PXD062477

PXD062477 is an original dataset announced via ProteomeXchange.

Title	A High-Resolution Proteomic Atlas of Extracellular Vesicles and Non-Vesicular Particles
Description	Extracellular vesicles (EVs) are key mediators of intercellular communication and promising biomarkers. However, their molecular characterization remains challenging due to the heterogeneity of EV subtypes and co-isolated nanoparticles. Here, leveraging protein correlation profiling along density gradients, we systematically analyze over 9,000 proteins in human cancer cell lines and biofluids, providing a rigorous reassessment of virtually all protein constituents associated with small EVs (sEVs) and non-vesicular entities. We reveal that sEVs primarily incorporate plasma membrane proteins via selective cargo-loading mechanisms, with minimal inclusion of intraluminal soluble proteins. In contrast, the abundant cytosolic proteins frequently detected in sEVs preparations are not encapsulated within sEVs but bound externally, resulting from extracellular contamination by cell debris and intracellular interactions with autophagic material. Our work provides a reference resource for understanding the biogenesis, molecular determinants of cargo selection and functional roles of sEVs.
HostingRepository	PRIDE
AnnounceDate	2025-12-30
AnnouncementXML	Submission_2025-12-30_04:35:01.548.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Javier Munoz
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2025-04-01 12:45:12	ID requested
⏵ 1	2025-12-30 04:35:02	announced

Dataset with its publication pending

ProteomeXchange project tag: EPIC-XS

submitter keyword: density gradient, proteomics,Extra-cellular vesicles, biofluids, cancer cells

Javier Munoz
contact affiliation	Head of Cell Signaling and Clinical Proteomics Group. IIS Biobizkaia. Ikerbasque.
contact email	javier.munozperalta@bio-bizkaia.eus
lab head
Javier Munoz
contact affiliation	IIS Biobizkaia - Ikerbasque
contact email	javier.munozperalta@bio-bizkaia.eus
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/2025/12/PXD062477

PRIDE project URI

• PRIDE
  1. PXD062477
     1. Label: PRIDE project
     2. Name: A High-Resolution Proteomic Atlas of Extracellular Vesicles and Non-Vesicular Particles