PXD074950

PXD074950 is an original dataset announced via ProteomeXchange.

Title	Proteomic profiling of plasma-derived extracellular vesicles using Mag-Net for biomarker discovery in pancreatic ductal adenocarcinoma
Description	Pancreatic ductal adenocarcinoma (PDAC) is a highly aggressive cancer, with a five-year survival rate of less than 10%. In South Africa, PDAC was the seventh leading cause of cancer deaths among men and the sixth among women in 2020. Approximately 85% of patients are diagnosed at an advanced stage, highlighting the urgent need for ongoing research to identify reliable biomarkers that could improve clinical outcomes. Circulating proteins are present not only as soluble molecules but also encapsulated within extracellular vesicles (EVs), which protect and transport biologically active cargo in plasma. This study compared the plasma proteomes of patients with PDAC with those of patients with benign biliary pathologies (BBP) and healthy controls (HC). We employed Mag-Net, a magnetic bead-based method that combines the enrichment of membrane-bound vesicles with the depletion of high-abundance plasma proteins. On average, 2,339 protein groups were identified across all sample groups. Comparative analyses revealed both unique and overlapping dysregulated proteins among the PDAC, BBP, and HC cohorts. PDAC was characterised by coordinated extracellular matrix (ECM) remodelling, chronic immune-inflammatory activation, and metabolic disruption, particularly affecting lipid homeostasis. This molecular profile was marked by elevated ECM-associated and matricellular proteins (such as THBS2, TGFBI, MFAP4, ANPEP, and ITIH4) alongside increased inflammatory mediators (including ORM1, C1QC, CTSS, SPP1, FBLN2, LTBP2, SDC1, HP, SAA1, PTX3, and LRG1). This overlap suggests that dynamic ECM remodelling within the tumour microenvironment is mirrored systemically by the release or shedding of matrix-associated proteins into the circulation. Notably, LRG1 demonstrated the strongest association with disease severity and clustered with acute-phase proteins, complement components, and pancreatic injury markers, supporting its role within an inflammation-stromal remodelling network characteristic of aggressive PDAC. Collectively, these findings demonstrate that plasma proteomics provides valuable discriminatory and severity-related information. While several candidate proteins show promise for inclusion in multi-analyte panels, further validation in larger, independent cohorts is necessary to establish their diagnostic and translational utility for early detection, risk stratification, and improved differential diagnosis of PDAC.
HostingRepository	PRIDE
AnnounceDate	2026-08-06
AnnouncementXML	Submission_2026-08-06_01:21:23.008.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Rethabile Mokoena
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2026-02-26 11:42:03	ID requested
⏵ 1	2026-08-06 01:21:23	announced

Buthelezi S, Elebo N, Naicker P, Mokoena R, Dubazana S, Govender I, Mamputha S, Ellero A, Stoychev S, Mazibuko J, Ojo D, Candy G, Devar J, Cacciatore S, Omoshoro-Jones J, Nweke EE, Proteomic Profiling of Extracellular Vesicle-Enriched Plasma Using Mag-Net for Biomarker Discovery in Pancreatic Ductal Adenocarcinoma. J Proteome Res, 25(8):4120-4131(2026) [pubmed]

10.1021/acs.jproteome.6c00172;

submitter keyword: Pancreatic ductal adenocarcinoma (PDAC)

biomarker

plasma

extracellular vesicles

Mag-Net

proteomics

Rethabile Mokoena
contact affiliation	Prteomics Facility, Council of Scientific and Industrial Research (CSIR), Pretoria, South Africa
contact email	rmokoena1@csir.co.za
lab head
Rethabile Mokoena
contact affiliation	Council of Scientific and Industrial Research (CSIR)
contact email	rmokoena1@csir.co.za
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/2026/08/PXD074950

PRIDE project URI

• PRIDE
  1. PXD074950
     1. Label: PRIDE project
     2. Name: Proteomic profiling of plasma-derived extracellular vesicles using Mag-Net for biomarker discovery in pancreatic ductal adenocarcinoma