Collections / Spatial RNA sequencing of bleomycin-treated young and old mice lungs at day 14 and day 28 post injection

Spatial RNA sequencing of bleomycin-treated young and old mice lungs at day 14 and day 28 post injection

We monitored lung fibrosis formation and resolution in young and old mice by generating a series of spatial transcriptomics datasets using the 10x Genomics Visium platform

Datasets8
Size~141 MB
AssayVisium
Samplemouse · lung
KindTime course
PMID:40769983 ↗
Python · lamindb
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse234198")
coll.ordered_artifacts.df()                 # the 8 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 lung
GSM7454047
mouse lung pulmonary fibrosis 7.0 MB 1,134 obs silver H&E
TechnologyVisium
Organismmouse
Tissuelung
Conditionpulmonary fibrosis
Size7.0 MB
Obs1,134
silver H&E Open in Vitessce
Visium
Mouse lung
GSM7454048
mouse lung pulmonary fibrosis 26 MB 2,383 obs silver H&E
TechnologyVisium
Organismmouse
Tissuelung
Conditionpulmonary fibrosis
Size26 MB
Obs2,383
silver H&E
Open in Vitessce
Visium
Mouse lung
GSM7454045
mouse lung pulmonary fibrosis 18 MB 1,734 obs silver H&E
TechnologyVisium
Organismmouse
Tissuelung
Conditionpulmonary fibrosis
Size18 MB
Obs1,734
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse lung
GSM7454043
mouse lung pulmonary fibrosis 8.8 MB 1,303 obs silver H&E
TechnologyVisium
Organismmouse
Tissuelung
Conditionpulmonary fibrosis
Size8.8 MB
Obs1,303
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse lung
GSM7454049
mouse lung pulmonary fibrosis 14 MB 1,449 obs silver H&E
TechnologyVisium
Organismmouse
Tissuelung
Conditionpulmonary fibrosis
Size14 MB
Obs1,449
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse lung
GSM7454046
mouse lung pulmonary fibrosis 25 MB 2,135 obs silver H&E
TechnologyVisium
Organismmouse
Tissuelung
Conditionpulmonary fibrosis
Size25 MB
Obs2,135
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse lung
GSM7454044
mouse lung pulmonary fibrosis 29 MB 2,400 obs silver H&E
TechnologyVisium
Organismmouse
Tissuelung
Conditionpulmonary fibrosis
Size29 MB
Obs2,400
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse lung
GSM7454042
mouse lung pulmonary fibrosis 13 MB 1,254 obs silver H&E
TechnologyVisium
Organismmouse
Tissuelung
Conditionpulmonary fibrosis
Size13 MB
Obs1,254
silver H&E Open in Vitessce

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