Collections / Spatial transcriptomics (Visium, 10x Genomics) data of Duchenne mouse models

Spatial transcriptomics (Visium, 10x Genomics) data of Duchenne mouse models

Quadricep sections of 10µm thick were placed on Visium spatial transcriptomics slide to obtain spatial datasets for these skeletal muscle sections

Datasets4
Size~48 MB
AssayVisium
Samplemouse · quadriceps femoris
KindComparison
PMID:37582915 ↗
Python · lamindb
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse199659")
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 quadriceps femoris
GSM5979973
mouse quadriceps femoris 12 MB 1,426 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuequadriceps femoris
Size12 MB
Obs1,426
Magnificationother · 3.621 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse quadriceps femoris
GSM5979974
mouse quadriceps femoris Duchenne muscular dystrophy 13 MB 1,884 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuequadriceps femoris
ConditionDuchenne muscular dystrophy
Size13 MB
Obs1,884
Magnificationother · 3.626 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse quadriceps femoris
GSM5979975
mouse quadriceps femoris Duchenne muscular dystrophy 9.1 MB 1,370 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuequadriceps femoris
ConditionDuchenne muscular dystrophy
Size9.1 MB
Obs1,370
Magnificationother · 3.623 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse quadriceps femoris
GSM5979972
mouse quadriceps femoris 14 MB 2,348 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuequadriceps femoris
Size14 MB
Obs2,348
Magnificationother · 3.684 µm/px
bronze H&E Open in Vitessce

Cite this collection

No linked publication found — please cite the data source.