PXD039508-2

PXD039508 is an original dataset announced via ProteomeXchange.

Title	Single-cell division tracing and transcriptomics reveal cell types and differentiation paths in the regenerating lung
Description	Understanding the molecular and cellular processes involved in lung epithelial regeneration may fuel the development of therapeutic approaches for lung diseases. We combine mouse models allowing diphtheria toxin-mediated damage of specific epithelial cell types and parallel GFP-labeling of functionally dividing cells with single-cell transcriptomics to characterize the regeneration of the distal lung. We uncover cell types, including Krt13+ basal and Krt15+ club cells, detect an intermediate cell state between basal and goblet cells, reveal goblet cells as actively dividing progenitor cells, and provide evidence that adventitial fibroblasts act as supporting cells in epithelial regeneration. We also show that diphtheria toxin-expressing cells can persist in the lung, express specific inflammatory factors, and transcriptionally resemble a previously undescribed population in the lungs of COVID-19 patients. Our study provides a comprehensive single-cell atlas of the distal lung that characterizes early transcriptional and cellular responses to concise epithelial injury, encompassing proliferation, differentiation, and cell-to-cell interactions.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:24:03.093.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Claudia Scholl
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive HF-X

Revision	Datetime	Status	ChangeLog Entry
0	2023-01-17 01:14:25	ID requested
1	2024-01-19 08:12:30	announced
⏵ 2	2024-10-22 06:24:03	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: Mouse, Lung, Mesenchymal Cells, adventitial fibroblasts, alveolar fibroblasts

Claudia Scholl
contact affiliation	Division of Applied Functional Genomics, German Cancer Research Center (DKFZ), National Center for Tumor Diseases (NCT) Heidelberg, Heidelberg, Germany.
contact email	claudia.scholl@nct-heidelberg.de
lab head
Claudia Scholl
contact affiliation	German Cancer Research Center (DKFZ)
contact email	claudia.scholl@nct-heidelberg.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2024/01/PXD039508

PRIDE project URI

• PRIDE
  1. PXD039508
     1. Label: PRIDE project
     2. Name: Single-cell division tracing and transcriptomics reveal cell types and differentiation paths in the regenerating lung