Collections / Spatial transcriptomical analysis of livers from patients with COVID19

Spatial transcriptomical analysis of livers from patients with COVID19

In this study, we stained liver tissues from COVID-19 cases with abnormal liver functions, and found viral proteins were detectable from dead or severe cases, but not from moderate patients. We then conducted spatial transcriptomics to analyze effects of SARS-COV-2 on livers.

Datasets3
Size~135 MB
AssayVisium
Samplehuman · liver
KindComparison
PMID:39709771 ↗
Python · lamindb
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse279405")
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
Human liver
GSM8569297
human liver COVID-19 21 MB 4,991 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueliver
ConditionCOVID-19
Size21 MB
Obs4,991
Magnificationother · 6.722 µm/px
bronze H&E Open in Vitessce
Open in Vitessce
Visium
Human liver
GSM8569295
human liver COVID-19 101 MB 4,992 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueliver
ConditionCOVID-19
Size101 MB
Obs4,992
Magnificationother · 5.492 µm/px
bronze H&E Open in Vitessce
Visium
Human liver
GSM8569296
human liver COVID-19 12 MB 4,778 obs bronze H&E
TechnologyVisium
Organismhuman
Tissueliver
ConditionCOVID-19
Size12 MB
Obs4,778
bronze H&E

Cite this collection

No linked publication found — please cite the data source.