Post-viral flu lung regeneration

Terren K. Niethamer1, Joseph D. Planer1, Michael P. Morley1, Apoorva Babu2, Maria C. Basil1, Edward Cantu2, David B. Frank3, Joshua M. Diamond1, Ana N. Nottingham2, Shanru Li1, Lillian I. Levin1, Su Zhou1, Edward E. Morrisey1
1Perelman School of Medicine, University of Pennsylvania, 2Penn-Children’s Hospital of Philadelphia Lung Biology Institute, 3Children’s Hospital of Philadelphia, *Corresponding author
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Description The temporal sequencing of mouse lung regeneration after acute viral injury using single-cell RNA-Seq. These data demonstrate that regeneration is asynchronously phased across different cellular compartments. This longitudinal atlas of regeneration has produced a catalogue of new cell states that reflect transient and persistent transcriptional alterations in daughter cells as they transit across axes of differentiation. These new cell states include an injury-induced capillary endothelial cell (iCAP) that arises after injury, persists indefinitely, and shares transcriptional hallmarks with both developing lung endothelium and the endothelial aberrations found in degenerative human lung diseases. This comprehensive atlas of lung regeneration provides a foundational resource to understand the complexity of the cellular and molecular responses to injury, reveals the critical importance of capillary endothelium in maintaining and rebuilding the alveolar niche after injury, and correlates these responses to those found in development and human lung diseases.
Dataset ID LMEX0000004402
Assay Type Single-cell RNA-seq
Organism Mouse
Stages P4-P36
Cell Count 123154
Technology 10x Genomics Chromium Single Cell Gene Expression
Reference Niethamer, et al. (2025)
External databases GEO: GSE262927
FileDescriptionSize
Mm-Flu-timecourse-adata_compressed.h5adHDF5 annotated format single-cell data matrix1.6G
LungMAP IDAlt IDSpeciesSexAgeAge Group
LMSPFLU0000002EEM-scRNA-113Mus musculusfemaleadultP4-P36
LMSPFLU0000004EEM-scRNA-116Mus musculusmaleadultP4-P36
LMSPFLU0000008EEM-scRNA-117Mus musculusmaleadultP4-P36
LMSPFLU0000005EEM-scRNA-118Mus musculusmaleadultP4-P36
LMSPFLU0000003EEM-scRNA-124Mus musculusfemaleadultP4-P36
LMSPFLU0000001EEM-scRNA-125Mus musculusmaleadultP4-P36
LMSPFLU0000007EEM-scRNA-126Mus musculusmaleadultP4-P36
LMSPFLU0000006EEM-scRNA-127Mus musculusmaleadultP4-P36
LMSPFLU0000009EEM-scRNA-158Mus musculusfemaleadultP4-P36
LMSPFLU0000010EEM-scRNA-162Mus musculusmaleadultP4-P36
LMSPFLU0000018EEM-scRNA-166Mus musculusfemaleadultP4-P36
LMSPFLU0000014EEM-scRNA-167Mus musculusmaleadultP4-P36
LMSPFLU0000016EEM-scRNA-170Mus musculusfemaleadultP4-P36
LMSPFLU0000015EEM-scRNA-172Mus musculusfemaleadultP4-P36
LMSPFLU0000012EEM-scRNA-179Mus musculusmaleadultP4-P36
LMSPFLU0000011EEM-scRNA-180Mus musculusfemaleadultP4-P36
LMSPFLU0000013EEM-scRNA-181Mus musculusfemaleadultP4-P36
LMSPFLU0000017EEM-scRNA-182Mus musculusmaleadultP4-P36
LMSPFLU0000025EEM-scRNA-236Mus musculusmaleadultP4-P36
LMSPFLU0000023EEM-scRNA-237Mus musculusmaleadultP4-P36
LMSPFLU0000020EEM-scRNA-238Mus musculusmaleadultP4-P36
LMSPFLU0000022EEM-scRNA-239Mus musculusmaleadultP4-P36
LMSPFLU0000019EEM-scRNA-310Mus musculusmaleadultP4-P36
LMSPFLU0000021EEM-scRNA-311Mus musculusfemaleadultP4-P36
LMSPFLU0000024EEM-scRNA-312Mus musculusfemaleadultP4-P36