Collections / Mid-Lobular Hepatocytes Exhibit Transient Proliferation Pause and Stress Response through Atf4-Ddit3 axis in Early Acute Liver Injury (10x Visium)

Mid-Lobular Hepatocytes Exhibit Transient Proliferation Pause and Stress Response through Atf4-Ddit3 axis in Early Acute Liver Injury (10x Visium)

Liver zonation remains a critical aspect of understanding its response to acute injury. This study investigates the impact of acetaminophen-induced acute liver injury on zonal heterogeneity during early phases of injury. Through Ki67 staining, we observed a transient pause in proliferation specifically among mid-lobular hepatocytes during the initiation phase. Using spatial transcriptomics, immunostaining, and in vivo assays, we elucidated that mid-lobular hepatocytes upregulate the Atf4-Ddit3 axis, offering temporary protection at the cost of reduced proliferation mediated by Btg2. Our findings underscore the unique zonal metabolism of acetaminophen as a determinant of differential tissue responses across lobular regions. This study highlights how distinct liver zones exhibit varied responses during the early stages of acute injury, with mid-lobular hepatocytes showing an integrated stress response characterized by protective mechanisms that temporarily suppress proliferation.

Datasets4
Size~85.4 MB
AssayVisium
Samplemouse · liver
KindOther
Flag a data issue
www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE272564 ↗
Python · sddb client
from sddb import Catalog

cohort = Catalog().collection("geo-gse272564")
cohort.members        # the 4 datasets as a table

print(cohort.licenses())              # check the terms before you download

sdatas = cohort.to_dict()             # {uid: SpatialData}, cached locally
# or keep the .zarr files in a folder of your choice:
# sdatas = cohort.to_dict(dest="data/")
Python · lamindb

Needs pip install lamindb and network access to the Lamin database, which is limited during the alpha. If it fails, use the Client tab.

import lamindb as ln

db = ln.DB("scverse/spatialdata-db")
coll = db.Collection.get(key="geo-gse272564")
coll.ordered_artifacts.to_dataframe()   # the 4 members, ordered

# download every member .zarr to the local cache:
paths = [a.cache() for a in coll.ordered_artifacts.all()]
Shell
# sddb client: download every member .zarr into data/
sddb-cli download --collection geo-gse272564 --dest data/

Licenses: 4 NCBI GEO policy

Open in Vitessce
Visium
Mouse liver
GSM8404656
mouse liver drug-induced liver injury 26.6 MB 1,655 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissueliver
Conditiondrug-induced liver injury
Size26.6 MB
Spots1,655
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM8404654
mouse liver drug-induced liver injury 19.6 MB 1,723 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissueliver
Conditiondrug-induced liver injury
Size19.6 MB
Spots1,723
Magnificationother · 3.502 µm/px
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM8404653
mouse liver drug-induced liver injury 22.0 MB 1,483 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissueliver
Conditiondrug-induced liver injury
Size22.0 MB
Spots1,483
silver H&E NCBI GEO policy Open in Vitessce
Open in Vitessce
Visium
Mouse liver
GSM8404655
mouse liver drug-induced liver injury 17.2 MB 1,585 spots silver H&E NCBI GEO policy
TechnologyVisium
Organismmouse
Tissueliver
Conditiondrug-induced liver injury
Size17.2 MB
Spots1,585
silver H&E NCBI GEO policy Open in Vitessce

Cite this collection

No linked publication found — please cite the data source.