tissueheart
Size35 MB
Obs1,722
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse heart
GSM5691529
mouse heart 29 MB 2,095 obs silver H&E
TechnologyVisium
Organismmouse
Tissueheart
Size29 MB
Obs2,095
silver H&E Open in Vitessce

Cite this collection

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