PXD060460

PXD060460 is an original dataset announced via ProteomeXchange.

Title	Newly-Diagnosed Rheumatoid Arthritis Patients have Elevated Levels of Plasma Extracellular Vesicles with Protein Cargo Altered Towards Inflammatory Processes
Description	Extracellular vesicles (EVs) are implicated in rheumatoid arthritis (RA) but have mainly been assessed in RA patients taking disease modifying anti-rheumatic drugs. EVs are nanoparticles important in cell-cell communication and their molecular cargo are biomarker candidates. We characterized the protein profiles of EVs from blood plasma from newly diagnosed, treatment naïve RA patients (N=32) and compared them to healthy controls (N=20), by size exclusion chromatography-based EV enrichment coupled with high-resolution quantitative proteomics. The RA patients had higher EV concentration and larger EVs than controls. A total of 682 EV proteins were reliably quantified, and the overall profiles were distinctly different between patients and controls. Specifically, 26 proteins were significantly upregulated and 31 downregulated in RA patients, with several proteins acting in inflammatory networks and with immunologically important upstream regulators. The RA associated EVs appear, based on the tissue expression of their cargo proteins, to originate mainly from hepatocytes or immune cells, like neutrophils. Interestingly, the strongest RA associated EV proteins were inflammatory molecules, like SAA1 and S100A9, already suggested as biomarkers in RA. Furthermore, the RA associated EV proteins were generally not correlated with total serum protein levels, stressing the importance of EV transport of inflammatory proteins in RA pathogenesis.
HostingRepository	PRIDE
AnnounceDate	2025-05-07
AnnouncementXML	Submission_2025-05-07_14:51:11.912.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Tuula Nyman
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF fleX

Revision	Datetime	Status	ChangeLog Entry
0	2025-02-04 06:14:56	ID requested
⏵ 1	2025-05-07 14:51:12	announced

Rydland A, Heinicke F, Nyman TA, Tr, ø, seid AS, Fl, å, m ST, Stensland M, Gehin J, Eikeland J, Ø, vsteb, ø R, Mjaavatten MD, Lie BA, Newly-diagnosed rheumatoid arthritis patients have elevated levels of plasma extracellular vesicles with protein cargo altered towards inflammatory processes. Sci Rep, 15(1):11632(2025) [pubmed]

10.1038/s41598-025-96325-8;

submitter keyword: Rheumatoid Arthritis, Extracellular Vesicle, quantitative proteomics

Tuula Nyman
contact affiliation	Head of Proteomics
contact email	tuula.nyman@medisin.uio.no
lab head
Tuula Nyman
contact affiliation	University of Oslo
contact email	tuula.nyman@medisin.uio.no
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD060460
     1. Label: PRIDE project
     2. Name: Newly-Diagnosed Rheumatoid Arthritis Patients have Elevated Levels of Plasma Extracellular Vesicles with Protein Cargo Altered Towards Inflammatory Processes