Collections / Spatial transcriptome analysis defines heme as a hemopexin-targetable inflammatoxin in the brain

Spatial transcriptome analysis defines heme as a hemopexin-targetable inflammatoxin in the brain

After intracranial hemorrhages, heme is released from cell-free hemoglobin. This red blood cell toxin may drive secondary brain injury at the hematoma-brain interface. This study aimed to generate a spatially resolved map of the transcriptome-wide gene expression changes in the heme-exposed brain and define the potential therapeutic activity of the heme-binding protein hemopexin.

Datasets7
Size~278 MB
AssayVisium
Samplemouse · brain
KindComparison
PMID:34793930 ↗
Download the whole collection
Python · lamindb 
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse182127")
coll.ordered_artifacts.df()                 # the 7 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 · 7
Open in Vitessce
Visium
Mouse brain
GSM5519056
mouse brain 39 MB 2,597 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size39 MB
Obs2,597
Magnificationother · 3.792 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
GSM5519058
mouse brain 39 MB 2,694 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size39 MB
Obs2,694
Magnificationother · 4.252 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
GSM5519054
mouse brain 38 MB 2,679 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size38 MB
Obs2,679
Magnificationother · 4.229 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
GSM5519060
mouse brain 43 MB 2,780 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size43 MB
Obs2,780
Magnificationother · 3.794 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
GSM5519057
mouse brain 38 MB 2,427 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size38 MB
Obs2,427
Magnificationother · 4.429 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
GSM5519055
mouse brain 42 MB 2,936 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size42 MB
Obs2,936
Magnificationother · 4.219 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Mouse brain
GSM5519059
mouse brain 39 MB 2,953 obs bronze H&E
TechnologyVisium
Organismmouse
Tissuebrain
Size39 MB
Obs2,953
Magnificationother · 4.220 µm/px
bronze H&E Open in Vitessce

Cite this collection

No linked publication found — please cite the data source.