Collections / Blocking the Gut–Liver IgA Axis Attenuates Macrophage-Mediated Inflammation and Injury in Alcohol-Associated Liver Disease [Spatial Transcriptomics]

Blocking the Gut–Liver IgA Axis Attenuates Macrophage-Mediated Inflammation and Injury in Alcohol-Associated Liver Disease [Spatial Transcriptomics]

We profiled spatial gene expression in mouse liver and intestine FFPE tissue sections using the 10x Genomics Visium Spatial Gene Expression for FFPE (v2, Mouse) platform. Samples included control and ethanol-fed groups with or without fingolimod (FTY720). Processed data include spatially resolved gene-by-spot count matrices generated by Space Ranger.

Datasets15
Size~475 MB
AssayVisium
Samplemouse · multiple
KindComparison
www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE320442 ↗
Download the whole collection
Python · lamindb 
import lamindb as ln
import spatialdata as sd

coll = ln.Collection.get(key="geo-gse320442")
coll.ordered_artifacts.df()                 # the 15 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 · 15
Open in Vitessce
Visium
Mouse liver
GSM9824771
mouse liver alcoholic liver diseases 31 MB 1,751 obs silver H&E
TechnologyVisium
Organismmouse
Tissueliver
Conditionalcoholic liver diseases
Size31 MB
Obs1,751
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM9824773
mouse liver alcoholic liver diseases 28 MB 1,813 obs silver H&E
TechnologyVisium
Organismmouse
Tissueliver
Conditionalcoholic liver diseases
Size28 MB
Obs1,813
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse intestine
GSM9824766
mouse intestine 46 MB 2,905 obs silver H&E
TechnologyVisium
Organismmouse
Tissueintestine
Size46 MB
Obs2,905
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM9824767
mouse liver 29 MB 1,744 obs silver H&E
TechnologyVisium
Organismmouse
Tissueliver
Size29 MB
Obs1,744
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM9824774
mouse liver alcoholic liver diseases 30 MB 1,669 obs silver H&E
TechnologyVisium
Organismmouse
Tissueliver
Conditionalcoholic liver diseases
Size30 MB
Obs1,669
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM9543401
mouse liver alcoholic liver diseases 24 MB 1,646 obs silver H&E
TechnologyVisium
Organismmouse
Tissueliver
Conditionalcoholic liver diseases
Size24 MB
Obs1,646
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM9543399
mouse liver alcoholic liver diseases 28 MB 1,989 obs silver H&E
TechnologyVisium
Organismmouse
Tissueliver
Conditionalcoholic liver diseases
Size28 MB
Obs1,989
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM9543397
mouse liver 31 MB 2,214 obs silver H&E
TechnologyVisium
Organismmouse
Tissueliver
Size31 MB
Obs2,214
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM9824770
mouse liver alcoholic liver diseases 31 MB 2,048 obs silver H&E
TechnologyVisium
Organismmouse
Tissueliver
Conditionalcoholic liver diseases
Size31 MB
Obs2,048
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse intestine
GSM9824772
mouse intestine 42 MB 2,708 obs silver H&E
TechnologyVisium
Organismmouse
Tissueintestine
Size42 MB
Obs2,708
silver H&E Open in Vitessce
Visium
Mouse liver
GSM9824768
mouse liver 28 MB 1,762 obs silver H&E
TechnologyVisium
Organismmouse
Tissueliver
Size28 MB
Obs1,762
silver H&E
Open in Vitessce
Visium
Mouse intestine
GSM9543398
mouse intestine 35 MB 2,489 obs silver H&E
TechnologyVisium
Organismmouse
Tissueintestine
Size35 MB
Obs2,489
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse intestine
GSM9543396
mouse intestine 31 MB 2,098 obs silver H&E
TechnologyVisium
Organismmouse
Tissueintestine
Size31 MB
Obs2,098
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse intestine
GSM9543400
mouse intestine 28 MB 2,307 obs silver H&E
TechnologyVisium
Organismmouse
Tissueintestine
Size28 MB
Obs2,307
silver H&E Open in Vitessce
Open in Vitessce
Visium
Mouse intestine
GSM9824769
mouse intestine 34 MB 2,161 obs silver H&E
TechnologyVisium
Organismmouse
Tissueintestine
Size34 MB
Obs2,161
silver H&E Open in Vitessce

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