PXD039058

PXD039058 is an original dataset announced via ProteomeXchange.

Title	Proteomic characteristics and diagnostic potential of exhaled breath particles in patients with COVID-19
Description	Background SARS-CoV-2 has been shown to predominantly infect the airways and the respiratory tract and too often have an unpredictable and different pathologic pattern compared to other respiratory diseases. Current clinical diagnostical tools in pulmonary medicine expose patients to harmful radiation, are too unspecific or even invasive. Proteomic analysis of exhaled breath particles (EBPs) in contrast, are non-invasive, sample directly from the pathological source and presents as a novel explorative and diagnostical tool. Methods Patients with PCR-verified COVID-19 infection (COV-POS, n=20), and patients with COVID-19 symptoms but with >2 negative polymerase chain reaction (PCR) tests (COV-NEG, n=16) and healthy controls (HCO, n=12) were prospectively recruited. EBPs were collected using a “particles in exhaled air” (PExA 2.0) device. Particle per exhaled volume (PEV) and size distribution profiles were compared. Proteins were analyzed using liquid chromatography-mass spectrometry. A random forest machine learning classification model was then trained and validated on EBP data achieving an accuracy of 0.92. Results Significant increases in PEV and changes in size distribution profiles of EBPs was seen in COV-POS and COV-NEG compared to healthy controls. We achieved a deep proteome profiling of EBP across the three groups with proteins involved in immune activation, acute phase response, cell adhesion, blood coagulation, and known components of the respiratory tract lining fluid, among others. We demonstrated promising results for the use of an integrated EBP biomarker panel together with particle concentration for diagnosis of COVID-19 as well as a robust method for protein identification in EBPs Conclusion Our results demonstrate the promising potential for the use of EBP fingerprints in biomarker discovery and for diagnosing pulmonary diseases, rapidly and non-invasively with minimal patient discomfort.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:47:28.102.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Gabriel Hirdman
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	timsTOF Pro 2

Revision	Datetime	Status	ChangeLog Entry
0	2022-12-22 02:23:34	ID requested
1	2023-05-10 14:14:05	announced
⏵ 2	2023-11-14 08:47:30	announced	2023-11-14: Updated project metadata.

Hirdman G, Bod, é, n E, Kjellstr, ö, m S, Fraenkel CJ, Olm F, Hallgren O, Lindstedt S, Proteomic characteristics and diagnostic potential of exhaled breath particles in patients with COVID-19. Clin Proteomics, 20(1):13(2023) [pubmed]

ProteomeXchange project tag: Sars-cov-2, Covid-19

submitter keyword: Human, Exhaled breath particles, Lung, COVID-19

Sandra Lindstedt
contact affiliation	Lund Univeristy
contact email	sandra.lindstedt@med.lu.se
lab head
Gabriel Hirdman
contact affiliation	Lund University
contact email	gabriel.hirdman@med.lu.se
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/2023/05/PXD039058

PRIDE project URI

• PRIDE
  1. PXD039058
     1. Label: PRIDE project
     2. Name: Proteomic characteristics and diagnostic potential of exhaled breath particles in patients with COVID-19