PXD043807

PXD043807 is an original dataset announced via ProteomeXchange.

Title	Deep spatial proteomics reveals region-specific features of severe COVID-19-related pulmonary injury
Description	As a primary target of SARS-CoV-2, lung exhibits heterogeneous histopathological changes following infection. However, comprehensive insight into their protein basis with spatial resolution remains deficient, which hinders further understanding of COVID-19-related pulmonary injury. Here, we generated a region-resolved proteomic atlas of hallmark pathological pulmonary structures by integrating histological examination, laser microdissection, and ultrasensitive proteomics. Over 10,000 proteins were quantified across 71 post-mortem specimens. We identified a spectrum of pathway dysregulations in alveolar epithelium, bronchial epithelium, and blood vessels comparing with non-COVID-19 controls, providing evidence for transitional-state pneumocyte hyperplasia. Additionally, our data revealed the region-specific enrichment of functional markers in bronchiole mucus plug, pulmonary fibrosis, airspace inflammation, and alveolar type 2 cells, uncovering their distinctive features. Furthermore, we detected increased protein expression associated with viral entry and inflammatory response across multiple regions, suggesting potential therapeutic targets. Collectively, this study provides a unique perspective for deciphering COVID-19-caused pulmonary dysfunction by spatial proteomics.
HostingRepository	PRIDE
AnnounceDate	2024-01-24
AnnouncementXML	Submission_2024-01-23_20:41:02.953.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yiheng Mao
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2023-07-15 02:28:33	ID requested
⏵ 1	2024-01-23 20:41:03	announced

10.1016/J.CELREP.2024.113689;

submitter keyword: COVID-19, laser microdissection, pathology, lung, autopsy, spatial proteomics

Ruijun Tian
contact affiliation	Southern University of Science and Technology
contact email	tianrj@sustech.edu.cn
lab head
Yiheng Mao
contact affiliation	Southern University of Science and Technology
contact email	11849427@mail.sustech.edu.cn
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/PXD043807

PRIDE project URI

• PRIDE
  1. PXD043807
     1. Label: PRIDE project
     2. Name: Deep spatial proteomics reveals region-specific features of severe COVID-19-related pulmonary injury